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Conserved domains on  [gi|6323389|ref|NP_013461|]
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Rsc2p [Saccharomyces cerevisiae S288C]

Protein Classification

bromodomain-containing protein( domain architecture ID 11564917)

bromodomain-containing protein may act as transcription regulator involved in chromatin-based DNA damage response (DDR) pathways, which maintain genome integrity from cell-intrinsic and extrinsic DNA-damaging sources

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 123-503 2.10e-104

Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription];


:

Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 327.92  E-value: 2.10e-104
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  123 EKYPQLVYPDLGPLPDEPgYEEFQQKLREKAEEVA-RANAARAESSSSMNSTEAARRLRKTRTSVKRESEPGTDTNNDED 201
Cdd:COG5076   1 LEFDEVSYSQLGRPSVLK-EEFGNELLRLVDNDSSpFPNAPEEEGSKNLFQKQLKRMPKEYITSIVDDREPGSMANVNDD 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  202 YEATDMDIDNPKDADFPDLIRKPLININPYTR-KPLRDNRSTTPSHSGTPQplgprhrqvsrtqVKRGRPPIIDLPYIQR 280
Cdd:COG5076  80 LENVGGITYSPFEKNRPESLRFDEIVFLAIESvTPESGLGSLLMAHLKTSV-------------KKRKTPKIEDELLYAD 146

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  281 MKNVMKVLKKEVLDSGIGLTDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRISHRG 360
Cdd:COG5076 147 NKAIAKFKKQLFLRDGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLYNGP 226

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  361 DPESIKISNILEKTFTSLAR-FELSKPDRSFIPEGELRYPLDEVIVNNISYHVGDWALLRNQNDPQKPIVGQIFRLWKTP 439
Cdd:COG5076 227 DSSVYVDAKELEKYFLKLIEeIPEEMLELSIKPGREEREERESVLITNSQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDL 306

                       330       340       350       360       370       380
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 6323389  440 DGKQWLNACWYYRPEQTVHRVDRLFYKNEVMKTGQYRDHLVSNLVGKCYVIHFTRYQRGNPDMK 503
Cdd:COG5076 307 STKELKLRNNYYRPEETFVRDAKLFFDNCVMYNGEVTDYYKNANVLEDFVIKKTRLIREYPKLI 370
Bromo_Rsc1_2_I cd05521
Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 17-121 7.83e-59

Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


:

Pssm-ID: 99952  Cd Length: 106  Bit Score: 196.00  E-value: 7.83e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   17 LYKDLRKEYESLFTLKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIPHYTDAQQFMNDVVQIPWNAKTYN 96
Cdd:cd05521   2 LSKKLKPLYDGIYTLKEENGIEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTVKKRLPHYTNAQEFVNDLAQIPWNARLYN 81

                        90       100
                ....*....|....*....|....*
gi 6323389   97 TRDSGIYKYALVLEKYLKDTIYPNL 121
Cdd:cd05521  82 TKGSVIYKYALILEKYINDVIIPNL 106
 
Name Accession Description Interval E-value
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 123-503 2.10e-104

Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 327.92  E-value: 2.10e-104
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  123 EKYPQLVYPDLGPLPDEPgYEEFQQKLREKAEEVA-RANAARAESSSSMNSTEAARRLRKTRTSVKRESEPGTDTNNDED 201
Cdd:COG5076   1 LEFDEVSYSQLGRPSVLK-EEFGNELLRLVDNDSSpFPNAPEEEGSKNLFQKQLKRMPKEYITSIVDDREPGSMANVNDD 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  202 YEATDMDIDNPKDADFPDLIRKPLININPYTR-KPLRDNRSTTPSHSGTPQplgprhrqvsrtqVKRGRPPIIDLPYIQR 280
Cdd:COG5076  80 LENVGGITYSPFEKNRPESLRFDEIVFLAIESvTPESGLGSLLMAHLKTSV-------------KKRKTPKIEDELLYAD 146

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  281 MKNVMKVLKKEVLDSGIGLTDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRISHRG 360
Cdd:COG5076 147 NKAIAKFKKQLFLRDGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLYNGP 226

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  361 DPESIKISNILEKTFTSLAR-FELSKPDRSFIPEGELRYPLDEVIVNNISYHVGDWALLRNQNDPQKPIVGQIFRLWKTP 439
Cdd:COG5076 227 DSSVYVDAKELEKYFLKLIEeIPEEMLELSIKPGREEREERESVLITNSQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDL 306

                       330       340       350       360       370       380
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 6323389  440 DGKQWLNACWYYRPEQTVHRVDRLFYKNEVMKTGQYRDHLVSNLVGKCYVIHFTRYQRGNPDMK 503
Cdd:COG5076 307 STKELKLRNNYYRPEETFVRDAKLFFDNCVMYNGEVTDYYKNANVLEDFVIKKTRLIREYPKLI 370
BAH_polybromo cd04717
BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human ...
 407-527 7.20e-59

BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional regulation. Saccharomyces cerevisiae RSC1 and RSC2 are part of the 15-subunit nucleosome remodeling RSC complex. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.


Pssm-ID: 240068  Cd Length: 121  Bit Score: 196.65  E-value: 7.20e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  407 NISYHVGDWALLRNQNDPQKPIVGQIFRLWKTPDGKQWLNACWYYRPEQTVHRVDRLFYKNEVMKTGQYRDHLVSNLVGK 486
Cdd:cd04717   1 GLQYRVGDCVYVANPEDPSKPIIFRIERLWKDEDGEKFFFGCWFYRPEETFHEPTRKFYKNEVFKSPLYETVPVEEIVGK 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 6323389  487 CYVIHFTRYQRGNPDMKLEGPLFVCEFRYNESDKIFNKIRT 527
Cdd:cd04717  81 CAVMDVKDYIKGRPTEISEEDVYVCESRYNESAKSFKKIKT 121
Bromo_Rsc1_2_I cd05521
Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 17-121 7.83e-59

Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99952  Cd Length: 106  Bit Score: 196.00  E-value: 7.83e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   17 LYKDLRKEYESLFTLKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIPHYTDAQQFMNDVVQIPWNAKTYN 96
Cdd:cd05521   2 LSKKLKPLYDGIYTLKEENGIEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTVKKRLPHYTNAQEFVNDLAQIPWNARLYN 81

                        90       100
                ....*....|....*....|....*
gi 6323389   97 TRDSGIYKYALVLEKYLKDTIYPNL 121
Cdd:cd05521  82 TKGSVIYKYALILEKYINDVIIPNL 106
BAH pfam01426
BAH domain; This domain has been called BAH (Bromo adjacent homology) domain and has also been ...
 408-526 1.50e-40

BAH domain; This domain has been called BAH (Bromo adjacent homology) domain and has also been called ELM1 and BAM (Bromo adjacent motif) domain. The function of this domain is unknown but may be involved in protein-protein interaction.


Pssm-ID: 460207  Cd Length: 120  Bit Score: 145.14  E-value: 1.50e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389    408 ISYHVGDWALLRNQNDPQKPIVGQIFRLWKTPD-GKQWLNACWYYRPEQTVHRVDRLFYKNEVMKTGQYRDHLVSNLVGK 486
Cdd:pfam01426   1 ETYSVGDFVLVEPDDADEPYYVARIEELFEDTKnGKKMVRVQWFYRPEETVHRAGKAFNKDELFLSDEEDDVPLSAIIGK 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 6323389    487 CYVIHFTRYQRGNPDMKLEGPLFVCEFRYNESDKIFNKIR 526
Cdd:pfam01426  81 CSVLHKSDLESLDPYKIKEPDDFFCELLYDPKTKSFKKLP 120
BAH smart00439
Bromo adjacent homology domain;
410-526 1.88e-29

Bromo adjacent homology domain;


Pssm-ID: 214664 [Multi-domain]  Cd Length: 121  Bit Score: 113.54  E-value: 1.88e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389     410 YHVGDWALLRNQNDPQKPIVGQIFRLWKTPDGKQ--WLNACWYYRPEQTVHRVDRLFYKNEVMKTGQYRDHLVSNLVGKC 487
Cdd:smart00439   2 ISVGDFVLVEPDDADEPYYIGRIEEIFETKKNSEskMVRVRWFYRPEETVLEKAALFDKNEVFLSDEYDTVPLSDIIGKC 81

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|
gi 6323389     488 YVIHFTRYQRGNPDMKLEGP-LFVCEFRYNESDKIFNKIR 526
Cdd:smart00439  82 NVLYKSDYPGLRPEGSIGEPdVFFCESAYDPEKGSFKKLP 121
BROMO smart00297
bromo domain;
16-117 3.51e-25

bromo domain;


Pssm-ID: 197636 [Multi-domain]  Cd Length: 107  Bit Score: 100.82  E-value: 3.51e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389      16 ALYKDLRKEYESLFTLKEDSglEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAK 93
Cdd:smart00297   3 KLQKKLQELLKAVLDKLDSH--PLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLEngKYSSVEEFVADFNLMFSNAR 80

                           90       100
                   ....*....|....*....|....
gi 6323389      94 TYNTRDSGIYKYALVLEKYLKDTI 117
Cdd:smart00297  81 TYNGPDSEVYKDAKKLEKFFEKKL 104
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 38-106 2.91e-12

Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 425683 [Multi-domain]  Cd Length: 84  Bit Score: 63.10  E-value: 2.91e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 6323389     38 EISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRI--PHYTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYA 106
Cdd:pfam00439  12 PIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLenGEYKSLAEFLADVKLIFSNARTYNGPGSVIYKAA 82
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 17-117 1.79e-11

Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 66.75  E-value: 1.79e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   17 LYKDLRKEYESLFTLKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIPH--YTDAQQFMNDVVQIPWNAKT 94
Cdd:COG5076 143 LYADNKAIAKFKKQLFLRDGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNgrYKSFEEFVSDLNLMFDNCKL 222

                        90       100
                ....*....|....*....|...
gi 6323389   95 YNTRDSGIYKYALVLEKYLKDTI 117
Cdd:COG5076 223 YNGPDSSVYVDAKELEKYFLKLI 245
 
Name Accession Description Interval E-value
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 123-503 2.10e-104

Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 327.92  E-value: 2.10e-104
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  123 EKYPQLVYPDLGPLPDEPgYEEFQQKLREKAEEVA-RANAARAESSSSMNSTEAARRLRKTRTSVKRESEPGTDTNNDED 201
Cdd:COG5076   1 LEFDEVSYSQLGRPSVLK-EEFGNELLRLVDNDSSpFPNAPEEEGSKNLFQKQLKRMPKEYITSIVDDREPGSMANVNDD 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  202 YEATDMDIDNPKDADFPDLIRKPLININPYTR-KPLRDNRSTTPSHSGTPQplgprhrqvsrtqVKRGRPPIIDLPYIQR 280
Cdd:COG5076  80 LENVGGITYSPFEKNRPESLRFDEIVFLAIESvTPESGLGSLLMAHLKTSV-------------KKRKTPKIEDELLYAD 146

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  281 MKNVMKVLKKEVLDSGIGLTDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRISHRG 360
Cdd:COG5076 147 NKAIAKFKKQLFLRDGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNCKLYNGP 226

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  361 DPESIKISNILEKTFTSLAR-FELSKPDRSFIPEGELRYPLDEVIVNNISYHVGDWALLRNQNDPQKPIVGQIFRLWKTP 439
Cdd:COG5076 227 DSSVYVDAKELEKYFLKLIEeIPEEMLELSIKPGREEREERESVLITNSQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDL 306

                       330       340       350       360       370       380
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 6323389  440 DGKQWLNACWYYRPEQTVHRVDRLFYKNEVMKTGQYRDHLVSNLVGKCYVIHFTRYQRGNPDMK 503
Cdd:COG5076 307 STKELKLRNNYYRPEETFVRDAKLFFDNCVMYNGEVTDYYKNANVLEDFVIKKTRLIREYPKLI 370
BAH_polybromo cd04717
BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human ...
 407-527 7.20e-59

BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional regulation. Saccharomyces cerevisiae RSC1 and RSC2 are part of the 15-subunit nucleosome remodeling RSC complex. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.


Pssm-ID: 240068  Cd Length: 121  Bit Score: 196.65  E-value: 7.20e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  407 NISYHVGDWALLRNQNDPQKPIVGQIFRLWKTPDGKQWLNACWYYRPEQTVHRVDRLFYKNEVMKTGQYRDHLVSNLVGK 486
Cdd:cd04717   1 GLQYRVGDCVYVANPEDPSKPIIFRIERLWKDEDGEKFFFGCWFYRPEETFHEPTRKFYKNEVFKSPLYETVPVEEIVGK 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 6323389  487 CYVIHFTRYQRGNPDMKLEGPLFVCEFRYNESDKIFNKIRT 527
Cdd:cd04717  81 CAVMDVKDYIKGRPTEISEEDVYVCESRYNESAKSFKKIKT 121
Bromo_Rsc1_2_I cd05521
Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 17-121 7.83e-59

Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99952  Cd Length: 106  Bit Score: 196.00  E-value: 7.83e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   17 LYKDLRKEYESLFTLKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIPHYTDAQQFMNDVVQIPWNAKTYN 96
Cdd:cd05521   2 LSKKLKPLYDGIYTLKEENGIEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTVKKRLPHYTNAQEFVNDLAQIPWNARLYN 81

                        90       100
                ....*....|....*....|....*
gi 6323389   97 TRDSGIYKYALVLEKYLKDTIYPNL 121
Cdd:cd05521  82 TKGSVIYKYALILEKYINDVIIPNL 106
Bromo_Rsc1_2_II cd05522
Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 276-379 7.65e-46

Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99953 [Multi-domain]  Cd Length: 104  Bit Score: 159.33  E-value: 7.65e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  276 PYIQRMKNVMKVLKKEVLDSGIGLTDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFR 355
Cdd:cd05522   1 PYEARIKNILKGLRKERDENGRLLTLHFEKLPDKAREPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAK 80

                        90       100
                ....*....|....*....|....
gi 6323389  356 ISHRGDPESIKISNILEKTFTSLA 379
Cdd:cd05522  81 LYNENDSQEYKDAVLLEKEARLLA 104
BAH pfam01426
BAH domain; This domain has been called BAH (Bromo adjacent homology) domain and has also been ...
 408-526 1.50e-40

BAH domain; This domain has been called BAH (Bromo adjacent homology) domain and has also been called ELM1 and BAM (Bromo adjacent motif) domain. The function of this domain is unknown but may be involved in protein-protein interaction.


Pssm-ID: 460207  Cd Length: 120  Bit Score: 145.14  E-value: 1.50e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389    408 ISYHVGDWALLRNQNDPQKPIVGQIFRLWKTPD-GKQWLNACWYYRPEQTVHRVDRLFYKNEVMKTGQYRDHLVSNLVGK 486
Cdd:pfam01426   1 ETYSVGDFVLVEPDDADEPYYVARIEELFEDTKnGKKMVRVQWFYRPEETVHRAGKAFNKDELFLSDEEDDVPLSAIIGK 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 6323389    487 CYVIHFTRYQRGNPDMKLEGPLFVCEFRYNESDKIFNKIR 526
Cdd:pfam01426  81 CSVLHKSDLESLDPYKIKEPDDFFCELLYDPKTKSFKKLP 120
BAH smart00439
Bromo adjacent homology domain;
410-526 1.88e-29

Bromo adjacent homology domain;


Pssm-ID: 214664 [Multi-domain]  Cd Length: 121  Bit Score: 113.54  E-value: 1.88e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389     410 YHVGDWALLRNQNDPQKPIVGQIFRLWKTPDGKQ--WLNACWYYRPEQTVHRVDRLFYKNEVMKTGQYRDHLVSNLVGKC 487
Cdd:smart00439   2 ISVGDFVLVEPDDADEPYYIGRIEEIFETKKNSEskMVRVRWFYRPEETVLEKAALFDKNEVFLSDEYDTVPLSDIIGKC 81

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|
gi 6323389     488 YVIHFTRYQRGNPDMKLEGP-LFVCEFRYNESDKIFNKIR 526
Cdd:smart00439  82 NVLYKSDYPGLRPEGSIGEPdVFFCESAYDPEKGSFKKLP 121
BROMO smart00297
bromo domain;
16-117 3.51e-25

bromo domain;


Pssm-ID: 197636 [Multi-domain]  Cd Length: 107  Bit Score: 100.82  E-value: 3.51e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389      16 ALYKDLRKEYESLFTLKEDSglEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAK 93
Cdd:smart00297   3 KLQKKLQELLKAVLDKLDSH--PLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLEngKYSSVEEFVADFNLMFSNAR 80

                           90       100
                   ....*....|....*....|....
gi 6323389      94 TYNTRDSGIYKYALVLEKYLKDTI 117
Cdd:smart00297  81 TYNGPDSEVYKDAKKLEKFFEKKL 104
Bromodomain cd04369
Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear ...
 17-117 5.14e-23

Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.


Pssm-ID: 99922 [Multi-domain]  Cd Length: 99  Bit Score: 94.36  E-value: 5.14e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   17 LYKDLRKEYESLFTLKEDsgleISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAKT 94
Cdd:cd04369   1 LKKKLRSLLDALKKLKRD----LSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKngEYKSLEEFEADVRLIFSNAKT 76

                        90       100
                ....*....|....*....|...
gi 6323389   95 YNTRDSGIYKYALVLEKYLKDTI 117
Cdd:cd04369  77 YNGPGSPIYKDAKKLEKLFEKLL 99
BROMO smart00297
bromo domain;
274-380 4.30e-22

bromo domain;


Pssm-ID: 197636 [Multi-domain]  Cd Length: 107  Bit Score: 91.96  E-value: 4.30e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389     274 DLPYIQRMKNVMKVLKKEVLDSGigLTDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTN 353
Cdd:smart00297   1 DPKLQKKLQELLKAVLDKLDSHP--LSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSN 78

                           90       100
                   ....*....|....*....|....*..
gi 6323389     354 FRISHRGDPESIKISNILEKTFTSLAR 380
Cdd:smart00297  79 ARTYNGPDSEVYKDAKKLEKFFEKKLR 105
Bromo_SNF2 cd05519
Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in ...
 25-117 1.24e-20

Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in transcriptional activation, it is the catalytic component of the SWI/SNF ATP-dependent chromatin remodeling complex. The protein is essential for the regulation of gene expression (both positive and negative) of a large number of genes. The SWI/SNF complex changes chromatin structure by altering DNA-histone contacts within the nucleosome, which results in a re-positioning of the nucleosome and facilitates or represses the binding of gene-specific transcription factors. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99950  Cd Length: 103  Bit Score: 87.40  E-value: 1.24e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   25 YESLFTLKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAKTYNTRDSGI 102
Cdd:cd05519   9 YDAVLNCEDETGRKLSELFLEKPSKKLYPDYYVIIKRPIALDQIKRRIEgrAYKSLEEFLEDFHLMFANARTYNQEGSIV 88

                        90
                ....*....|....*
gi 6323389  103 YKYALVLEKYLKDTI 117
Cdd:cd05519  89 YEDAVEMEKAFKKKY 103
Bromo_polybromo_V cd05515
Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which ...
 21-113 8.07e-17

Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99946  Cd Length: 105  Bit Score: 76.57  E-value: 8.07e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   21 LRKEYESLFTLKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAKTYNTR 98
Cdd:cd05515   5 LWELYNAVKNYTDGRGRRLSLIFMRLPSKSEYPDYYDVIKKPIDMEKIRSKIEgnQYQSLDDMVSDFVLMFDNACKYNEP 84

                        90
                ....*....|....*
gi 6323389   99 DSGIYKYALVLEKYL 113
Cdd:cd05515  85 DSQIYKDALTLQKVL 99
Bromodomain cd04369
Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear ...
 277-378 8.58e-16

Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.


Pssm-ID: 99922 [Multi-domain]  Cd Length: 99  Bit Score: 73.56  E-value: 8.58e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  277 YIQRMKNVMKVLKKEVLDSGigltDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRI 356
Cdd:cd04369   1 LKKKLRSLLDALKKLKRDLS----EPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEADVRLIFSNAKT 76

                        90       100
                ....*....|....*....|..
gi 6323389  357 SHRGDPESIKISNILEKTFTSL 378
Cdd:cd04369  77 YNGPGSPIYKDAKKLEKLFEKL 98
Bromo_polybromo_IV cd05518
Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which ...
 25-115 5.05e-15

Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99949 [Multi-domain]  Cd Length: 103  Bit Score: 71.71  E-value: 5.05e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   25 YESLFTLKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRI--PHYTDAQQFMNDVVQIPWNAKTYNTRDSGI 102
Cdd:cd05518   9 FLYVLEYREGSGRRLCDLFMEKPSKKDYPDYYKIILEPIDLKTIEHNIrnDKYATEEELMDDFKLMFRNARHYNEEGSQV 88

                        90
                ....*....|...
gi 6323389  103 YKYALVLEKYLKD 115
Cdd:cd05518  89 YEDANILEKVLKE 101
Bromo_SNF2L2 cd05516
Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI ...
 17-114 2.81e-14

Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 2 is a global transcriptional activator, which cooperates with nuclear hormone receptors to boost transcriptional activation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99947  Cd Length: 107  Bit Score: 69.76  E-value: 2.81e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   17 LYKDLRKEYESLFTLKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIPH--YTDAQQFMNDVVQIPWNAKT 94
Cdd:cd05516   2 LTKKMNKIVDVVIKYKDSDGRQLAEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNhkYRSLEDLEKDVMLLCQNAQT 81

                        90       100
                ....*....|....*....|
gi 6323389   95 YNTRDSGIYKYALVLEKYLK 114
Cdd:cd05516  82 FNLEGSLIYEDSIVLQSVFK 101
Bromo_Rsc1_2_II cd05522
Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 16-115 3.04e-14

Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99953 [Multi-domain]  Cd Length: 104  Bit Score: 69.19  E-value: 3.04e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   16 ALYKDLRKEyeslftlKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAK 93
Cdd:cd05522   8 NILKGLRKE-------RDENGRLLTLHFEKLPDKAREPEYYQEISNPISLDDIKKKVKrrKYKSFDQFLNDLNLMFENAK 80

                        90       100
                ....*....|....*....|..
gi 6323389   94 TYNTRDSGIYKYALVLEKYLKD 115
Cdd:cd05522  81 LYNENDSQEYKDAVLLEKEARL 102
Bromo_SNF2 cd05519
Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in ...
 281-356 4.57e-14

Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in transcriptional activation, it is the catalytic component of the SWI/SNF ATP-dependent chromatin remodeling complex. The protein is essential for the regulation of gene expression (both positive and negative) of a large number of genes. The SWI/SNF complex changes chromatin structure by altering DNA-histone contacts within the nucleosome, which results in a re-positioning of the nucleosome and facilitates or represses the binding of gene-specific transcription factors. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99950  Cd Length: 103  Bit Score: 68.91  E-value: 4.57e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  281 MKNVMKVLKKEVL----DSGIGLTDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRI 356
Cdd:cd05519   1 LKAAMLEIYDAVLncedETGRKLSELFLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKSLEEFLEDFHLMFANART 80
Bromo_gcn5_like cd05509
Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates ...
 49-114 3.65e-13

Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates acetylation of histones at lysine residues; such acetylation is generally correlated with the activation of transcription. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99941 [Multi-domain]  Cd Length: 101  Bit Score: 66.04  E-value: 3.65e-13
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 6323389   49 KKDYPDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYALVLEKYLK 114
Cdd:cd05509  28 KEEAPDYYDVIKKPMDLSTMEEKLEngYYVTLEEFVADLKLIFDNCRLYNGPDTEYYKCANKLEKFFW 95
BAH cd04370
BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). ...
 407-525 6.07e-13

BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.


Pssm-ID: 239835 [Multi-domain]  Cd Length: 123  Bit Score: 66.26  E-value: 6.07e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  407 NISYHVGDWALLRNQN--DPQKPIVGQIFRLWKTPDGKQWLNACWYYRPEQTVHRVDRLFYKNEVMKTGQYRDHLVSNLV 484
Cdd:cd04370   1 GITYEVGDSVYVEPDDsiKSDPPYIARIEELWEDTNGSKQVKVRWFYRPEETPKGLSPFALRRELFLSDHLDEIPVESII 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|..
gi 6323389  485 GKCYVIHFTRYQRG-NPDMKLEGPLFVCEFRYNESDKIFNKI 525
Cdd:cd04370  81 GKCKVLFVSEFEGLkQRPNKIDTDDFFCRLAYDPTTKEFKAL 122
Bromo_polybromo_II cd05517
Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which ...
 21-111 1.83e-12

Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99948  Cd Length: 103  Bit Score: 64.38  E-value: 1.83e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   21 LRKEYESLF----TLKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRI--PHYTDAQQFMNDVVQIPWNAKT 94
Cdd:cd05517   1 LKQILEQLLeavmTATDPSGRLISELFQKLPSKVLYPDYYAVIKEPIDLKTIAQRIqsGYYKSIEDMEKDLDLMVKNAKT 80

                        90
                ....*....|....*..
gi 6323389   95 YNTRDSGIYKYALVLEK 111
Cdd:cd05517  81 FNEPGSQVYKDANAIKK 97
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 38-106 2.91e-12

Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 425683 [Multi-domain]  Cd Length: 84  Bit Score: 63.10  E-value: 2.91e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 6323389     38 EISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRI--PHYTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYA 106
Cdd:pfam00439  12 PIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLenGEYKSLAEFLADVKLIFSNARTYNGPGSVIYKAA 82
BAH_BAHCC1 cd04714
BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. ...
 412-516 9.10e-12

BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.


Pssm-ID: 240065  Cd Length: 121  Bit Score: 62.80  E-value: 9.10e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  412 VGDWALLRNQNDPQKPIVGQIFRLWKTPDGKQWLNACWYYRPEQTVHRVDRLFYKNEVMKTgQYRDHL-VSNLVGKCYVI 490
Cdd:cd04714   6 VGDCVLFKSPGRPSLPYVARIESLWEDPEGNMVVRVKWYYRPEETKGGRKPNHGEKELFAS-DHQDENsVQTIEHKCYVL 84

                        90       100
                ....*....|....*....|....*....
gi 6323389  491 HF---TRYQRGNPDMKLEGPLFVCEFRYN 516
Cdd:cd04714  85 TFaeyERLARVKKKPQDGVDFYYCAGTYN 113
Bromo_polybromo_III cd05520
Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which ...
 25-111 1.75e-11

Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99951  Cd Length: 103  Bit Score: 61.59  E-value: 1.75e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   25 YESLFTLKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIPH--YTDAQQFMNDVVQIPWNAKTYNTRDSGI 102
Cdd:cd05520   9 YDTIRNARNNQGQLLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNgeYETLEELEADLNLMFENAKRYNVPNSRI 88


                ....*....
gi 6323389  103 YKYALVLEK 111
Cdd:cd05520  89 YKDAEKLQK 97
COG5076 COG5076
Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin ...
 17-117 1.79e-11

Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription];


Pssm-ID: 227408 [Multi-domain]  Cd Length: 371  Bit Score: 66.75  E-value: 1.79e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   17 LYKDLRKEYESLFTLKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIPH--YTDAQQFMNDVVQIPWNAKT 94
Cdd:COG5076 143 LYADNKAIAKFKKQLFLRDGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNgrYKSFEEFVSDLNLMFDNCKL 222

                        90       100
                ....*....|....*....|...
gi 6323389   95 YNTRDSGIYKYALVLEKYLKDTI 117
Cdd:COG5076 223 YNGPDSSVYVDAKELEKYFLKLI 245
Bromo_Acf1_like cd05504
Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was ...
 43-115 2.77e-11

Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was identified as a novel human bromodomain gene by cDNA library screening. The Drosophila homologue, Acf1, is part of the CHRAC (chromatin accessibility complex) and regulates ISWI-induced nucleosome remodeling. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99936  Cd Length: 115  Bit Score: 61.26  E-value: 2.77e-11
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 6323389   43 FNVLPPKKDYPDYYAVIKNPVSFNTLKKRIPH--YTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYALVLEKYLKD 115
Cdd:cd05504  33 FLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMgeYKLAEEFLSDIQLVFSNCFLYNPEHTSVYKAGTRLQRFFIK 107
Bromo_SNF2L2 cd05516
Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI ...
 279-377 6.86e-11

Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 2 is a global transcriptional activator, which cooperates with nuclear hormone receptors to boost transcriptional activation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99947  Cd Length: 107  Bit Score: 59.75  E-value: 6.86e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  279 QRMKNVMKVLKKEVLDSGIGLTDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRISH 358
Cdd:cd05516   4 KKMNKIVDVVIKYKDSDGRQLAEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNAQTFN 83

                        90
                ....*....|....*....
gi 6323389  359 RGDPESIKISNILEKTFTS 377
Cdd:cd05516  84 LEGSLIYEDSIVLQSVFKS 102
Bromo_tif1_like cd05502
Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of ...
 47-127 2.81e-10

Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of the tripartite motif (TRIM) protein family, which is characterized by a particular domain architecture. It functions by recruiting coactivators and/or corepressors to modulate transcription. Vertebrate Tif1-gamma, also labeled E3 ubiquitin-protein ligase TRIM33, plays a role in the control of hematopoiesis. Its homologue in Xenopus laevis, Ectodermin, has been shown to function in germ-layer specification and control of cell growth during embryogenesis. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99934 [Multi-domain]  Cd Length: 109  Bit Score: 58.07  E-value: 2.81e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   47 PPKKDYPDYYAVIKNPVSFNTLKKRI-----PHYTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYALVLEKYLKDtiypNL 121
Cdd:cd05502  28 PVSPSVPNYYKIIKTPMDLSLIRKKLqpkspQHYSSPEEFVADVRLMFKNCYKFNEEDSEVAQAGKELELFFEE----QL 103


                ....*.
gi 6323389  122 KEKYPQ 127
Cdd:cd05502 104 KEILPD 109
Bromo_ASH1 cd05525
Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the ...
 21-111 6.75e-10

Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the trithorax-group in Drosophila melanogaster, an epigenetic transcriptional regulator of HOX genes. Drosophila ASH1 has been shown to methylate specific lysines in histones H3 and H4. Mammalian ASH1 has been shown to methylate histone H3. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99955 [Multi-domain]  Cd Length: 106  Bit Score: 57.01  E-value: 6.75e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   21 LRKEYESLFTLKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTLKKRI--PHYTDAQQFMNDVVQIPWNAKTYNTR 98
Cdd:cd05525   7 LKEICDAIITYKDSNGQSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQIltGYYKTPEAFDSDMLKVFRNAEKYYGR 86

                        90
                ....*....|...
gi 6323389   99 DSGIYKYALVLEK 111
Cdd:cd05525  87 KSPIGRDVCRLRK 99
Bromodomain pfam00439
Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin ...
 281-370 9.04e-10

Bromodomain; Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 425683 [Multi-domain]  Cd Length: 84  Bit Score: 56.17  E-value: 9.04e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389    281 MKNVMKVLKKEvldsgiGLTDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRISHRG 360
Cdd:pfam00439   1 CLEILDKLMEH------PIAAPFLEPVDPDEYPDYYSVIKKPMDLSTIKKKLENGEYKSLAEFLADVKLIFSNARTYNGP 74

                          90
                  ....*....|
gi 6323389    361 DPESIKISNI 370
Cdd:pfam00439  75 GSVIYKAAEK 84
Bromo_polybromo_III cd05520
Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which ...
 295-353 1.43e-08

Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99951  Cd Length: 103  Bit Score: 53.11  E-value: 1.43e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 6323389  295 SGIGLTDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTN 353
Cdd:cd05520  19 QGQLLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNGEYETLEELEADLNLMFEN 77
Bromo_polybromo_I cd05524
Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which ...
 284-353 1.73e-08

Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99954 [Multi-domain]  Cd Length: 113  Bit Score: 53.11  E-value: 1.73e-08
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  284 VMKVLKKEVLDSGIGLTDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTN 353
Cdd:cd05524  10 LYDTIRNYKSEDGRILCESFIRVPKRRNEPEYYEVVSNPIDLLKIQQKLKTEEYDDVDDLTADFELLINN 79
Bromo_polybromo_IV cd05518
Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which ...
 282-373 1.88e-08

Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99949 [Multi-domain]  Cd Length: 103  Bit Score: 52.83  E-value: 1.88e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  282 KNVMKVLKKEVLD----SGIGLTDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRis 357
Cdd:cd05518   2 KKRMLALFLYVLEyregSGRRLCDLFMEKPSKKDYPDYYKIILEPIDLKTIEHNIRNDKYATEEELMDDFKLMFRNAR-- 79

                        90
                ....*....|....*...
gi 6323389  358 HRGDPESI--KISNILEK 373
Cdd:cd05518  80 HYNEEGSQvyEDANILEK 97
Bromo_gcn5_like cd05509
Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates ...
 314-378 2.30e-08

Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates acetylation of histones at lysine residues; such acetylation is generally correlated with the activation of transcription. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99941 [Multi-domain]  Cd Length: 101  Bit Score: 52.56  E-value: 2.30e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 6323389  314 NYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRISHRGDPESIKISNILEKTFTSL 378
Cdd:cd05509  33 DYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDTEYYKCANKLEKFFWKK 97
Bromo_BDF1_2_I cd05500
Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast ...
 45-112 5.26e-08

Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99932  Cd Length: 103  Bit Score: 51.55  E-value: 5.26e-08
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   45 VLPPKKDYPDYYAVIKNPVSFNTLKKRIPH--YTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYALVLEKY 112
Cdd:cd05500  29 VDPVKLNIPHYPTIIKKPMDLGTIERKLKSnvYTSVEEFTADFNLMVDNCLTFNGPEHPVSQMGKRLQAA 98
Bromo_polybromo_V cd05515
Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which ...
 279-353 1.44e-07

Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99946  Cd Length: 105  Bit Score: 50.38  E-value: 1.44e-07
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 6323389  279 QRMKNVMKVLKKEVLDSGIGLTDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTN 353
Cdd:cd05515   3 QKLWELYNAVKNYTDGRGRRLSLIFMRLPSKSEYPDYYDVIKKPIDMEKIRSKIEGNQYQSLDDMVSDFVLMFDN 77
Bromo_WDR9_I_like cd05529
Bromodomain; WDR9 repeat I_like subfamily. WDR9 is a human gene located in the Down Syndrome ...
 28-117 1.61e-07

Bromodomain; WDR9 repeat I_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99958  Cd Length: 128  Bit Score: 50.80  E-value: 1.61e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   28 LFTLKEDSGLEISPIF-NVLPPKKDYPDYYAVIKNPVSFNTLKKRIPH--YTDAQQFMNDVVQIPWNAKTYNTRDSGIYK 104
Cdd:cd05529  33 LDKLLLSLQLEIAEYFeYPVDLRAWYPDYWNRVPVPMDLETIRSRLENryYRSLEALRHDVRLILSNAETFNEPNSEIAK 112

                        90
                ....*....|...
gi 6323389  105 YALVLEKYLKDTI 117
Cdd:cd05529 113 KAKRLSDWLLRIL 125
Bromo_Brdt_II_like cd05498
Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET ...
 45-115 1.63e-07

Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99930  Cd Length: 102  Bit Score: 49.97  E-value: 1.63e-07
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 6323389   45 VLPPKKDYPDYYAVIKNPVSFNTLKKRIPH--YTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYALVLEKYLKD 115
Cdd:cd05498  28 VDPEALGLHDYHDIIKHPMDLSTIKKKLDNreYADAQEFAADVRLMFSNCYKYNPPDHPVHAMARKLQDVFED 100
Bromo_Rsc1_2_I cd05521
Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are ...
 294-373 1.86e-07

Bromodomain, repeat I in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99952  Cd Length: 106  Bit Score: 50.01  E-value: 1.86e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  294 DSGIGLTDLFERLPDRHRDANYYIMIANPISLQDINKKVKtrRYKTFQEFQNDFNLMLTNFRISHRGDPESIKISNILEK 373
Cdd:cd05521  19 ENGIEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTVKKRLP--HYTNAQEFVNDLAQIPWNARLYNTKGSVIYKYALILEK 96
Bromo_polybromo_I cd05524
Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which ...
 25-109 2.32e-07

Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99954 [Multi-domain]  Cd Length: 113  Bit Score: 50.02  E-value: 2.32e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   25 YESLFTLKEDSGLEISPIFNVLPPKKDYPDYYAVIKNPVSFNTL--KKRIPHYTDAQQFMNDVVQIPWNAKTYNTRDSGI 102
Cdd:cd05524  11 YDTIRNYKSEDGRILCESFIRVPKRRNEPEYYEVVSNPIDLLKIqqKLKTEEYDDVDDLTADFELLINNAKAYYKPDSPE 90


                ....*..
gi 6323389  103 YKYALVL 109
Cdd:cd05524  91 HKDACKL 97
Bromo_cbp_like cd05495
Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase ...
 53-119 5.19e-07

Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase acting on histone, which gives a specific tag for transcriptional activation and also acetylates non-histone proteins. CREBBP binds specifically to phosphorylated CREB protein and augments the activity of phosphorylated CREB to activate transcription of cAMP-responsive genes. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99927  Cd Length: 108  Bit Score: 48.98  E-value: 5.19e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6323389   53 PDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYALVLEKYLKDTIYP 119
Cdd:cd05495  37 PDYFDIVKNPMDLSTIRRKLDtgQYQDPWQYVDDVWLMFDNAWLYNRKTSRVYKYCTKLAEVFEQEIDP 105
Bromo_AAA cd05528
Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long ...
 51-129 5.39e-07

Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this alignment is an uncharacterized protein predicted from analysis of cDNA clones from human fetal liver


Pssm-ID: 99957  Cd Length: 112  Bit Score: 48.89  E-value: 5.39e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   51 DYPDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYALVLEKYLKDTIYPNLKEKYPQL 128
Cdd:cd05528  32 EVPDYYEIIKQPMDLQTILQKLDthQYLTAKDFLKDIDLIVTNALEYNPDRDPADKLIRSRACELRDEVHAMIEAELDPL 111


                .
gi 6323389  129 V 129
Cdd:cd05528 112 F 112
Bromo_BDF1_2_II cd05499
Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast ...
 314-353 6.77e-07

Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99931  Cd Length: 102  Bit Score: 48.44  E-value: 6.77e-07
                        10        20        30        40
                ....*....|....*....|....*....|....*....|
gi 6323389  314 NYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTN 353
Cdd:cd05499  37 NYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKN 76
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 315-382 8.56e-07

Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99943 [Multi-domain]  Cd Length: 112  Bit Score: 48.41  E-value: 8.56e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6323389  315 YYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRISHRGD-PESIKISNILEKTFTSLARFE 382
Cdd:cd05511  33 YYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDsVYTKKAKEMLELAEELLAERE 101
Bromo_SPT7_like cd05510
Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the ...
 307-356 1.11e-06

Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the transcription regulatory histone acetylation (HAT) complexes SAGA, SALSA, and SLIK. SAGA is involved in the RNA polymerase II-dependent transcriptional regulation of about 10% of all yeast genes. The SPT7 bromodomain has been shown to weakly interact with acetylated histone H3, but not H4. The human representative of this subfamily is cat eye syndrome critical region protein 2 (CECR2). Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99942 [Multi-domain]  Cd Length: 112  Bit Score: 48.21  E-value: 1.11e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 6323389  307 PDRHRDA-NYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRI 356
Cdd:cd05510  32 KVSKREApDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKNCLL 82
Bromo_TFIID cd05511
Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, ...
 49-100 2.42e-06

Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99943 [Multi-domain]  Cd Length: 112  Bit Score: 47.26  E-value: 2.42e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....
gi 6323389   49 KKDYPDYYAVIKNPVSFNTLKKRIPH--YTDAQQFMNDVVQIPWNAKTYNTRDS 100
Cdd:cd05511  27 KKKVPDYYKIIKRPMDLQTIRKKISKhkYQSREEFLEDIELIVDNSVLYNGPDS 80
Bromo_polybromo_II cd05517
Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which ...
 299-376 2.51e-06

Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.


Pssm-ID: 99948  Cd Length: 103  Bit Score: 46.66  E-value: 2.51e-06
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 6323389  299 LTDLFERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRISHRGDPESIKISNILEKTFT 376
Cdd:cd05517  23 ISELFQKLPSKVLYPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDLMVKNAKTFNEPGSQVYKDANAIKKIFT 100
Bromo_Brdt_I_like cd05497
Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET ...
 53-111 2.56e-06

Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99929  Cd Length: 107  Bit Score: 47.03  E-value: 2.56e-06
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 6323389   53 PDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYALVLEK 111
Cdd:cd05497  38 PDYHKIIKTPMDLGTIKKRLEnnYYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLEK 98
Bromo_WSTF_like cd05505
Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The ...
 47-117 3.86e-06

Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The Williams-Beuren syndrome deletion transcript 9 is a putative transcriptional regulator. WSTF was found to play a role in vitamin D-mediated transcription as part of two chromatin remodeling complexes, WINAC and WICH. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99937  Cd Length: 97  Bit Score: 45.99  E-value: 3.86e-06
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 6323389   47 PPKKD-YPDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYALVLEKYLKDTI 117
Cdd:cd05505  24 PVTADeAEDYKKVITNPMDLQTMQTKCScgSYSSVQEFLDDMKLVFSNAEKYYENGSYVLSCMRKTEQCCVNLL 97
Bromo_SPT7_like cd05510
Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the ...
 16-115 6.92e-06

Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the transcription regulatory histone acetylation (HAT) complexes SAGA, SALSA, and SLIK. SAGA is involved in the RNA polymerase II-dependent transcriptional regulation of about 10% of all yeast genes. The SPT7 bromodomain has been shown to weakly interact with acetylated histone H3, but not H4. The human representative of this subfamily is cat eye syndrome critical region protein 2 (CECR2). Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99942 [Multi-domain]  Cd Length: 112  Bit Score: 45.90  E-value: 6.92e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   16 ALYKDLRKEYESLFTLKEDSGLEISPIfnvlpPKKDYPDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAK 93
Cdd:cd05510   7 EFYESLDKVLNELKTYTEHSTPFLTKV-----SKREAPDYYDIIKKPMDLGTMLKKLKnlQYKSKAEFVDDLNLIWKNCL 81

                        90       100       110
                ....*....|....*....|....*....|
gi 6323389   94 TYNTRDSGIY--------KYALVLEKYLKD 115
Cdd:cd05510  82 LYNSDPSHPLrrhanfmkKKAEHLLKLIPD 111
Bromo_ASH1 cd05525
Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the ...
 303-353 2.76e-05

Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the trithorax-group in Drosophila melanogaster, an epigenetic transcriptional regulator of HOX genes. Drosophila ASH1 has been shown to methylate specific lysines in histones H3 and H4. Mammalian ASH1 has been shown to methylate histone H3. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99955 [Multi-domain]  Cd Length: 106  Bit Score: 43.92  E-value: 2.76e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 6323389  303 FERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTN 353
Cdd:cd05525  29 FINLPSKKKNPDYYERITDPVDLSTIEKQILTGYYKTPEAFDSDMLKVFRN 79
Bromo_BAZ2A_B_like cd05503
Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B ...
 50-112 3.54e-05

Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B (BAZ2B) were identified as a novel human bromodomain gene by cDNA library screening. BAZ2A is also known as Tip5 (Transcription termination factor I-interacting protein 5) and hWALp3. The proteins may play roles in transcriptional regulation. Human Tip5 is part of a complex termed NoRC (nucleolar remodeling complex), which induces nucleosome sliding and may play a role in the regulation of the rDNA locus. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99935  Cd Length: 97  Bit Score: 43.52  E-value: 3.54e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 6323389   50 KDYPDYYAVIKNPVSFNTLKKRIPH--YTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYALVLEKY 112
Cdd:cd05503  28 KLVPGYRKIIKKPMDFSTIREKLESgqYKTLEEFAEDVRLVFDNCETFNEDDSEVGRAGHNMRKF 92
Bromo_BDF1_2_II cd05499
Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast ...
 53-115 6.26e-05

Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99931  Cd Length: 102  Bit Score: 42.66  E-value: 6.26e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 6323389   53 PDYYAVIKNPVSFNTLKKRIPH--YTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYALVLEKYLKD 115
Cdd:cd05499  36 PNYFSIIKKPMDLGTISKKLQNgqYQSAKEFERDVRLIFKNCYTFNPEGTDVYMMGHQLEEVFND 100
Bromo_Brdt_II_like cd05498
Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET ...
 314-353 8.59e-05

Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99930  Cd Length: 102  Bit Score: 42.27  E-value: 8.59e-05
                        10        20        30        40
                ....*....|....*....|....*....|....*....|
gi 6323389  314 NYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTN 353
Cdd:cd05498  37 DYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSN 76
Bromo_brd7_like cd05513
Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown ...
 53-106 9.85e-05

Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene involved in nasopharyngeal carcinoma. The protein interacts with acetylated histone H3 via its bromodomain. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99945  Cd Length: 98  Bit Score: 42.01  E-value: 9.85e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 6323389   53 PDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYA 106
Cdd:cd05513  32 PGYSSIIKHPMDFSTMKEKIKnnDYQSIEEFKDDFKLMCENAMKYNKPDTIYYKAA 87
Bromo_BDF1_2_I cd05500
Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast ...
 314-353 1.01e-04

Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99932  Cd Length: 103  Bit Score: 42.30  E-value: 1.01e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|
gi 6323389  314 NYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTN 353
Cdd:cd05500  38 HYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDN 77
Bromo_RACK7 cd05508
Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) ...
 29-100 1.30e-04

Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) was identified as a potential tumor suppressor genes, it shares domain architecture with BS69/ZMYND11; both have been implicated in the regulation of cellular proliferation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99940  Cd Length: 99  Bit Score: 41.99  E-value: 1.30e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 6323389   29 FTLKEDSGLEISPIFNVLPpKKDYPDYYAVIKNPVSFNTLKKRI--PHYTDAQQFMNDVVQIPWNAKTYNTRDS 100
Cdd:cd05508  10 FALERMKQPGAEPFLKPVD-LEQFPDYAQYVFKPMDLSTLEKNVrkKAYGSTDAFLADAKWILHNAIIYNGGDH 82
Bromo_WDR9_II cd05496
Bromodomain; WDR9 repeat II_like subfamily. WDR9 is a human gene located in the Down Syndrome ...
 51-119 1.36e-04

Bromodomain; WDR9 repeat II_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99928  Cd Length: 119  Bit Score: 42.44  E-value: 1.36e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 6323389   51 DYPDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAKTYNT-RDSGIYKYALVLEKYLKDTIYP 119
Cdd:cd05496  34 KYPDYRDIIDTPMDLGTVKETLFggNYDDPMEFAKDVRLIFSNSKSYTPnKRSRIYSMTLRLSALFEEHIKK 105
Bromo_plant1 cd05506
Bromodomain, uncharacterized subfamily specific to plants. Might function as a global ...
 42-112 1.56e-04

Bromodomain, uncharacterized subfamily specific to plants. Might function as a global transcription factor. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99938  Cd Length: 99  Bit Score: 41.55  E-value: 1.56e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 6323389   42 IFN--VLPPKKDYPDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYALVLEKY 112
Cdd:cd05506  20 VFNapVDVVALGLPDYFDIIKKPMDLGTVKKKLEkgEYSSPEEFAADVRLTFANAMRYNPPGNDVHTMAKELLKI 94
Bromo_brd7_like cd05513
Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown ...
 314-365 1.70e-04

Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene involved in nasopharyngeal carcinoma. The protein interacts with acetylated histone H3 via its bromodomain. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99945  Cd Length: 98  Bit Score: 41.63  E-value: 1.70e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 6323389  314 NYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRISHrgDPESI 365
Cdd:cd05513  33 GYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYN--KPDTI 82
Bromo_brd1_like cd05512
Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein ...
 42-109 3.77e-04

Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein assumed to be a transcriptional regulator. BRD1 has been implicated with brain development and susceptibility to schizophrenia and bipolar affective disorder. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99944  Cd Length: 98  Bit Score: 40.46  E-value: 3.77e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389   42 IFNVLPPKKDYPDYYAVIKNPVSFNTLKKRIP--HYTDAQQFMNDVVQIPWNAKTYNTRDSGIYKYALVL 109
Cdd:cd05512  21 IFSEPVDLSEVPDYLDHIKQPMDFSTMRKKLEsqRYRTLEDFEADFNLIINNCLAYNAKDTIFYRAAVRL 90
Bromo_brd1_like cd05512
Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein ...
 314-353 8.72e-04

Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein assumed to be a transcriptional regulator. BRD1 has been implicated with brain development and susceptibility to schizophrenia and bipolar affective disorder. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99944  Cd Length: 98  Bit Score: 39.30  E-value: 8.72e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|
gi 6323389  314 NYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTN 353
Cdd:cd05512  33 DYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINN 72
BAH_plantDCM_I cd04716
BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5) ...
 407-468 1.02e-03

BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases (DCM) from plants. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.


Pssm-ID: 240067  Cd Length: 122  Bit Score: 39.74  E-value: 1.02e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6323389  407 NISYHVGDWALLRNQNDpQKPIVGQIFRLWKTPDGKQWLNACWYYRPEQTV-----HRVD--RLFYKNE 468
Cdd:cd04716   1 GITYNLGDDAYVQGGEG-EEPFICKITEFFEGTDGKTYFTAQWFYRAEDTVierqaTNHDkkRVFYSEI 68
Bromo_WSTF_like cd05505
Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The ...
 303-353 1.64e-03

Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The Williams-Beuren syndrome deletion transcript 9 is a putative transcriptional regulator. WSTF was found to play a role in vitamin D-mediated transcription as part of two chromatin remodeling complexes, WINAC and WICH. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99937  Cd Length: 97  Bit Score: 38.67  E-value: 1.64e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 6323389  303 FERLPDRHRDANYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTN 353
Cdd:cd05505  21 FREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSN 71
Bromo_AAA cd05528
Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long ...
 314-367 2.54e-03

Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this alignment is an uncharacterized protein predicted from analysis of cDNA clones from human fetal liver


Pssm-ID: 99957  Cd Length: 112  Bit Score: 38.49  E-value: 2.54e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 6323389  314 NYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRI-SHRGDPESIKI 367
Cdd:cd05528  35 DYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEyNPDRDPADKLI 89
Bromo_Brdt_I_like cd05497
Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET ...
 306-377 3.66e-03

Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.


Pssm-ID: 99929  Cd Length: 107  Bit Score: 37.79  E-value: 3.66e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 6323389  306 LPDrhrdanYYIMIANPISLQDINKKVKTRRYKTFQEFQNDFNLMLTNFRISHRGDPESIKISNILEKTFTS 377
Cdd:cd05497  37 LPD------YHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLEKLFLQ 102
BAH_DCM_I cd04712
BAH, or Bromo Adjacent Homology domain, as present in DNA (Cytosine-5)-methyltransferases (DCM) ...
 412-522 6.94e-03

BAH, or Bromo Adjacent Homology domain, as present in DNA (Cytosine-5)-methyltransferases (DCM) 1. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.


Pssm-ID: 240063  Cd Length: 130  Bit Score: 37.77  E-value: 6.94e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323389  412 VGDWALLRNQNDPQK----------PIVGQIFRLWKTPDGKQWLNACWYYRPEQTVH----RVDRLFYKNEVMKTGqyRD 477
Cdd:cd04712   8 VGDVVSVERDDADSTtkwnddhrwlPLVQFVEYMKKGSDGSKMFHGRWLYRGCDTVLgnyaNERELFLTNECTCLE--LD 85

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*
gi 6323389  478 HLVSNLVGKcYVIHFtryqRGNPDMKLEGPLFVCEFRYNESDKIF 522
Cdd:cd04712  86 LLSTEIKGV-HKVDW----SGTPWGKGLPEFFVRQSYYWPERGAF 125
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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