NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2509883240|ref|XP_056198251|]
View 

nuclear receptor coactivator 1 isoform X4 [Falco biarmicus]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
bHLH-PAS_NCoA1_SRC1 cd18948
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 1 ...
 26-86 1.03e-37

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 1 (NCoA-1) and similar proteins; NCoA-1, also termed Class E basic helix-loop-helix protein 74 (bHLHe74), or protein Hin-2, or RIP160, or renal carcinoma antigen NY-REN-52, or steroid receptor coactivator 1 (SRC-1), is a bHLH-PAS nuclear receptor coactivator that directly binds nuclear receptors and stimulates the transcriptional activities in a hormone-dependent fashion.


:

Pssm-ID: 381518  Cd Length: 61  Bit Score: 135.48  E-value: 1.03e-37
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2509883240   26 TAQSNEKRRREQENKYLEELAELLSANIGDIDTLSVKPDKCKILKKTVDQIQQMKRLEQEK 86
Cdd:cd18948      1 TAQSTEKRRREQENKYLEELAELLSANIGDIDSLSVKPDKCKILKKTVDQIQQMKRLEQEK 61
PAS_11 pfam14598
PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), ...
 258-366 8.96e-37

PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), which binds to an LXXLL motif in the C-terminal region of STAT6 (Signal transducer and activator of transcription 6).


:

Pssm-ID: 464214 [Multi-domain]  Cd Length: 110  Bit Score: 134.73  E-value: 8.96e-37
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  258 ESFVTKQDTTGKIISIDTsslRAAGRTGWED--LVRKCIYAFFQPQGrePSYAKQLFQEVM-TRGTAFSPSYRFTLSDGT 334
Cdd:pfam14598    2 EQFTTRHDIDGKIISCDT---RAPFSLGYEKdeLVGRSIYDLVHPQD--LRTAKSHLREIIqTRGRATSPSYRLRLRDGD 76

                           90       100       110
                   ....*....|....*....|....*....|..
gi 2509883240  335 VLSAHTKCKLCYPSSPEMQPFIMGIHVIDRDH 366
Cdd:pfam14598   77 FLSVHTKSKLFLNQNSNQQPFIMCTHTILREE 108
NCOA_u2 pfam16665
Unstructured region on nuclear receptor coactivator protein; NCOA_u2 is a region of natively ...
 462-590 3.02e-26

Unstructured region on nuclear receptor coactivator protein; NCOA_u2 is a region of natively unstructured but highly conserved sequence found on higher eukaryote nuclear receptor coactivator proteins. It lies between a PAS domain, pfam14598 and a steroid receptor coactivator domain, pfam08832. The function is not known.


:

Pssm-ID: 465223 [Multi-domain]  Cd Length: 119  Bit Score: 104.82  E-value: 3.02e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  462 HTLNLSSSPMNSPGITPPQ---FMSPRHRVSpglvprPRVPSNPFSPTMpTMHSPVGMANsgsGGGCGTGGTRPFPSAPI 538
Cdd:pfam16665    1 YGLNMNSPPQGSPGMTPPQqnlMMSPRHRGS------PKMPANQFSPGM-GLHSPMGSVS---SGGSGGGGSRTYSSSSL 70

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|...
gi 2509883240  539 NSMQGLTEGPSTPVGYSTPPPVLRQLSSQSspgrLAMQPMKAE-SKDNKEIAS 590
Cdd:pfam16665   71 NALQAISEGVGNSLGSSLTSPVPKQDSSPN----INSTQQKKEgSSDSKSPSS 119
SRC-1 pfam08832
Steroid receptor coactivator; This domain is found in steroid/nuclear receptor coactivators ...
 630-710 2.22e-20

Steroid receptor coactivator; This domain is found in steroid/nuclear receptor coactivators and contains two LXXLL motifs that are involved in receptor binding. The family includes SRC-1/NcoA-1, NcoA-2/TIF2, pCIP/ACTR/GRIP-1/AIB1.


:

Pssm-ID: 462615 [Multi-domain]  Cd Length: 87  Bit Score: 87.06  E-value: 2.22e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  630 TSH-KLVQLLATTAEQQ-----LRHADADTSCKDSLACAGTAGTlASGNPPSSTCPSSHSSLTERHKILHRLLQEG-SPS 702
Cdd:pfam08832    1 KGHkKLLQLLTTPTEQLgpsplRSHADADTDCKDSLAGVTSPSS-GVSSSSGSSCPSHHSSLQEKHKILHRLLQNGnSPD 79


                   ....*...
gi 2509883240  703 DITTLAME 710
Cdd:pfam08832   80 DVAKLTAE 87
Nuc_rec_co-act pfam08815
Nuclear receptor coactivator; This region is found on eukaryotic nuclear receptor coactivators ...
 996-1041 1.20e-15

Nuclear receptor coactivator; This region is found on eukaryotic nuclear receptor coactivators and forms an alpha helical structure.


:

Pssm-ID: 462608 [Multi-domain]  Cd Length: 47  Bit Score: 72.05  E-value: 1.20e-15
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 2509883240  996 EGRNDEKALLEQLVSFLSGKDETELAELDRALGIDKLV-QGGGLEAL 1041
Cdd:pfam08815    1 EGPSDEGALLDQLVSFLSNTDETGLEEIDRALGIPELVgQGQGLDPD 47
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 118-211 5.07e-12

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


:

Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 63.81  E-value: 5.07e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  118 LDGFFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVYSILHVGDHAEFvKNLLPKSLVNGVPWPQEAT--RRNSHTFSC 195
Cdd:cd00130      1 LPDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREEL-RERLENLLSGGEPVTLEVRlrRKDGSVIWV 79

                           90
                   ....*....|....*.
gi 2509883240  196 RMLIRPPDEPGAENQE 211
Cdd:cd00130     80 LVSLTPIRDEGGEVIG 95
DUF1518 pfam07469
Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually ...
 1220-1276 1.48e-11

Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually found tandemly repeated in the nuclear receptor coactivator family (NCOA1/2/3, also known as the SRC/p160 nuclear receptor coactivator family, which are ligand-dependent transcription factors.


:

Pssm-ID: 462174  Cd Length: 58  Bit Score: 60.94  E-value: 1.48e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 2509883240 1220 GLPVQIGAARLPQAPPQQFPYPPNYGTTPGNPPTSTSPFSPL-ASNPEAALANRSSMV 1276
Cdd:pfam07469    1 GMGGQFGGPRNPQAQPQQFPYPPNYGMSQQPDPAFTSALSPQsPMMSPRMGPSQSPMM 58
DUF4927 super family cl24752
Domain of unknown function (DUF4927); This family, around 80 residues, consists of ...
 737-827 3.00e-08

Domain of unknown function (DUF4927); This family, around 80 residues, consists of uncharacterized and nuclear receptor coactivator 2 proteins and is mainly found in mammalia species. The specific function of this family is still unknown.


The actual alignment was detected with superfamily member pfam16279:

Pssm-ID: 465083  Cd Length: 87  Bit Score: 52.49  E-value: 3.00e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  737 KLEPDALKKKdvKDHQLLRYLLDKDE-KELAAApalsldDVKVKVEKTE-QMEPCNTAPVPLAKpPAAEEVKLETQGQFA 814
Cdd:pfam16279    1 KQEQLSPKKK--KNNALLRYLLDKDDsKDPLSK------DIKPKLEGLDgKTGPCSSSKIPTSK-SEKEESKIKTEPPDE 71

                           90
                   ....*....|...
gi 2509883240  815 AELEQLDQLLPSL 827
Cdd:pfam16279   72 LSLDNLDAILGDL 84
DUF1518 pfam07469
Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually ...
 1292-1339 5.35e-06

Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually found tandemly repeated in the nuclear receptor coactivator family (NCOA1/2/3, also known as the SRC/p160 nuclear receptor coactivator family, which are ligand-dependent transcription factors.


:

Pssm-ID: 462174  Cd Length: 58  Bit Score: 45.14  E-value: 5.35e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 2509883240 1292 MTPQMQQNIFQYSGS-GMGQQSEPAFAPSLSPSSPLMSPQLPPSQSPML 1339
Cdd:pfam07469   10 RNPQAQPQQFPYPPNyGMSQQPDPAFTSALSPQSPMMSPRMGPSQSPMM 58
PRK10927 super family cl35972
cell division protein FtsN;
1162-1267 4.62e-03

cell division protein FtsN;


The actual alignment was detected with superfamily member PRK10927:

Pssm-ID: 236797 [Multi-domain]  Cd Length: 319  Bit Score: 40.82  E-value: 4.62e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240 1162 MRAGMQQQITP--QPPLNAQMLAQRQRELySQQHRQRQLMQQRAILMRQQSFGNNLPPSAGLPVQIGAARLPQAPPQ--- 1236
Cdd:PRK10927   125 MQADMRQQPTQlvEVPWNEQTPEQRQQTL-QRQRQAQQLAEQQRLAQQSRTTEQSWQQQTRTSQAAPVQAQPRQSKPast 203

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 2509883240 1237 QFPY-----PPNYGTTPGNPPTStspfSPLASNPEA 1267
Cdd:PRK10927   204 QQPYqdllqTPAHTTAQSKPQQA----APVTRAADA 235
 
Name Accession Description Interval E-value
bHLH-PAS_NCoA1_SRC1 cd18948
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 1 ...
 26-86 1.03e-37

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 1 (NCoA-1) and similar proteins; NCoA-1, also termed Class E basic helix-loop-helix protein 74 (bHLHe74), or protein Hin-2, or RIP160, or renal carcinoma antigen NY-REN-52, or steroid receptor coactivator 1 (SRC-1), is a bHLH-PAS nuclear receptor coactivator that directly binds nuclear receptors and stimulates the transcriptional activities in a hormone-dependent fashion.


Pssm-ID: 381518  Cd Length: 61  Bit Score: 135.48  E-value: 1.03e-37
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2509883240   26 TAQSNEKRRREQENKYLEELAELLSANIGDIDTLSVKPDKCKILKKTVDQIQQMKRLEQEK 86
Cdd:cd18948      1 TAQSTEKRRREQENKYLEELAELLSANIGDIDSLSVKPDKCKILKKTVDQIQQMKRLEQEK 61
PAS_11 pfam14598
PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), ...
 258-366 8.96e-37

PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), which binds to an LXXLL motif in the C-terminal region of STAT6 (Signal transducer and activator of transcription 6).


Pssm-ID: 464214 [Multi-domain]  Cd Length: 110  Bit Score: 134.73  E-value: 8.96e-37
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  258 ESFVTKQDTTGKIISIDTsslRAAGRTGWED--LVRKCIYAFFQPQGrePSYAKQLFQEVM-TRGTAFSPSYRFTLSDGT 334
Cdd:pfam14598    2 EQFTTRHDIDGKIISCDT---RAPFSLGYEKdeLVGRSIYDLVHPQD--LRTAKSHLREIIqTRGRATSPSYRLRLRDGD 76

                           90       100       110
                   ....*....|....*....|....*....|..
gi 2509883240  335 VLSAHTKCKLCYPSSPEMQPFIMGIHVIDRDH 366
Cdd:pfam14598   77 FLSVHTKSKLFLNQNSNQQPFIMCTHTILREE 108
NCOA_u2 pfam16665
Unstructured region on nuclear receptor coactivator protein; NCOA_u2 is a region of natively ...
 462-590 3.02e-26

Unstructured region on nuclear receptor coactivator protein; NCOA_u2 is a region of natively unstructured but highly conserved sequence found on higher eukaryote nuclear receptor coactivator proteins. It lies between a PAS domain, pfam14598 and a steroid receptor coactivator domain, pfam08832. The function is not known.


Pssm-ID: 465223 [Multi-domain]  Cd Length: 119  Bit Score: 104.82  E-value: 3.02e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  462 HTLNLSSSPMNSPGITPPQ---FMSPRHRVSpglvprPRVPSNPFSPTMpTMHSPVGMANsgsGGGCGTGGTRPFPSAPI 538
Cdd:pfam16665    1 YGLNMNSPPQGSPGMTPPQqnlMMSPRHRGS------PKMPANQFSPGM-GLHSPMGSVS---SGGSGGGGSRTYSSSSL 70

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|...
gi 2509883240  539 NSMQGLTEGPSTPVGYSTPPPVLRQLSSQSspgrLAMQPMKAE-SKDNKEIAS 590
Cdd:pfam16665   71 NALQAISEGVGNSLGSSLTSPVPKQDSSPN----INSTQQKKEgSSDSKSPSS 119
SRC-1 pfam08832
Steroid receptor coactivator; This domain is found in steroid/nuclear receptor coactivators ...
 630-710 2.22e-20

Steroid receptor coactivator; This domain is found in steroid/nuclear receptor coactivators and contains two LXXLL motifs that are involved in receptor binding. The family includes SRC-1/NcoA-1, NcoA-2/TIF2, pCIP/ACTR/GRIP-1/AIB1.


Pssm-ID: 462615 [Multi-domain]  Cd Length: 87  Bit Score: 87.06  E-value: 2.22e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  630 TSH-KLVQLLATTAEQQ-----LRHADADTSCKDSLACAGTAGTlASGNPPSSTCPSSHSSLTERHKILHRLLQEG-SPS 702
Cdd:pfam08832    1 KGHkKLLQLLTTPTEQLgpsplRSHADADTDCKDSLAGVTSPSS-GVSSSSGSSCPSHHSSLQEKHKILHRLLQNGnSPD 79


                   ....*...
gi 2509883240  703 DITTLAME 710
Cdd:pfam08832   80 DVAKLTAE 87
Nuc_rec_co-act pfam08815
Nuclear receptor coactivator; This region is found on eukaryotic nuclear receptor coactivators ...
 996-1041 1.20e-15

Nuclear receptor coactivator; This region is found on eukaryotic nuclear receptor coactivators and forms an alpha helical structure.


Pssm-ID: 462608 [Multi-domain]  Cd Length: 47  Bit Score: 72.05  E-value: 1.20e-15
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 2509883240  996 EGRNDEKALLEQLVSFLSGKDETELAELDRALGIDKLV-QGGGLEAL 1041
Cdd:pfam08815    1 EGPSDEGALLDQLVSFLSNTDETGLEEIDRALGIPELVgQGQGLDPD 47
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 118-211 5.07e-12

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 63.81  E-value: 5.07e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  118 LDGFFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVYSILHVGDHAEFvKNLLPKSLVNGVPWPQEAT--RRNSHTFSC 195
Cdd:cd00130      1 LPDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREEL-RERLENLLSGGEPVTLEVRlrRKDGSVIWV 79

                           90
                   ....*....|....*.
gi 2509883240  196 RMLIRPPDEPGAENQE 211
Cdd:cd00130     80 LVSLTPIRDEGGEVIG 95
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 113-170 1.22e-11

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels.


Pssm-ID: 214512  Cd Length: 67  Bit Score: 61.26  E-value: 1.22e-11
                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*...
gi 2509883240   113 LLLEALDGFFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVYSILHVGDHAEFVKNL 170
Cdd:smart00091    5 AILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIHPEDRERVQEAL 62
DUF1518 pfam07469
Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually ...
 1220-1276 1.48e-11

Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually found tandemly repeated in the nuclear receptor coactivator family (NCOA1/2/3, also known as the SRC/p160 nuclear receptor coactivator family, which are ligand-dependent transcription factors.


Pssm-ID: 462174  Cd Length: 58  Bit Score: 60.94  E-value: 1.48e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 2509883240 1220 GLPVQIGAARLPQAPPQQFPYPPNYGTTPGNPPTSTSPFSPL-ASNPEAALANRSSMV 1276
Cdd:pfam07469    1 GMGGQFGGPRNPQAQPQQFPYPPNYGMSQQPDPAFTSALSPQsPMMSPRMGPSQSPMM 58
HLH smart00353
helix loop helix domain;
31-85 1.52e-09

helix loop helix domain;


Pssm-ID: 197674 [Multi-domain]  Cd Length: 53  Bit Score: 54.92  E-value: 1.52e-09
                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*
gi 2509883240    31 EKRRREQENKYLEELAELLSANigdidTLSVKPDKCKILKKTVDQIQQMKRLEQE 85
Cdd:smart00353    4 ERRRRRKINEAFDELRSLLPTL-----PKNKKLSKAEILRLAIEYIKSLQEELQK 53
DUF4927 pfam16279
Domain of unknown function (DUF4927); This family, around 80 residues, consists of ...
 737-827 3.00e-08

Domain of unknown function (DUF4927); This family, around 80 residues, consists of uncharacterized and nuclear receptor coactivator 2 proteins and is mainly found in mammalia species. The specific function of this family is still unknown.


Pssm-ID: 465083  Cd Length: 87  Bit Score: 52.49  E-value: 3.00e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  737 KLEPDALKKKdvKDHQLLRYLLDKDE-KELAAApalsldDVKVKVEKTE-QMEPCNTAPVPLAKpPAAEEVKLETQGQFA 814
Cdd:pfam16279    1 KQEQLSPKKK--KNNALLRYLLDKDDsKDPLSK------DIKPKLEGLDgKTGPCSSSKIPTSK-SEKEESKIKTEPPDE 71

                           90
                   ....*....|...
gi 2509883240  815 AELEQLDQLLPSL 827
Cdd:pfam16279   72 LSLDNLDAILGDL 84
PAS pfam00989
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 114-171 5.37e-08

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain can bind gases (O2, CO and NO), FAD, 4-hydroxycinnamic acid and NAD+ (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 395786 [Multi-domain]  Cd Length: 113  Bit Score: 52.42  E-value: 5.37e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 2509883240  114 LLEALDGFFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVYSILHVGDHAEFVKNLL 171
Cdd:pfam00989    6 ILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEVIGKSLLDLIPEEDDAEVAELLR 63
KinA COG5805
Sporulation sensor histidine kinase A (Stage II sporulation protein SpoIIF/SpoIIJ) [Cell cycle ...
 113-170 3.24e-06

Sporulation sensor histidine kinase A (Stage II sporulation protein SpoIIF/SpoIIJ) [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 444507 [Multi-domain]  Cd Length: 496  Bit Score: 51.66  E-value: 3.24e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 2509883240  113 LLLEALDGFFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVYSILHVGDHAEFVKNL 170
Cdd:COG5805    161 TLIENSPDLICVIDTDGRILFINESIERLFGAPREELIGKNLLELLHPCDKEEFKERI 218
DUF1518 pfam07469
Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually ...
 1292-1339 5.35e-06

Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually found tandemly repeated in the nuclear receptor coactivator family (NCOA1/2/3, also known as the SRC/p160 nuclear receptor coactivator family, which are ligand-dependent transcription factors.


Pssm-ID: 462174  Cd Length: 58  Bit Score: 45.14  E-value: 5.35e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 2509883240 1292 MTPQMQQNIFQYSGS-GMGQQSEPAFAPSLSPSSPLMSPQLPPSQSPML 1339
Cdd:pfam07469   10 RNPQAQPQQFPYPPNyGMSQQPDPAFTSALSPQSPMMSPRMGPSQSPMM 58
PRK10927 PRK10927
cell division protein FtsN;
1162-1267 4.62e-03

cell division protein FtsN;


Pssm-ID: 236797 [Multi-domain]  Cd Length: 319  Bit Score: 40.82  E-value: 4.62e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240 1162 MRAGMQQQITP--QPPLNAQMLAQRQRELySQQHRQRQLMQQRAILMRQQSFGNNLPPSAGLPVQIGAARLPQAPPQ--- 1236
Cdd:PRK10927   125 MQADMRQQPTQlvEVPWNEQTPEQRQQTL-QRQRQAQQLAEQQRLAQQSRTTEQSWQQQTRTSQAAPVQAQPRQSKPast 203

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 2509883240 1237 QFPY-----PPNYGTTPGNPPTStspfSPLASNPEA 1267
Cdd:PRK10927   204 QQPYqdllqTPAHTTAQSKPQQA----APVTRAADA 235
KinE COG5809
Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome ...
 121-333 5.47e-03

Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 444511 [Multi-domain]  Cd Length: 489  Bit Score: 41.11  E-value: 5.47e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  121 FFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVYSILH---VGDHAEFVKNLLPKSLVNGvpWPQEATRRNSHTFSCRM 197
Cdd:COG5809     27 AILILDLEGKILKVNPAAERIFGYTEDELLGTNILDFLHpddEKELREILKLLKEGESRDE--LEFELRHKNGKRLEFSS 104

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  198 LIRPpdepgAENQEARQRYEVMQCFTVSQPKSFKEEGEDFQSCLICIARRLPrpaavtpseSFVTKQDTTGKIISIDTSS 277
Cdd:COG5809    105 KLSP-----IFDQNGDIEGMLAISRDITERKRMEEALRESEEKFRLIFNHSP---------DGIIVTDLDGRIIYANPAA 170

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 2509883240  278 LRAAGrTGWEDLVRKCIYAFFQPQGREpsYAKQLFQEVMTRGTAFSPSYRFTLSDG 333
Cdd:COG5809    171 CKLLG-ISIEELIGKSILELIHSDDQE--NVAAFISQLLKDGGIAQGEVRFWTKDG 223
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 1143-1300 9.71e-03

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 40.56  E-value: 9.71e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240 1143 QNRQAILNQFAANSPVGINMRAGMQQQITPQPPLNAQMLAQRQRELYSQQHrQRQLMQQRAILMRQQSFGNNLPPSA--G 1220
Cdd:TIGR01628  366 QRRAHLQDQFMQLQPRMRQLPMGSPMGGAMGQPPYYGQGPQQQFNGQPLGW-PRMSMMPTPMGPGGPLRPNGLAPMNavR 444

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240 1221 LPVQIGAARLPQAPPQQFPYPPNYGTTPGNPPtstspfsplasnpeaaLANRSSMVNRGMMGGVGGQFGTGMTPQMQQNI 1300
Cdd:TIGR01628  445 APSRNAQNAAQKPPMQPVMYPPNYQSLPLSQD----------------LPQPQSTASQGGQNKKLAQVLASATPQMQKQV 508
 
Name Accession Description Interval E-value
bHLH-PAS_NCoA1_SRC1 cd18948
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 1 ...
 26-86 1.03e-37

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 1 (NCoA-1) and similar proteins; NCoA-1, also termed Class E basic helix-loop-helix protein 74 (bHLHe74), or protein Hin-2, or RIP160, or renal carcinoma antigen NY-REN-52, or steroid receptor coactivator 1 (SRC-1), is a bHLH-PAS nuclear receptor coactivator that directly binds nuclear receptors and stimulates the transcriptional activities in a hormone-dependent fashion.


Pssm-ID: 381518  Cd Length: 61  Bit Score: 135.48  E-value: 1.03e-37
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2509883240   26 TAQSNEKRRREQENKYLEELAELLSANIGDIDTLSVKPDKCKILKKTVDQIQQMKRLEQEK 86
Cdd:cd18948      1 TAQSTEKRRREQENKYLEELAELLSANIGDIDSLSVKPDKCKILKKTVDQIQQMKRLEQEK 61
PAS_11 pfam14598
PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), ...
 258-366 8.96e-37

PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), which binds to an LXXLL motif in the C-terminal region of STAT6 (Signal transducer and activator of transcription 6).


Pssm-ID: 464214 [Multi-domain]  Cd Length: 110  Bit Score: 134.73  E-value: 8.96e-37
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  258 ESFVTKQDTTGKIISIDTsslRAAGRTGWED--LVRKCIYAFFQPQGrePSYAKQLFQEVM-TRGTAFSPSYRFTLSDGT 334
Cdd:pfam14598    2 EQFTTRHDIDGKIISCDT---RAPFSLGYEKdeLVGRSIYDLVHPQD--LRTAKSHLREIIqTRGRATSPSYRLRLRDGD 76

                           90       100       110
                   ....*....|....*....|....*....|..
gi 2509883240  335 VLSAHTKCKLCYPSSPEMQPFIMGIHVIDRDH 366
Cdd:pfam14598   77 FLSVHTKSKLFLNQNSNQQPFIMCTHTILREE 108
bHLH-PAS_NCoA3_SRC3 cd18949
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 3 ...
 29-98 1.04e-28

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 3 (NCoA-3) and similar proteins; NCoA-3, also termed ACTR, or amplified in breast cancer 1 protein (AIB-1), or CBP-interacting protein (pCIP), or Class E basic helix-loop-helix protein 42 (bHLHe42), or receptor-associated coactivator 3 (RAC-3), or steroid receptor coactivator protein 3 (SRC-3), or thyroid hormone receptor activator molecule 1 (TRAM-1), is a bHLH-PAS steroid/nuclear receptor-associated coactivator that directly binds nuclear receptors and stimulates the transcriptional activities in a hormone-dependent fashion. It also plays a central role in creating a multisubunit coactivator complex, which probably acts via remodeling of chromatin.


Pssm-ID: 381519  Cd Length: 73  Bit Score: 110.13  E-value: 1.04e-28
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240   29 SNEKRRREQENKYLEELAELLSANIGDIDTLSVKPDKCKILKKTVDQIQQMKRLEQEKAADDEVQKSDIS 98
Cdd:cd18949      4 SGEKRRREQESKYIEELAELISANLSDIDNFNVKPDKCAILKETVRQIRQIKEQGKSSSNDDDVQKADVS 73
bHLH-PAS_SRC cd11439
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in steroid receptor coactivator ...
 29-83 2.95e-28

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in steroid receptor coactivator (SRC) family; The SRC family of coactivators includes SRC-1 (NcoA-1/p160), SRC-2(TIF2/GRIP1/NcoA-2) and SRC-3(NcoA-3/pCIP/RAC3/ACTR/pCIP/AIB1/TRAM1), which are critical mediators of steroid receptor action. They contain bHLH-PAS domain at the N-terminal that is followed by receptor interacting domain and C-terminal transcriptional activation domain. SRC coactivators interact with nuclear receptors in a ligand-dependent manner and enhance transcriptional activation by the receptor via histone acetylation/methylation.


Pssm-ID: 381445  Cd Length: 58  Bit Score: 108.28  E-value: 2.95e-28
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 2509883240   29 SNEKRRREQENKYLEELAELLSANIGDIDTLSVKPDKCKILKKTVDQIQQMKRLE 83
Cdd:cd11439      4 LNEKRRREQENKYIEELAELISASISDMDSLSVKPDKCAILQETVKQIRQIKEQE 58
NCOA_u2 pfam16665
Unstructured region on nuclear receptor coactivator protein; NCOA_u2 is a region of natively ...
 462-590 3.02e-26

Unstructured region on nuclear receptor coactivator protein; NCOA_u2 is a region of natively unstructured but highly conserved sequence found on higher eukaryote nuclear receptor coactivator proteins. It lies between a PAS domain, pfam14598 and a steroid receptor coactivator domain, pfam08832. The function is not known.


Pssm-ID: 465223 [Multi-domain]  Cd Length: 119  Bit Score: 104.82  E-value: 3.02e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  462 HTLNLSSSPMNSPGITPPQ---FMSPRHRVSpglvprPRVPSNPFSPTMpTMHSPVGMANsgsGGGCGTGGTRPFPSAPI 538
Cdd:pfam16665    1 YGLNMNSPPQGSPGMTPPQqnlMMSPRHRGS------PKMPANQFSPGM-GLHSPMGSVS---SGGSGGGGSRTYSSSSL 70

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|...
gi 2509883240  539 NSMQGLTEGPSTPVGYSTPPPVLRQLSSQSspgrLAMQPMKAE-SKDNKEIAS 590
Cdd:pfam16665   71 NALQAISEGVGNSLGSSLTSPVPKQDSSPN----INSTQQKKEgSSDSKSPSS 119
bHLH-PAS_NCoA2_SRC2 cd18950
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 2 ...
 28-88 1.93e-24

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 2 (NCoA-2) and similar proteins; NCoA-2, also termed Class E basic helix-loop-helix protein 75 (bHLHe75), or transcriptional intermediary factor 2 (TIF2), or steroid receptor coactivator 2 (SRC-2), or glucocorticoid receptor interacting protein-1 (GRIP1), is a bHLH-PAS transcriptional coactivator for steroid receptors and nuclear receptors. It is required with NCoA-1 to control energy balance between white and brown adipose tissues.


Pssm-ID: 381520  Cd Length: 64  Bit Score: 97.84  E-value: 1.93e-24
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2509883240   28 QSNEKRRREQENKYLEELAELLSANIGDIDTLSVKPDKCKILKKTVDQIQQMKrlEQEKAA 88
Cdd:cd18950      5 RSTEKRNREQENKYIEELAELIFANFNDIDNFNVKPDKCAILKETVKQIRQIK--EQEKAA 63
SRC-1 pfam08832
Steroid receptor coactivator; This domain is found in steroid/nuclear receptor coactivators ...
 630-710 2.22e-20

Steroid receptor coactivator; This domain is found in steroid/nuclear receptor coactivators and contains two LXXLL motifs that are involved in receptor binding. The family includes SRC-1/NcoA-1, NcoA-2/TIF2, pCIP/ACTR/GRIP-1/AIB1.


Pssm-ID: 462615 [Multi-domain]  Cd Length: 87  Bit Score: 87.06  E-value: 2.22e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  630 TSH-KLVQLLATTAEQQ-----LRHADADTSCKDSLACAGTAGTlASGNPPSSTCPSSHSSLTERHKILHRLLQEG-SPS 702
Cdd:pfam08832    1 KGHkKLLQLLTTPTEQLgpsplRSHADADTDCKDSLAGVTSPSS-GVSSSSGSSCPSHHSSLQEKHKILHRLLQNGnSPD 79


                   ....*...
gi 2509883240  703 DITTLAME 710
Cdd:pfam08832   80 DVAKLTAE 87
Nuc_rec_co-act pfam08815
Nuclear receptor coactivator; This region is found on eukaryotic nuclear receptor coactivators ...
 996-1041 1.20e-15

Nuclear receptor coactivator; This region is found on eukaryotic nuclear receptor coactivators and forms an alpha helical structure.


Pssm-ID: 462608 [Multi-domain]  Cd Length: 47  Bit Score: 72.05  E-value: 1.20e-15
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 2509883240  996 EGRNDEKALLEQLVSFLSGKDETELAELDRALGIDKLV-QGGGLEAL 1041
Cdd:pfam08815    1 EGPSDEGALLDQLVSFLSNTDETGLEEIDRALGIPELVgQGQGLDPD 47
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 118-211 5.07e-12

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 63.81  E-value: 5.07e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  118 LDGFFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVYSILHVGDHAEFvKNLLPKSLVNGVPWPQEAT--RRNSHTFSC 195
Cdd:cd00130      1 LPDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREEL-RERLENLLSGGEPVTLEVRlrRKDGSVIWV 79

                           90
                   ....*....|....*.
gi 2509883240  196 RMLIRPPDEPGAENQE 211
Cdd:cd00130     80 LVSLTPIRDEGGEVIG 95
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 113-170 1.22e-11

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels.


Pssm-ID: 214512  Cd Length: 67  Bit Score: 61.26  E-value: 1.22e-11
                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*...
gi 2509883240   113 LLLEALDGFFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVYSILHVGDHAEFVKNL 170
Cdd:smart00091    5 AILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIHPEDRERVQEAL 62
DUF1518 pfam07469
Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually ...
 1220-1276 1.48e-11

Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually found tandemly repeated in the nuclear receptor coactivator family (NCOA1/2/3, also known as the SRC/p160 nuclear receptor coactivator family, which are ligand-dependent transcription factors.


Pssm-ID: 462174  Cd Length: 58  Bit Score: 60.94  E-value: 1.48e-11
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 2509883240 1220 GLPVQIGAARLPQAPPQQFPYPPNYGTTPGNPPTSTSPFSPL-ASNPEAALANRSSMV 1276
Cdd:pfam07469    1 GMGGQFGGPRNPQAQPQQFPYPPNYGMSQQPDPAFTSALSPQsPMMSPRMGPSQSPMM 58
HLH smart00353
helix loop helix domain;
31-85 1.52e-09

helix loop helix domain;


Pssm-ID: 197674 [Multi-domain]  Cd Length: 53  Bit Score: 54.92  E-value: 1.52e-09
                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*
gi 2509883240    31 EKRRREQENKYLEELAELLSANigdidTLSVKPDKCKILKKTVDQIQQMKRLEQE 85
Cdd:smart00353    4 ERRRRRKINEAFDELRSLLPTL-----PKNKKLSKAEILRLAIEYIKSLQEELQK 53
DUF4927 pfam16279
Domain of unknown function (DUF4927); This family, around 80 residues, consists of ...
 737-827 3.00e-08

Domain of unknown function (DUF4927); This family, around 80 residues, consists of uncharacterized and nuclear receptor coactivator 2 proteins and is mainly found in mammalia species. The specific function of this family is still unknown.


Pssm-ID: 465083  Cd Length: 87  Bit Score: 52.49  E-value: 3.00e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  737 KLEPDALKKKdvKDHQLLRYLLDKDE-KELAAApalsldDVKVKVEKTE-QMEPCNTAPVPLAKpPAAEEVKLETQGQFA 814
Cdd:pfam16279    1 KQEQLSPKKK--KNNALLRYLLDKDDsKDPLSK------DIKPKLEGLDgKTGPCSSSKIPTSK-SEKEESKIKTEPPDE 71

                           90
                   ....*....|...
gi 2509883240  815 AELEQLDQLLPSL 827
Cdd:pfam16279   72 LSLDNLDAILGDL 84
bHLH_SF cd00083
basic Helix Loop Helix (bHLH) domain superfamily; bHLH proteins are transcriptional regulators ...
 31-81 4.89e-08

basic Helix Loop Helix (bHLH) domain superfamily; bHLH proteins are transcriptional regulators that are found in organisms from yeast to humans. Members of the bHLH superfamily have two highly conserved and functionally distinct regions. The basic part is at the amino end of the bHLH that may bind DNA to a consensus hexanucleotide sequence known as the E box (CANNTG). Different families of bHLH proteins recognize different E-box consensus sequences. At the carboxyl-terminal end of the region is the HLH region that interacts with other proteins to form homo- and heterodimers. bHLH proteins function as a diverse set of regulatory factors because they recognize different DNA sequences and dimerize with different proteins. The bHLH proteins can be divided to cell-type specific and widely expressed proteins. The cell-type specific members of bHLH superfamily are involved in cell-fate determination and act in neurogenesis, cardiogenesis, myogenesis, and hematopoiesis.


Pssm-ID: 381392 [Multi-domain]  Cd Length: 46  Bit Score: 50.60  E-value: 4.89e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 2509883240   31 EKRRREQENKYLEELAELLSANigdidTLSVKPDKCKILKKTVDQIQQMKR 81
Cdd:cd00083      1 ERRRRDKINDAFEELKRLLPEL-----PDSKKLSKASILQKAVEYIRELQS 46
PAS pfam00989
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 114-171 5.37e-08

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain can bind gases (O2, CO and NO), FAD, 4-hydroxycinnamic acid and NAD+ (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 395786 [Multi-domain]  Cd Length: 113  Bit Score: 52.42  E-value: 5.37e-08
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 2509883240  114 LLEALDGFFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVYSILHVGDHAEFVKNLL 171
Cdd:pfam00989    6 ILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEVIGKSLLDLIPEEDDAEVAELLR 63
KinA COG5805
Sporulation sensor histidine kinase A (Stage II sporulation protein SpoIIF/SpoIIJ) [Cell cycle ...
 113-170 3.24e-06

Sporulation sensor histidine kinase A (Stage II sporulation protein SpoIIF/SpoIIJ) [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 444507 [Multi-domain]  Cd Length: 496  Bit Score: 51.66  E-value: 3.24e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 2509883240  113 LLLEALDGFFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVYSILHVGDHAEFVKNL 170
Cdd:COG5805    161 TLIENSPDLICVIDTDGRILFINESIERLFGAPREELIGKNLLELLHPCDKEEFKERI 218
DUF1518 pfam07469
Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually ...
 1292-1339 5.35e-06

Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually found tandemly repeated in the nuclear receptor coactivator family (NCOA1/2/3, also known as the SRC/p160 nuclear receptor coactivator family, which are ligand-dependent transcription factors.


Pssm-ID: 462174  Cd Length: 58  Bit Score: 45.14  E-value: 5.35e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 2509883240 1292 MTPQMQQNIFQYSGS-GMGQQSEPAFAPSLSPSSPLMSPQLPPSQSPML 1339
Cdd:pfam07469   10 RNPQAQPQQFPYPPNyGMSQQPDPAFTSALSPQSPMMSPRMGPSQSPMM 58
bHLHzip_USF_MITF cd11387
basic Helix-Loop-Helix-zipper (bHLHzip) domain found in USF/MITF family; The USF (upstream ...
 30-85 9.70e-06

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in USF/MITF family; The USF (upstream stimulatory factor)/MITF (microphthalmia-associated transcription factor) family includes two bHLHzip transcription factor subfamilies. USFs are ubiquitously expressed and key regulators of a wide number of gene regulation networks, including the stress and immune responses, cell cycle and proliferation, lipid and glucid metabolism. USFs recruit chromatin remodeling enzymes and interact with co-activators and the members of the transcription pre-initiation complex. USFs interact with high affinity to E-box regulatory elements. The MITF (also known as microphthalmia-TFE, or MiT) subfamily comprises four genes in mammals (MITF, TFE3, TFEB, and TFEC); each gene has different functions. MITF is involved in neural crest melanocytes development as well as the pigmented retinal epithelium. TFEB is required for vascularization of the mouse placenta. TFE3 is involved in B cell function. TFEC regulates gene expression in macrophages. The MITF subfamily proteins can form homodimers or heterodimers with each other but not with other bHLH or bHLHzip proteins.


Pssm-ID: 381393 [Multi-domain]  Cd Length: 58  Bit Score: 44.55  E-value: 9.70e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 2509883240   30 NEKRRREQENKYLEELAELLSANigDIDTLSVKPDKCKILKKTVDQIQQMKRLEQE 85
Cdd:cd11387      5 VERRRRDNINEKIQELGSLVPPS--RLETKDLKPNKGSILSKAVEYIRELQNQNQE 58
bHLHzip_Mlx_like cd11404
basic Helix-Loop-Helix-zipper (bHLHzip) domain found in Max-like protein X (Mlx) family; Mlx, ...
 31-88 1.43e-05

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in Max-like protein X (Mlx) family; Mlx, also termed Class D basic helix-loop-helix protein 13 (bHLHd13), or Max-like bHLHZip protein, or protein BigMax, or transcription factor-like protein 4, is a Max-like bHLHZip transcription regulator that interacts with the Max network of transcription factors. It forms a sequence-specific DNA-binding protein complex with some member of Mad family (Mad1 and Mad4) and Mondo family but not the Myc family and bind the E-box DNA to control transcription. The family also includes Saccharomyces cerevisiae INO4, which is a bHLH transcriptional activator of phospholipid synthetic genes (such as INO1, CHO1/PSS, CHO2/PEM1, OPI3/PEM2, etc.). It is required for de-repression of phospholipid biosynthetic gene expression in response to inositol deprivation in yeast.


Pssm-ID: 381410 [Multi-domain]  Cd Length: 70  Bit Score: 44.21  E-value: 1.43e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2509883240   31 EKRRREQENKYLEELAELLSanigdiDTLSVKPDKCKILKKTVDQIQQMK----RLEQEKAA 88
Cdd:cd11404     10 EKKRRELIKKGYDELCALVP------GLDPQKRTKADILQKAADWIQELKeeneKLEEQLDE 65
bHLHzip_scCBP1 cd11398
basic Helix-Loop-Helix-zipper (bHLHzip) domain found in Saccharomyces cerevisiae ...
 31-108 1.59e-05

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in Saccharomyces cerevisiae centromere-binding protein 1 (CBP-1) and similar proteins; CBP-1, also termed centromere promoter factor 1 (CPF1), or centromere-binding factor 1 (CBF1), is a bHLHzip protein that is required for chromosome stability and methionine prototrophy. It binds as a homodimer to the centromere DNA elements I (CDEI, GTCACATG) region of the centromere that is required for optimal centromere function.


Pssm-ID: 381404 [Multi-domain]  Cd Length: 89  Bit Score: 44.64  E-value: 1.59e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240   31 EKRRREQENKYLEELAELLSANIGdidtlsvKPDKCKILKKTVDQIQQMKRLE---QEKAADDEVQKSDISSSSQGVIEK 107
Cdd:cd11398     15 ERRRRENINEGINELAALVPGNAR-------EKNKGAILARAVEYIQELQETEaknIEKWTLEKLLTDQAIAELAALNEK 87


                   .
gi 2509883240  108 E 108
Cdd:cd11398     88 L 88
PAS COG2202
PAS domain [Signal transduction mechanisms];
113-206 2.73e-05

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 47.71  E-value: 2.73e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  113 LLLEALDGFFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVySILHVGDHAEFVKNLLPKSLVNGVPWPQEAT--RRNS 190
Cdd:COG2202     15 ALVESSPDAIIITDLDGRILYVNPAFERLTGYSAEELLGKTL-RDLLPPEDDDEFLELLRAALAGGGVWRGELRnrRKDG 93

                           90
                   ....*....|....*..
gi 2509883240  191 HTFSCRMLIRPP-DEPG 206
Cdd:COG2202     94 SLFWVELSISPVrDEDG 110
bHLH_O_HES cd11410
basic helix-loop-helix-orange (bHLH-O) domain found in hairy and enhancer of split (HES) ...
 31-81 2.87e-05

basic helix-loop-helix-orange (bHLH-O) domain found in hairy and enhancer of split (HES) family; The HES family includes bHLH-O transcriptional regulators that are related to the Drosophila hairy and Enhancer-of-split (HES) proteins. They contain a basic helix-loop-helix (bHLH) domain with an invariant proline residue in its basic region, an orange domain in the central region and a conserved tetrapeptide motif, WRPW, at its C-terminal region. HES family proteins form heterodimers or homodimers via their HLH domain and bind DNA to repress gene transcription that play an essential role in development of both compartment and boundary cells of the central nervous system.


Pssm-ID: 381416 [Multi-domain]  Cd Length: 54  Bit Score: 42.84  E-value: 2.87e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 2509883240   31 EKRRREQENKYLEELAELLSANIGDIDTLSVKPDKCKILKKTVDQIQQMKR 81
Cdd:cd11410      2 EKKRRARINKSLEQLKTLVLEALNKDNTRYSKLEKADILEMTVKYLKQLQR 52
PAS_9 pfam13426
PAS domain; This domain is found in many signalling proteins in which it functions as a sensor ...
 128-201 4.28e-05

PAS domain; This domain is found in many signalling proteins in which it functions as a sensor domain. It recognizes FMN, Zn(II), FAD and riboflavin (MAtilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 463873 [Multi-domain]  Cd Length: 93  Bit Score: 43.60  E-value: 4.28e-05
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2509883240  128 EGRIVFVSENVTSYLGYNQEELMNTSVYSILHVGDHAEFVKNLLpKSLVNGVPWPQEATRRNSHTFSCRMLIRP 201
Cdd:pfam13426    1 DGRIIYVNDAALRLLGYTREELLGKSITDLFAEPEDSERLREAL-REGKAVREFEVVLYRKDGEPFPVLVSLAP 73
bHLH_PAS cd11391
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain family; bHLH-PAS domain has been found ...
 31-82 5.07e-05

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain family; bHLH-PAS domain has been found in a large group of bHLH transcription regulators that are involved in gene expression responding to environmental change and controlling aspects of neural development, including proteins from aryl hydrocarbon receptor nuclear translocator (ARNT) family, hypoxia-inducible factor (HIF) family, aryl hydrocarbon receptor (AhR) family, neuronal PAS domain-containing protein (NPAS) family, Circadian locomotor output cycles protein kaput (CLOCK)-like family, and single-minded (SIM) family. bHLH-PAS transcriptional regulatory factors have a bHLH DNA-binding domain followed by two PAS domains and a C-terminal activation or repression domain. bHLH-PAS family members can be divided into class I and class II based on their dimerization partner. bHLH-PAS class I factors include AhR, HIF and SIM. The best characterized bHLH-PAS Class II protein is the ubiquitous ARNT. Some members of bHLH-PAS family act as transcriptional coactivators (such as NCoA) that lack the ability to dimerize and bind DNA.


Pssm-ID: 381397 [Multi-domain]  Cd Length: 55  Bit Score: 42.18  E-value: 5.07e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2509883240   31 EKRRREQENKYLEELAELL--SANIGdidtlsVKPDKCKILKKTVDQIqQMKRL 82
Cdd:cd11391      8 AKKRRDKENAEISELASLLplPPAVG------SKLDKLSVLRLAVAYL-RLKKF 54
PAS COG2202
PAS domain [Signal transduction mechanisms];
113-188 9.62e-05

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 45.79  E-value: 9.62e-05
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2509883240  113 LLLEALDGFFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVYSILHVGDHAEFVKNLlpKSLVNGVPWPQEATRR 188
Cdd:COG2202    141 LLVENAPDGIFVLDLDGRILYVNPAAEELLGYSPEELLGKSLLDLLHPEDRERLLELL--RRLLEGGRESYELELR 214
bHLH-PAS_ARNT_like cd11437
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in aryl hydrocarbon receptor ...
 31-82 1.29e-04

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in aryl hydrocarbon receptor nuclear translocator (ARNT) family; The ARNT family of bHLH-PAS transcription regulators includes ARNT, ARNT-like proteins (ARNTL and ARNTL2), and Drosophila melanogaster protein cycle. They act as the heterodimeric partner for bHLH-PAS proteins such as aryl hydrocarbon receptor (AhR), hypoxia-inducible factor (HIF), and single-minded (SIM). These bHLH-PAS transcription complexes are involved in transcriptional responses to xenobiotic, hypoxia, and developmental pathways. Heterodimerization of bHLH-PAS proteins with ARNT is mediated by contacts between both the bHLH and the tandem PAS domains. ARNT use bHLH and/or PAS domains to interact with several transcriptional coactivators. It is required for activity of the aryl hydrocarbon (dioxin) receptor. ARNTL, also termed Basic-helix-loop-helix-PAS protein MOP3, or brain and muscle ARNT-like 1 (BMAL1), or Class E basic helix-loop-helix protein 5 (bHLHe5), or member of PAS protein 3, or PAS domain-containing protein 3 (PASD3), or bHLH-PAS protein JAP3, is a member of the bHLH-PAS transcription factor family that forms heterodimers with another bHLH-PAS protein, CLOCK (circadian locomotor output cycle kaput), which regulates circadian rhythm. ARNTL-CLOCK heterodimer complex activates transcription from E-box (CANNTG) elements found in the promoter of circadian responsive genes. ARNTL is highly homologous to ARNT. ARNTL2, also termed Basic-helix-loop-helix-PAS protein MOP9, or brain and muscle ARNT-like 2 (BMAL2), or CYCLE-like factor (CLIF), or Class E basic helix-loop-helix protein 6 (bHLHe6), or member of PAS protein 9, or PAS domain-containing protein 9 (PASD9), is a neuronal bHLH-PAS transcriptional factor, regulating cell cycle progression and preventing cell death, whose sustained expression might ensure brain neuron survival. It also plays important roles in tumor angiogenesis. Protein cycle, also termed brain and muscle ARNT-like 1 (BMAL1), or MOP3, is a putative bHLH-PAS transcription factor involved in the generation of biological rhythms in Drosophila. It activates cycling transcription of Period (PER) and Timeless (TIM) by binding to the E-box (5'-CACGTG-3') present in their promoters.


Pssm-ID: 381443  Cd Length: 58  Bit Score: 41.25  E-value: 1.29e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 2509883240   31 EKRRREQENKYLEELAELLSAnigdIDTLSVKPDKCKILKKTVdqiQQMKRL 82
Cdd:cd11437      9 EKRRRDKMNAYIQELSALVPA----CNAMSRKLDKLTVLRMAV---QHLKSL 53
bHLH-PAS_CLOCK_like cd11441
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in Circadian locomotor output ...
 30-82 1.75e-04

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in Circadian locomotor output cycles protein kaput (CLOCK) and similar proteins; The family includes CLOCK, neuronal PAS domain-containing protein 2 (NPAS2) and non-mammalian circadian clock protein PASD1. CLOCK, also termed Class E basic helix-loop-helix protein 8 (bHLHe8), is a transcriptional activator which forms a core component of the circadian clock. NPAS2, also termed neuronal PAS2, or basic-helix-loop-helix-PAS protein MOP4, or Class E basic helix-loop-helix protein 9 (bHLHe9), or member of PAS protein 4, or PAS domain-containing protein 4, is a transcriptional activator which forms a core component of the circadian clock. PASD1 is evolutionarily related to Circadian locomotor output cycles protein kaput (CLOCK)and functions as a suppressor of the biological clock that drives the daily circadian rhythms of cells throughout the body.


Pssm-ID: 381447  Cd Length: 54  Bit Score: 40.80  E-value: 1.75e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 2509883240   30 NEKRRREQENKYLEELAELLSANigdidtlSVKPDKCKILKKTVDQIQQMKRL 82
Cdd:cd11441      7 SEKKRRDQFNVLINELASMLPGR-------GRKMDKSTVLKKTIAFLRKHKEL 52
KinE COG5809
Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome ...
 93-180 4.45e-04

Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 444511 [Multi-domain]  Cd Length: 489  Bit Score: 44.58  E-value: 4.45e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240   93 QKSDISS---SSQGVIEKESLGPLLLEALDGFFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVYSILHvGDHAEFVKN 169
Cdd:COG5809    122 ISRDITErkrMEEALRESEEKFRLIFNHSPDGIIVTDLDGRIIYANPAACKLLGISIEELIGKSILELIH-SDDQENVAA 200

                           90
                   ....*....|.
gi 2509883240  170 LLPKSLVNGVP 180
Cdd:COG5809    201 FISQLLKDGGI 211
bHLH-O_HES7 cd11462
basic helix-loop-helix-orange (bHLH-O) domain found in hairy and enhancer of split 7 (HES-7) ...
 31-83 6.29e-04

basic helix-loop-helix-orange (bHLH-O) domain found in hairy and enhancer of split 7 (HES-7) and similar proteins; HES-7, also termed Class B basic helix-loop-helix protein 37 (bHLHb37), or bHLH factor Hes7, is a bHLH-O transcriptional repressor that is expressed in an oscillatory manner and acts as a key regulator of the pace of the segmentation clock. It is regulated by the Notch and Fgf/Mapk pathways. HES-7 is one mammalian counterpart of the Hairy and Enhancer of split proteins that play a critical role in many physiological processes including cellular differentiation, cell cycle arrest, apoptosis and self-renewal ability.


Pssm-ID: 381468 [Multi-domain]  Cd Length: 61  Bit Score: 39.25  E-value: 6.29e-04
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 2509883240   31 EKRRREQENKYLEELAELLSANIGDIDTLSVKPDKCKILKKTVDQIQQMKRLE 83
Cdd:cd11462      9 EKRRRDRINRSLEELRVLLLQNTQDEKLKNPKVEKAEILELTVQFLRNSSLSA 61
bHLH-PAS_PASD1 cd19736
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in circadian clock protein PASD1; ...
 30-88 1.18e-03

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in circadian clock protein PASD1; PASD1, also termed PAS domain-containing protein 1, is evolutionarily related to Circadian locomotor output cycles protein kaput (CLOCK)and functions as a suppressor of the biological clock that drives the daily circadian rhythms of cells throughout the body. Mammalian PASD1 doesn't harbor the bHLH-PAS domain and is not included in this family.


Pssm-ID: 381579  Cd Length: 70  Bit Score: 38.92  E-value: 1.18e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 2509883240   30 NEKRRREQENKYLEELAELLSANigdidTLSVKPDKCKILKKTVDQIQQMKRLEQEKAA 88
Cdd:cd19736     17 SEKKRRDQFNVLIKELCTMLQGH-----GHPLKMDKSTILQRTIDFLQKQKEITAQTEA 70
bHLH-PAS_CLOCK cd19734
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in Circadian locomotor output ...
 30-82 1.73e-03

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in Circadian locomotor output cycles protein kaput (CLOCK) and similar proteins; CLOCK, also termed Class E basic helix-loop-helix protein 8 (bHLHe8), is a bHLH-PAS transcriptional activator which forms a core component of the circadian clock. It forms heterodimers with another bHLH-PAS protein, Brain-Muscle-Arnt-Like (also known as BMAL or ARNT3 or mop3), which regulates circadian rhythm. BMAL1-CLOCK heterodimer complex activates transcription from E-box (CANNTG) elements found in the promoter of circadian responsive genes.


Pssm-ID: 381577  Cd Length: 61  Bit Score: 38.08  E-value: 1.73e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|...
gi 2509883240   30 NEKRRREQENKYLEELAELLSANigdidtlSVKPDKCKILKKTVDQIQQMKRL 82
Cdd:cd19734     14 SEKKRRDQFNVLIKELGSMLPGN-------ARKMDKSTVLQKSIDFLRKHKEI 59
bHLHzip_MITF_like cd11397
basic Helix-Loop-Helix-zipper (bHLHzip) domain found in the microphthalmia-associated ...
 31-91 1.76e-03

basic Helix-Loop-Helix-zipper (bHLHzip) domain found in the microphthalmia-associated transcription factor family (MITF) family; The MITF (also known as microphthalmia-TFE, or MiT) family is a small family that contain a basic helix loop helix domain associated with a leucine zipper (bHLHZip). The MITF family comprises four genes in mammals (MITF, TFE3, TFEB, and TFEC); each gene has different functions. MITF is involved in neural crest melanocytes development as well as the pigmented retinal epithelium. TFEB is required for vascularization of the mouse placenta. TFE3 is involved in B cell function. TFEC regulates gene expression in macrophages. The MITF family can form homodimers or heterodimers with each other but not with other bHLH or bHLHzip proteins.


Pssm-ID: 381403  Cd Length: 69  Bit Score: 38.43  E-value: 1.76e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2509883240   31 EKRRREQENKYLEELAELLSANiGDIDtlsVKPDKCKILKKTVDQIQQMKRlEQEKAADDE 91
Cdd:cd11397     13 ERRRRFNINDRIKELGTLLPKS-NDPD---MRWNKGTILKASVDYIRKLQK-EQERLRQLE 68
PRK10927 PRK10927
cell division protein FtsN;
1162-1267 4.62e-03

cell division protein FtsN;


Pssm-ID: 236797 [Multi-domain]  Cd Length: 319  Bit Score: 40.82  E-value: 4.62e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240 1162 MRAGMQQQITP--QPPLNAQMLAQRQRELySQQHRQRQLMQQRAILMRQQSFGNNLPPSAGLPVQIGAARLPQAPPQ--- 1236
Cdd:PRK10927   125 MQADMRQQPTQlvEVPWNEQTPEQRQQTL-QRQRQAQQLAEQQRLAQQSRTTEQSWQQQTRTSQAAPVQAQPRQSKPast 203

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 2509883240 1237 QFPY-----PPNYGTTPGNPPTStspfSPLASNPEA 1267
Cdd:PRK10927   204 QQPYqdllqTPAHTTAQSKPQQA----APVTRAADA 235
KinE COG5809
Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome ...
 121-333 5.47e-03

Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 444511 [Multi-domain]  Cd Length: 489  Bit Score: 41.11  E-value: 5.47e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  121 FFFVVNREGRIVFVSENVTSYLGYNQEELMNTSVYSILH---VGDHAEFVKNLLPKSLVNGvpWPQEATRRNSHTFSCRM 197
Cdd:COG5809     27 AILILDLEGKILKVNPAAERIFGYTEDELLGTNILDFLHpddEKELREILKLLKEGESRDE--LEFELRHKNGKRLEFSS 104

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240  198 LIRPpdepgAENQEARQRYEVMQCFTVSQPKSFKEEGEDFQSCLICIARRLPrpaavtpseSFVTKQDTTGKIISIDTSS 277
Cdd:COG5809    105 KLSP-----IFDQNGDIEGMLAISRDITERKRMEEALRESEEKFRLIFNHSP---------DGIIVTDLDGRIIYANPAA 170

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 2509883240  278 LRAAGrTGWEDLVRKCIYAFFQPQGREpsYAKQLFQEVMTRGTAFSPSYRFTLSDG 333
Cdd:COG5809    171 CKLLG-ISIEELIGKSILELIHSDDQE--NVAAFISQLLKDGGIAQGEVRFWTKDG 223
bHLH-O_HERP_like cd11389
basic helix-loop-helix-orange (bHLH-O) domain found in hairy and enhancer of split (HES) ...
 31-85 7.23e-03

basic helix-loop-helix-orange (bHLH-O) domain found in hairy and enhancer of split (HES)-related repressor protein (HERP)-like family; The HERP-like family includes bHLH-O transcriptional regulators that are related to the Drosophila hairy and Enhancer-of-split proteins. They contain a basic helix-loop-helix (bHLH) domain with an invariant glycine residue in its basic region, an orange domain in the central region and YXXW sequence motif at its C-terminal region. HERP proteins (HEY1, HEY2 and HEYL) act as downstream effectors of Notch signaling. They are involved in cardiovascular development and have roles in somitogenesis, myogenesis and gliogenesis. Hairy and enhancer of split-related protein HELT is a transcriptional repressor expressed in the developing central nervous system. It binds preferentially to the canonical E box sequence 5'-CACGCG-3' and regulates neuronal differentiation and/or identity. Differentially expressed in chondrocytes proteins, DEC1 and DEC2, are widely expressed in both embryonic and adult tissues and have been implicated in apoptosis, cell proliferation, and circadian rhythms, as well as malignancy in various cancers. Drosophila melanogaster protein clockwork orange (Cwo) is also included in this family. It is involved in the regulation of Drosophila circadian rhythms. It functions as both an activator and a repressor of clock gene expression.


Pssm-ID: 381395 [Multi-domain]  Cd Length: 55  Bit Score: 36.15  E-value: 7.23e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 2509883240   31 EKRRREQENKYLEELAELLSANIGDIDtlSVKPDKCKILKKTvdqIQQMKRLEQE 85
Cdd:cd11389      5 EKRRRDRINESLAELRRLVPEARKSKG--SGKLEKAEILEMT---LQHLKALQSS 54
PAS_3 pfam08447
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 131-184 8.19e-03

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya.


Pssm-ID: 430001 [Multi-domain]  Cd Length: 89  Bit Score: 36.93  E-value: 8.19e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 2509883240  131 IVFVSENVTSYLGYNQEELMNT--SVYSILHVGDhAEFVKNLLPKSLVNGVPWPQE 184
Cdd:pfam08447    1 IIYWSPRFEEILGYTPEELLGKgeSWLDLVHPDD-RERVREALWEALKGGEPYSGE 55
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 1143-1300 9.71e-03

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 40.56  E-value: 9.71e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240 1143 QNRQAILNQFAANSPVGINMRAGMQQQITPQPPLNAQMLAQRQRELYSQQHrQRQLMQQRAILMRQQSFGNNLPPSA--G 1220
Cdd:TIGR01628  366 QRRAHLQDQFMQLQPRMRQLPMGSPMGGAMGQPPYYGQGPQQQFNGQPLGW-PRMSMMPTPMGPGGPLRPNGLAPMNavR 444

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2509883240 1221 LPVQIGAARLPQAPPQQFPYPPNYGTTPGNPPtstspfsplasnpeaaLANRSSMVNRGMMGGVGGQFGTGMTPQMQQNI 1300
Cdd:TIGR01628  445 APSRNAQNAAQKPPMQPVMYPPNYQSLPLSQD----------------LPQPQSTASQGGQNKKLAQVLASATPQMQKQV 508
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH