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Conserved domains on  [gi|22547224|ref|NP_003763|]
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jerky protein homolog-like [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 206-385 3.36e-73

DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are probably endonucleases of the DDE superfamily. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction. Interestingly this family also includes the CENP-B protein. This domain in that protein appears to have lost the metal binding residues and is unlikely to have endonuclease activity. Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere.


:

Pssm-ID: 367380  Cd Length: 177  Bit Score: 229.97  E-value: 3.36e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547224   206 EERVTIMCCANATGLHKLKLCVVGKAKKPRSFKST-DTLNLPVSYFSQKGAWMDLSIFRQWFDKIFVPQVREylrskGLQ 284
Cdd:pfam03184   1 KERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKNEkTPKPLPVEYKSNGKAWMTTSIFEEWLQKWFDPRMRE-----SPG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547224   285 EKAVLLLDNSPTHPNENVLRS-DDGQIFAKYLPPNVASLIQPSDQGVIATMKRNYRAGLLQNNLEEGNDLKSFWKKLTLL 363
Cdd:pfam03184  76 RKVLLLLDGSGSHPTVELIRScGLQNIFLVFLPANSTSILQPLDQGVVSTFKANYRRQWLQYLLAGNNLLSPPWKKLTLL 155

                         170       180
                  ....*....|....*....|..
gi 22547224   364 DALYEIAMAWNLVKPVTISRAW 385
Cdd:pfam03184 156 DALKWIAKAWNAVSPSTITSGF 177
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
73-139 2.62e-18

Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;


:

Pssm-ID: 197828  Cd Length: 66  Bit Score: 78.87  E-value: 2.62e-18
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 22547224     73 PSMYEELDRAMLEWFNQQRAKGNPISGPICAKRAEFFFYALGMDgDFNPSAGWLTRFKQRHSIREIN 139
Cdd:smart00674   1 RRLYPLLEKALYEWILRQEALGIPISGEDIREKALEILQRLGLE-NFKASKGWLTRFKKRHNIVKTK 66
CENP-B_N super family cl47877
CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein ...
 4-53 5.34e-11

CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure.


The actual alignment was detected with superfamily member pfam04218:

Pssm-ID: 461229  Cd Length: 53  Bit Score: 57.81  E-value: 5.34e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 22547224     4 KRKRVVLTIKDKLDIIKKLEDGGSSKQLAVIYGIGETTVRDIRKNKEKII 53
Cdd:pfam04218   1 RRKRRSLTLREKIAIIQRYEEGESKASLARRFGVPASTLRRILKNKKKLL 50
 
Name Accession Description Interval E-value
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 206-385 3.36e-73

DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are probably endonucleases of the DDE superfamily. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction. Interestingly this family also includes the CENP-B protein. This domain in that protein appears to have lost the metal binding residues and is unlikely to have endonuclease activity. Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere.


Pssm-ID: 367380  Cd Length: 177  Bit Score: 229.97  E-value: 3.36e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547224   206 EERVTIMCCANATGLHKLKLCVVGKAKKPRSFKST-DTLNLPVSYFSQKGAWMDLSIFRQWFDKIFVPQVREylrskGLQ 284
Cdd:pfam03184   1 KERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKNEkTPKPLPVEYKSNGKAWMTTSIFEEWLQKWFDPRMRE-----SPG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547224   285 EKAVLLLDNSPTHPNENVLRS-DDGQIFAKYLPPNVASLIQPSDQGVIATMKRNYRAGLLQNNLEEGNDLKSFWKKLTLL 363
Cdd:pfam03184  76 RKVLLLLDGSGSHPTVELIRScGLQNIFLVFLPANSTSILQPLDQGVVSTFKANYRRQWLQYLLAGNNLLSPPWKKLTLL 155

                         170       180
                  ....*....|....*....|..
gi 22547224   364 DALYEIAMAWNLVKPVTISRAW 385
Cdd:pfam03184 156 DALKWIAKAWNAVSPSTITSGF 177
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
73-139 2.62e-18

Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;


Pssm-ID: 197828  Cd Length: 66  Bit Score: 78.87  E-value: 2.62e-18
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 22547224     73 PSMYEELDRAMLEWFNQQRAKGNPISGPICAKRAEFFFYALGMDgDFNPSAGWLTRFKQRHSIREIN 139
Cdd:smart00674   1 RRLYPLLEKALYEWILRQEALGIPISGEDIREKALEILQRLGLE-NFKASKGWLTRFKKRHNIVKTK 66
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
76-135 7.33e-16

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 71.89  E-value: 7.33e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 22547224    76 YEELDRAMLEWFNQQRAKGNPISGPICAKRAEFFF--YALGMDGDFNPSAGWLTRFKQRHSI 135
Cdd:pfam03221   1 YPDLEKALYEWILQLRARGIPITGPMIREKALELAqlAADLGEPDFKASKGWLDRFKKRHGI 62
CENP-B_N pfam04218
CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein ...
 4-53 5.34e-11

CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure.


Pssm-ID: 461229  Cd Length: 53  Bit Score: 57.81  E-value: 5.34e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 22547224     4 KRKRVVLTIKDKLDIIKKLEDGGSSKQLAVIYGIGETTVRDIRKNKEKII 53
Cdd:pfam04218   1 RRKRRSLTLREKIAIIQRYEEGESKASLARRFGVPASTLRRILKNKKKLL 50
 
Name Accession Description Interval E-value
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 206-385 3.36e-73

DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are probably endonucleases of the DDE superfamily. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction. Interestingly this family also includes the CENP-B protein. This domain in that protein appears to have lost the metal binding residues and is unlikely to have endonuclease activity. Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere.


Pssm-ID: 367380  Cd Length: 177  Bit Score: 229.97  E-value: 3.36e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547224   206 EERVTIMCCANATGLHKLKLCVVGKAKKPRSFKST-DTLNLPVSYFSQKGAWMDLSIFRQWFDKIFVPQVREylrskGLQ 284
Cdd:pfam03184   1 KERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKNEkTPKPLPVEYKSNGKAWMTTSIFEEWLQKWFDPRMRE-----SPG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22547224   285 EKAVLLLDNSPTHPNENVLRS-DDGQIFAKYLPPNVASLIQPSDQGVIATMKRNYRAGLLQNNLEEGNDLKSFWKKLTLL 363
Cdd:pfam03184  76 RKVLLLLDGSGSHPTVELIRScGLQNIFLVFLPANSTSILQPLDQGVVSTFKANYRRQWLQYLLAGNNLLSPPWKKLTLL 155

                         170       180
                  ....*....|....*....|..
gi 22547224   364 DALYEIAMAWNLVKPVTISRAW 385
Cdd:pfam03184 156 DALKWIAKAWNAVSPSTITSGF 177
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
73-139 2.62e-18

Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;


Pssm-ID: 197828  Cd Length: 66  Bit Score: 78.87  E-value: 2.62e-18
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 22547224     73 PSMYEELDRAMLEWFNQQRAKGNPISGPICAKRAEFFFYALGMDgDFNPSAGWLTRFKQRHSIREIN 139
Cdd:smart00674   1 RRLYPLLEKALYEWILRQEALGIPISGEDIREKALEILQRLGLE-NFKASKGWLTRFKKRHNIVKTK 66
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
76-135 7.33e-16

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 71.89  E-value: 7.33e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 22547224    76 YEELDRAMLEWFNQQRAKGNPISGPICAKRAEFFF--YALGMDGDFNPSAGWLTRFKQRHSI 135
Cdd:pfam03221   1 YPDLEKALYEWILQLRARGIPITGPMIREKALELAqlAADLGEPDFKASKGWLDRFKKRHGI 62
CENP-B_N pfam04218
CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein ...
 4-53 5.34e-11

CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure.


Pssm-ID: 461229  Cd Length: 53  Bit Score: 57.81  E-value: 5.34e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 22547224     4 KRKRVVLTIKDKLDIIKKLEDGGSSKQLAVIYGIGETTVRDIRKNKEKII 53
Cdd:pfam04218   1 RRKRRSLTLREKIAIIQRYEEGESKASLARRFGVPASTLRRILKNKKKLL 50
 
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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