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Conserved domains on  [gi|19115495|ref|NP_594583|]
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CENP-B protein 1 [Schizosaccharomyces pombe]

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 ...
 207-384 1.44e-69

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: 220.34  E-value: 1.44e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115495   207 KAKVSLIMCCNADGSERLPLWIVGYAQNPRSFEQcGIFPKSMNFEWKWNGRASISPIIMEEWL-RWFDTRMQ---GRKVL 282
Cdd:pfam03184   1 KERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKN-EKTPKPLPVEYKSNGKAWMTTSIFEEWLqKWFDPRMRespGRKVL 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115495   283 LMLESNDTYQfGVESVRrfKGGFQNTSVFRIPEKTLDIKSPFEQGIVDTFKANYRRYWLQYSLNQINILRDPLKAVNVLK 362
Cdd:pfam03184  80 LLLDGSGSHP-TVELIR--SCGLQNIFLVFLPANSTSILQPLDQGVVSTFKANYRRQWLQYLLAGNNLLSPPWKKLTLLD 156

                         170       180
                  ....*....|....*....|..
gi 19115495   363 AIRWMLWSWNfGVSEKTIQASF 384
Cdd:pfam03184 157 ALKWIAKAWN-AVSPSTITSGF 177
HTH_ABP1_N super family cl39496
Fission yeast centromere protein N-terminal domain; This domain is found in the fission yeast ...
 5-64 1.19e-19

Fission yeast centromere protein N-terminal domain; This domain is found in the fission yeast centromere protein (Abp1) in species such as Shizosaccharomyces pombe. The domain, referred to as Domain 1, is DNA-binding and makes up half of the N-terminal region.


The actual alignment was detected with superfamily member pfam18107:

Pssm-ID: 407941  Cd Length: 61  Bit Score: 82.72  E-value: 1.19e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115495     5 RQAVSLAEKKAIRDYYNQSAHRIPQKEVTEWFRKTYNKDLSQSTISEILSPKYSYLDDGS 64
Cdd:pfam18107   2 RKPISNEQKKALRAWYFRQNPRPSQKALRTWFEQRYGQPISQSTVSRILSSKYDYLDDAN 61
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
76-143 6.43e-17

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


:

Pssm-ID: 197828  Cd Length: 66  Bit Score: 75.02  E-value: 6.43e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 19115495     76 PKFPLLDNAVYEWLQQREVEGLPISGDMIKQAATRFWSKIPayasLPLPDFSNGWLDKFRRRHYIQQS 143
Cdd:smart00674   2 RLYPLLEKALYEWILRQEALGIPISGEDIREKALEILQRLG----LENFKASKGWLTRFKKRHNIVKT 65
 
Name Accession Description Interval E-value
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 207-384 1.44e-69

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: 220.34  E-value: 1.44e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115495   207 KAKVSLIMCCNADGSERLPLWIVGYAQNPRSFEQcGIFPKSMNFEWKWNGRASISPIIMEEWL-RWFDTRMQ---GRKVL 282
Cdd:pfam03184   1 KERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKN-EKTPKPLPVEYKSNGKAWMTTSIFEEWLqKWFDPRMRespGRKVL 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115495   283 LMLESNDTYQfGVESVRrfKGGFQNTSVFRIPEKTLDIKSPFEQGIVDTFKANYRRYWLQYSLNQINILRDPLKAVNVLK 362
Cdd:pfam03184  80 LLLDGSGSHP-TVELIR--SCGLQNIFLVFLPANSTSILQPLDQGVVSTFKANYRRQWLQYLLAGNNLLSPPWKKLTLLD 156

                         170       180
                  ....*....|....*....|..
gi 19115495   363 AIRWMLWSWNfGVSEKTIQASF 384
Cdd:pfam03184 157 ALKWIAKAWN-AVSPSTITSGF 177
HTH_ABP1_N pfam18107
Fission yeast centromere protein N-terminal domain; This domain is found in the fission yeast ...
 5-64 1.19e-19

Fission yeast centromere protein N-terminal domain; This domain is found in the fission yeast centromere protein (Abp1) in species such as Shizosaccharomyces pombe. The domain, referred to as Domain 1, is DNA-binding and makes up half of the N-terminal region.


Pssm-ID: 407941  Cd Length: 61  Bit Score: 82.72  E-value: 1.19e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115495     5 RQAVSLAEKKAIRDYYNQSAHRIPQKEVTEWFRKTYNKDLSQSTISEILSPKYSYLDDGS 64
Cdd:pfam18107   2 RKPISNEQKKALRAWYFRQNPRPSQKALRTWFEQRYGQPISQSTVSRILSSKYDYLDDAN 61
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
76-143 6.43e-17

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


Pssm-ID: 197828  Cd Length: 66  Bit Score: 75.02  E-value: 6.43e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 19115495     76 PKFPLLDNAVYEWLQQREVEGLPISGDMIKQAATRFWSKIPayasLPLPDFSNGWLDKFRRRHYIQQS 143
Cdd:smart00674   2 RLYPLLEKALYEWILRQEALGIPISGEDIREKALEILQRLG----LENFKASKGWLTRFKKRHNIVKT 65
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
78-140 3.04e-16

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 73.05  E-value: 3.04e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 19115495    78 FPLLDNAVYEWLQQREVEGLPISGDMIKQAATRFWsKIPAYASLPLPDFSNGWLDKFRRRHYI 140
Cdd:pfam03221   1 YPDLEKALYEWILQLRARGIPITGPMIREKALELA-QLAADLGEPDFKASKGWLDRFKKRHGI 62
 
Name Accession Description Interval E-value
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 207-384 1.44e-69

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: 220.34  E-value: 1.44e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115495   207 KAKVSLIMCCNADGSERLPLWIVGYAQNPRSFEQcGIFPKSMNFEWKWNGRASISPIIMEEWL-RWFDTRMQ---GRKVL 282
Cdd:pfam03184   1 KERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKN-EKTPKPLPVEYKSNGKAWMTTSIFEEWLqKWFDPRMRespGRKVL 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115495   283 LMLESNDTYQfGVESVRrfKGGFQNTSVFRIPEKTLDIKSPFEQGIVDTFKANYRRYWLQYSLNQINILRDPLKAVNVLK 362
Cdd:pfam03184  80 LLLDGSGSHP-TVELIR--SCGLQNIFLVFLPANSTSILQPLDQGVVSTFKANYRRQWLQYLLAGNNLLSPPWKKLTLLD 156

                         170       180
                  ....*....|....*....|..
gi 19115495   363 AIRWMLWSWNfGVSEKTIQASF 384
Cdd:pfam03184 157 ALKWIAKAWN-AVSPSTITSGF 177
HTH_ABP1_N pfam18107
Fission yeast centromere protein N-terminal domain; This domain is found in the fission yeast ...
 5-64 1.19e-19

Fission yeast centromere protein N-terminal domain; This domain is found in the fission yeast centromere protein (Abp1) in species such as Shizosaccharomyces pombe. The domain, referred to as Domain 1, is DNA-binding and makes up half of the N-terminal region.


Pssm-ID: 407941  Cd Length: 61  Bit Score: 82.72  E-value: 1.19e-19
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 19115495     5 RQAVSLAEKKAIRDYYNQSAHRIPQKEVTEWFRKTYNKDLSQSTISEILSPKYSYLDDGS 64
Cdd:pfam18107   2 RKPISNEQKKALRAWYFRQNPRPSQKALRTWFEQRYGQPISQSTVSRILSSKYDYLDDAN 61
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
76-143 6.43e-17

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


Pssm-ID: 197828  Cd Length: 66  Bit Score: 75.02  E-value: 6.43e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 19115495     76 PKFPLLDNAVYEWLQQREVEGLPISGDMIKQAATRFWSKIPayasLPLPDFSNGWLDKFRRRHYIQQS 143
Cdd:smart00674   2 RLYPLLEKALYEWILRQEALGIPISGEDIREKALEILQRLG----LENFKASKGWLTRFKKRHNIVKT 65
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
78-140 3.04e-16

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 73.05  E-value: 3.04e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 19115495    78 FPLLDNAVYEWLQQREVEGLPISGDMIKQAATRFWsKIPAYASLPLPDFSNGWLDKFRRRHYI 140
Cdd:pfam03221   1 YPDLEKALYEWILQLRARGIPITGPMIREKALELA-QLAADLGEPDFKASKGWLDRFKKRHGI 62
 
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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