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Conserved domains on  [gi|260099686|ref|NP_001159420|]
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pogo transposable element with ZNF domain isoform 2 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
1008-1069 8.07e-13

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


:

Pssm-ID: 197828  Cd Length: 66  Bit Score: 64.62  E-value: 8.07e-13
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 260099686   1008 KYLSFEAEEKLAEWVLIQREQQLPVNEETLFQKATKIGRSL-EGGFKISYEWAVRFMLRHHLT 1069
Cdd:smart00674    1 RRLYPLLEKALYEWILRQEALGIPISGEDIREKALEILQRLgLENFKASKGWLTRFKKRHNIV 63
DDE_3 super family cl46863
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 1149-1260 4.06e-11

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.


The actual alignment was detected with superfamily member pfam03184:

Pssm-ID: 481203  Cd Length: 177  Bit Score: 63.18  E-value: 4.06e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 260099686  1149 AILADGTVLPTLVFFRGQ---ANRFANVPDS--ILLEAKDSGYSDDEIMELWSTRVWKKHTACQHS-KSMLVMDCHRTHL 1222
Cdd:pfam03184   10 CNAAGSEKLPPLVIGKGKnprAFKNEKTPKPlpVEYKSNGKAWMTTSIFEEWLQKWFDPRMRESPGrKVLLLLDGSGSHP 89

                           90       100       110
                   ....*....|....*....|....*....|....*...
gi 260099686  1223 SEEVLALLSASSTLPAVVPAGCSSKIQPLDVCIKRTVK 1260
Cdd:pfam03184   90 TVELIRSCGLQNIFLVFLPANSTSILQPLDQGVVSTFK 127
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 834-945 7.74e-04

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 44.16  E-value: 7.74e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 260099686  834 PRGLSWMSHLRPGQASERVFDWSMKNTYLPPPlVPNKAATvkPVGVT-PAEPQELAGPvlqalPSPASTATPPATPthpq 912
Cdd:PHA03247 2712 PHALVSATPLPPGPAAARQASPALPAAPAPPA-VPAGPAT--PGGPArPARPPTTAGP-----PAPAPPAAPAAGP---- 2779

                          90       100       110
                  ....*....|....*....|....*....|...
gi 260099686  913 PSALPPSATEgteclNVSEQEEGSPVTQDPEPA 945
Cdd:PHA03247 2780 PRRLTRPAVA-----SLSESRESLPSPWDPADP 2807
 
Name Accession Description Interval E-value
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
1008-1069 8.07e-13

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


Pssm-ID: 197828  Cd Length: 66  Bit Score: 64.62  E-value: 8.07e-13
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 260099686   1008 KYLSFEAEEKLAEWVLIQREQQLPVNEETLFQKATKIGRSL-EGGFKISYEWAVRFMLRHHLT 1069
Cdd:smart00674    1 RRLYPLLEKALYEWILRQEALGIPISGEDIREKALEILQRLgLENFKASKGWLTRFKKRHNIV 63
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 1149-1260 4.06e-11

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: 63.18  E-value: 4.06e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 260099686  1149 AILADGTVLPTLVFFRGQ---ANRFANVPDS--ILLEAKDSGYSDDEIMELWSTRVWKKHTACQHS-KSMLVMDCHRTHL 1222
Cdd:pfam03184   10 CNAAGSEKLPPLVIGKGKnprAFKNEKTPKPlpVEYKSNGKAWMTTSIFEEWLQKWFDPRMRESPGrKVLLLLDGSGSHP 89

                           90       100       110
                   ....*....|....*....|....*....|....*...
gi 260099686  1223 SEEVLALLSASSTLPAVVPAGCSSKIQPLDVCIKRTVK 1260
Cdd:pfam03184   90 TVELIRSCGLQNIFLVFLPANSTSILQPLDQGVVSTFK 127
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
1013-1069 2.18e-07

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 49.17  E-value: 2.18e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 260099686  1013 EAEEKLAEWVLIQREQQLPVNEETLFQKATKIGRSL----EGGFKISYEWAVRFMLRHHLT 1069
Cdd:pfam03221    3 DLEKALYEWILQLRARGIPITGPMIREKALELAQLAadlgEPDFKASKGWLDRFKKRHGIK 63
PHA03247 PHA03247
large tegument protein UL36; Provisional
 834-945 7.74e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 44.16  E-value: 7.74e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 260099686  834 PRGLSWMSHLRPGQASERVFDWSMKNTYLPPPlVPNKAATvkPVGVT-PAEPQELAGPvlqalPSPASTATPPATPthpq 912
Cdd:PHA03247 2712 PHALVSATPLPPGPAAARQASPALPAAPAPPA-VPAGPAT--PGGPArPARPPTTAGP-----PAPAPPAAPAAGP---- 2779

                          90       100       110
                  ....*....|....*....|....*....|...
gi 260099686  913 PSALPPSATEgteclNVSEQEEGSPVTQDPEPA 945
Cdd:PHA03247 2780 PRRLTRPAVA-----SLSESRESLPSPWDPADP 2807
 
Name Accession Description Interval E-value
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
1008-1069 8.07e-13

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


Pssm-ID: 197828  Cd Length: 66  Bit Score: 64.62  E-value: 8.07e-13
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 260099686   1008 KYLSFEAEEKLAEWVLIQREQQLPVNEETLFQKATKIGRSL-EGGFKISYEWAVRFMLRHHLT 1069
Cdd:smart00674    1 RRLYPLLEKALYEWILRQEALGIPISGEDIREKALEILQRLgLENFKASKGWLTRFKKRHNIV 63
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 1149-1260 4.06e-11

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: 63.18  E-value: 4.06e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 260099686  1149 AILADGTVLPTLVFFRGQ---ANRFANVPDS--ILLEAKDSGYSDDEIMELWSTRVWKKHTACQHS-KSMLVMDCHRTHL 1222
Cdd:pfam03184   10 CNAAGSEKLPPLVIGKGKnprAFKNEKTPKPlpVEYKSNGKAWMTTSIFEEWLQKWFDPRMRESPGrKVLLLLDGSGSHP 89

                           90       100       110
                   ....*....|....*....|....*....|....*...
gi 260099686  1223 SEEVLALLSASSTLPAVVPAGCSSKIQPLDVCIKRTVK 1260
Cdd:pfam03184   90 TVELIRSCGLQNIFLVFLPANSTSILQPLDQGVVSTFK 127
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
1013-1069 2.18e-07

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 49.17  E-value: 2.18e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 260099686  1013 EAEEKLAEWVLIQREQQLPVNEETLFQKATKIGRSL----EGGFKISYEWAVRFMLRHHLT 1069
Cdd:pfam03221    3 DLEKALYEWILQLRARGIPITGPMIREKALELAQLAadlgEPDFKASKGWLDRFKKRHGIK 63
PHA03247 PHA03247
large tegument protein UL36; Provisional
 834-945 7.74e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 44.16  E-value: 7.74e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 260099686  834 PRGLSWMSHLRPGQASERVFDWSMKNTYLPPPlVPNKAATvkPVGVT-PAEPQELAGPvlqalPSPASTATPPATPthpq 912
Cdd:PHA03247 2712 PHALVSATPLPPGPAAARQASPALPAAPAPPA-VPAGPAT--PGGPArPARPPTTAGP-----PAPAPPAAPAAGP---- 2779

                          90       100       110
                  ....*....|....*....|....*....|...
gi 260099686  913 PSALPPSATEgteclNVSEQEEGSPVTQDPEPA 945
Cdd:PHA03247 2780 PRRLTRPAVA-----SLSESRESLPSPWDPADP 2807
PLN03209 PLN03209
translocon at the inner envelope of chloroplast subunit 62; Provisional
 863-966 9.66e-04

translocon at the inner envelope of chloroplast subunit 62; Provisional


Pssm-ID: 178748 [Multi-domain]  Cd Length: 576  Bit Score: 43.38  E-value: 9.66e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 260099686  863 PPPLVPNKAATVKPVGVTPAEPQELAGPVLQALPSPASTAT-------------PPATPTHPQPSALPPSATEgTECLNV 929
Cdd:PLN03209  328 VPPKESDAADGPKPVPTKPVTPEAPSPPIEEEPPQPKAVVPrplspytayedlkPPTSPIPTPPSSSPASSKS-VDAVAK 406

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 260099686  930 seqeegsPVTQDPEPASGGGGGSGVGKKEQLSVKKLR 966
Cdd:PLN03209  407 -------PAEPDVVPSPGSASNVPEVEPAQVEAKKTR 436
 
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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