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Conserved domains on  [gi|34534936|dbj|BAC87158|]
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unnamed protein product [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Gag_p30 super family cl03444
Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core ...
 189-390 2.67e-35

Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core shell protein. P30 is essential for viral assembly.


The actual alignment was detected with superfamily member pfam02093:

Pssm-ID: 426597  Cd Length: 208  Bit Score: 130.56  E-value: 2.67e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34534936   189 PFSMQDLSQVKEGLGKFSENPGKFLEGFRKLTLTFELTWKDVAILLGQTLSLEERQTIWEAARQC--GDELHLADANYPV 266
Cdd:pfam02093   4 PFSSSDLYNWKNNNPSFSEDPGKLTALIESVLVTHQPTWDDCQQLLGTLLTGEEKQRVLLEARKAvrGNDGRPTQLPNEV 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34534936   267 GAtAVPLQDPNWDYDTPAGicaRNHMLL---CLIEGMKRSQVKPVNYNKLATIDQGPHENPTAFLERLQETLIKHTNLDP 343
Cdd:pfam02093  84 DA-AFPLERPDWDYTTPAG---RNHLVLyrqLLLAGLQNAGRSPTNLAKVKGITQGPNESPSAFLERLKEAYRRYTPYDP 159

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 34534936   344 GSPEGQLVLKDHFLTQAAPDIRRKLRMLALGTRAPMSEILKFASSVF 390
Cdd:pfam02093 160 EDPGQETNVSMSFIWQSAPDIGRKLERLEDLKSKTLGDLVREAEKIF 206
PTZ00368 super family cl31762
universal minicircle sequence binding protein (UMSBP); Provisional
 426-483 9.11e-05

universal minicircle sequence binding protein (UMSBP); Provisional


The actual alignment was detected with superfamily member PTZ00368:

Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 42.49  E-value: 9.11e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 34534936  426 PGCPKDTFPGNCYQCGKPGHWKANCPYGPRGEKPCTACPLCRKLRYWKENCPESQKGP 483
Cdd:PTZ00368  69 PEAPPGSGPRSCYNCGQTGHISRECPNRAKGGAARRACYNCGGEGHISRDCPNAGKRP 126
 
Name Accession Description Interval E-value
Gag_p30 pfam02093
Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core ...
 189-390 2.67e-35

Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core shell protein. P30 is essential for viral assembly.


Pssm-ID: 426597  Cd Length: 208  Bit Score: 130.56  E-value: 2.67e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34534936   189 PFSMQDLSQVKEGLGKFSENPGKFLEGFRKLTLTFELTWKDVAILLGQTLSLEERQTIWEAARQC--GDELHLADANYPV 266
Cdd:pfam02093   4 PFSSSDLYNWKNNNPSFSEDPGKLTALIESVLVTHQPTWDDCQQLLGTLLTGEEKQRVLLEARKAvrGNDGRPTQLPNEV 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34534936   267 GAtAVPLQDPNWDYDTPAGicaRNHMLL---CLIEGMKRSQVKPVNYNKLATIDQGPHENPTAFLERLQETLIKHTNLDP 343
Cdd:pfam02093  84 DA-AFPLERPDWDYTTPAG---RNHLVLyrqLLLAGLQNAGRSPTNLAKVKGITQGPNESPSAFLERLKEAYRRYTPYDP 159

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 34534936   344 GSPEGQLVLKDHFLTQAAPDIRRKLRMLALGTRAPMSEILKFASSVF 390
Cdd:pfam02093 160 EDPGQETNVSMSFIWQSAPDIGRKLERLEDLKSKTLGDLVREAEKIF 206
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 426-483 9.11e-05

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 42.49  E-value: 9.11e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 34534936  426 PGCPKDTFPGNCYQCGKPGHWKANCPYGPRGEKPCTACPLCRKLRYWKENCPESQKGP 483
Cdd:PTZ00368  69 PEAPPGSGPRSCYNCGQTGHISRECPNRAKGGAARRACYNCGGEGHISRDCPNAGKRP 126
ZnF_C2HC smart00343
zinc finger;
437-451 9.86e-04

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 36.27  E-value: 9.86e-04
                           10
                   ....*....|....*
gi 34534936    437 CYQCGKPGHWKANCP 451
Cdd:smart00343   2 CYNCGKEGHIARDCP 16
AIR1 COG5082
Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational ...
 428-482 2.81e-03

Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion];


Pssm-ID: 227414 [Multi-domain]  Cd Length: 190  Bit Score: 39.06  E-value: 2.81e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 34534936 428 CPKdtfPGNCYQCGKPGHWKANCPYGPRGEKPCTACPlcrKLRYWKENCPESQKG 482
Cdd:COG5082  94 CPK---PKKCYNCGETGHLSRDCNPSKDQQKSCFDCN---STRHSSEDCPSIWKH 142
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 435-451 2.97e-03

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


Pssm-ID: 395050 [Multi-domain]  Cd Length: 18  Bit Score: 35.20  E-value: 2.97e-03
                          10
                  ....*....|....*..
gi 34534936   435 GNCYQCGKPGHWKANCP 451
Cdd:pfam00098   1 GKCYNCGEPGHIARDCP 17
 
Name Accession Description Interval E-value
Gag_p30 pfam02093
Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core ...
 189-390 2.67e-35

Gag P30 core shell protein; According to Swiss-Prot annotation this protein is the viral core shell protein. P30 is essential for viral assembly.


Pssm-ID: 426597  Cd Length: 208  Bit Score: 130.56  E-value: 2.67e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34534936   189 PFSMQDLSQVKEGLGKFSENPGKFLEGFRKLTLTFELTWKDVAILLGQTLSLEERQTIWEAARQC--GDELHLADANYPV 266
Cdd:pfam02093   4 PFSSSDLYNWKNNNPSFSEDPGKLTALIESVLVTHQPTWDDCQQLLGTLLTGEEKQRVLLEARKAvrGNDGRPTQLPNEV 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 34534936   267 GAtAVPLQDPNWDYDTPAGicaRNHMLL---CLIEGMKRSQVKPVNYNKLATIDQGPHENPTAFLERLQETLIKHTNLDP 343
Cdd:pfam02093  84 DA-AFPLERPDWDYTTPAG---RNHLVLyrqLLLAGLQNAGRSPTNLAKVKGITQGPNESPSAFLERLKEAYRRYTPYDP 159

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 34534936   344 GSPEGQLVLKDHFLTQAAPDIRRKLRMLALGTRAPMSEILKFASSVF 390
Cdd:pfam02093 160 EDPGQETNVSMSFIWQSAPDIGRKLERLEDLKSKTLGDLVREAEKIF 206
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 426-483 9.11e-05

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 42.49  E-value: 9.11e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 34534936  426 PGCPKDTFPGNCYQCGKPGHWKANCPYGPRGEKPCTACPLCRKLRYWKENCPESQKGP 483
Cdd:PTZ00368  69 PEAPPGSGPRSCYNCGQTGHISRECPNRAKGGAARRACYNCGGEGHISRDCPNAGKRP 126
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 425-483 6.86e-04

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 40.18  E-value: 6.86e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 34534936  425 PPGCPKDTFPgnCYQCGKPGHWKANCPY--GPRGEKPCTAcplCRKLRYWKENCPESQKGP 483
Cdd:PTZ00368  20 APAGAAKARP--CYKCGEPGHLSRECPSapGGRGERSCYN---CGKTGHLSRECPEAPPGS 75
ZnF_C2HC smart00343
zinc finger;
437-451 9.86e-04

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 36.27  E-value: 9.86e-04
                           10
                   ....*....|....*
gi 34534936    437 CYQCGKPGHWKANCP 451
Cdd:smart00343   2 CYNCGKEGHIARDCP 16
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 428-482 1.95e-03

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 38.63  E-value: 1.95e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 34534936  428 CPKDTFPGN---CYQCGKPGHWKANCPYGPRGEKPcTACPLCRKLRYWKENCPESQKG 482
Cdd:PTZ00368  43 CPSAPGGRGersCYNCGKTGHLSRECPEAPPGSGP-RSCYNCGQTGHISRECPNRAKG 99
AIR1 COG5082
Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational ...
 428-482 2.81e-03

Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion];


Pssm-ID: 227414 [Multi-domain]  Cd Length: 190  Bit Score: 39.06  E-value: 2.81e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 34534936 428 CPKdtfPGNCYQCGKPGHWKANCPYGPRGEKPCTACPlcrKLRYWKENCPESQKG 482
Cdd:COG5082  94 CPK---PKKCYNCGETGHLSRDCNPSKDQQKSCFDCN---STRHSSEDCPSIWKH 142
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 435-451 2.97e-03

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


Pssm-ID: 395050 [Multi-domain]  Cd Length: 18  Bit Score: 35.20  E-value: 2.97e-03
                          10
                  ....*....|....*..
gi 34534936   435 GNCYQCGKPGHWKANCP 451
Cdd:pfam00098   1 GKCYNCGEPGHIARDCP 17
 
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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