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Conserved domains on  [gi|24415990|ref|NP_081013|]
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PHD finger-like domain-containing protein 5A [Mus musculus]

Protein Classification

PHF5 family protein( domain architecture ID 10508430)

PHF5 family protein is a PHD (plant homeodomain) finger domain-containing protein similar to human PHF5A that is involved with the PAF1 complex in transcriptional elongation by RNA polymerase II, and in regulation of development and maintenance of embryonic stem cell pluripotency, and to Saccharomyces cerevisiae pre-mRNA-splicing factor RDS3 that is a component of the SF3b subcomplex of the U2 snRNP

CATH:  3.30.40.10
Gene Ontology:  GO:0000398|GO:0008270
PubMed:  16297627|21514168
SCOP:  4003778

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PHF5 pfam03660
PHF5-like protein; This family of proteins the superfamily of PHD-finger proteins. At least ...
 1-104 2.77e-62

PHF5-like protein; This family of proteins the superfamily of PHD-finger proteins. At least one example, from mouse, may act as a chromatin-associated protein. The S. pombe ini1 gene is essential, required for splicing. It is localized in the nucleus, but not detected in the nucleolus and can be complemented by human ini1.


:

Pssm-ID: 461008  Cd Length: 104  Bit Score: 184.73  E-value: 2.77e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24415990     1 MAKHHPDLIFCRKQAGVAIGRLCEKCDGKCVICDSYVRPCTLVRICDECNYGSYQGRCVICGGPGVSDAYYCKECTIQEK 80
Cdd:pfam03660   1 MSRHQPDLVMCMKQPGTAIGRLCEKCDGRCPICDSYVRPTTKVRICDECSFGSLGGKCIICGSPGVSDAYYCWECVRLEK 80

                          90       100
                  ....*....|....*....|....
gi 24415990    81 DRDGCPKIVNLGSSKTDLFYERKK 104
Cdd:pfam03660  81 DRDGCPRIINVGSSKTDRFYEKKK 104
 
Name Accession Description Interval E-value
PHF5 pfam03660
PHF5-like protein; This family of proteins the superfamily of PHD-finger proteins. At least ...
 1-104 2.77e-62

PHF5-like protein; This family of proteins the superfamily of PHD-finger proteins. At least one example, from mouse, may act as a chromatin-associated protein. The S. pombe ini1 gene is essential, required for splicing. It is localized in the nucleus, but not detected in the nucleolus and can be complemented by human ini1.


Pssm-ID: 461008  Cd Length: 104  Bit Score: 184.73  E-value: 2.77e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24415990     1 MAKHHPDLIFCRKQAGVAIGRLCEKCDGKCVICDSYVRPCTLVRICDECNYGSYQGRCVICGGPGVSDAYYCKECTIQEK 80
Cdd:pfam03660   1 MSRHQPDLVMCMKQPGTAIGRLCEKCDGRCPICDSYVRPTTKVRICDECSFGSLGGKCIICGSPGVSDAYYCWECVRLEK 80

                          90       100
                  ....*....|....*....|....
gi 24415990    81 DRDGCPKIVNLGSSKTDLFYERKK 104
Cdd:pfam03660  81 DRDGCPRIINVGSSKTDRFYEKKK 104
PRK04023 PRK04023
DNA polymerase II large subunit; Validated
 44-87 7.75e-04

DNA polymerase II large subunit; Validated


Pssm-ID: 235202 [Multi-domain]  Cd Length: 1121  Bit Score: 37.19  E-value: 7.75e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 24415990    44 RICDECNYGSYQGRCVICGGPGVSDaYYCKECTIQEKdRDGCPK 87
Cdd:PRK04023  627 RKCPSCGKETFYRRCPFCGTHTEPV-YRCPRCGIEVE-EDECEK 668
 
Name Accession Description Interval E-value
PHF5 pfam03660
PHF5-like protein; This family of proteins the superfamily of PHD-finger proteins. At least ...
 1-104 2.77e-62

PHF5-like protein; This family of proteins the superfamily of PHD-finger proteins. At least one example, from mouse, may act as a chromatin-associated protein. The S. pombe ini1 gene is essential, required for splicing. It is localized in the nucleus, but not detected in the nucleolus and can be complemented by human ini1.


Pssm-ID: 461008  Cd Length: 104  Bit Score: 184.73  E-value: 2.77e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24415990     1 MAKHHPDLIFCRKQAGVAIGRLCEKCDGKCVICDSYVRPCTLVRICDECNYGSYQGRCVICGGPGVSDAYYCKECTIQEK 80
Cdd:pfam03660   1 MSRHQPDLVMCMKQPGTAIGRLCEKCDGRCPICDSYVRPTTKVRICDECSFGSLGGKCIICGSPGVSDAYYCWECVRLEK 80

                          90       100
                  ....*....|....*....|....
gi 24415990    81 DRDGCPKIVNLGSSKTDLFYERKK 104
Cdd:pfam03660  81 DRDGCPRIINVGSSKTDRFYEKKK 104
PolC_DP2 pfam03833
DNA polymerase II large subunit DP2;
43-109 5.46e-05

DNA polymerase II large subunit DP2;


Pssm-ID: 427537  Cd Length: 866  Bit Score: 40.59  E-value: 5.46e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 24415990    43 VRICDECNYGSYQGRCVICGGPgVSDAYYCKECTIQEKDrDGCPKivnlgSSKTDLFYERKKYGFKK 109
Cdd:pfam03833 620 RRRCPNCGKETFENRCPDCGAH-TEPVYVCPKCGIEVED-EKCPK-----CGREATCVSKIKIDLKK 679
PRK04023 PRK04023
DNA polymerase II large subunit; Validated
 44-87 7.75e-04

DNA polymerase II large subunit; Validated


Pssm-ID: 235202 [Multi-domain]  Cd Length: 1121  Bit Score: 37.19  E-value: 7.75e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 24415990    44 RICDECNYGSYQGRCVICGGPGVSDaYYCKECTIQEKdRDGCPK 87
Cdd:PRK04023  627 RKCPSCGKETFYRRCPFCGTHTEPV-YRCPRCGIEVE-EDECEK 668
 
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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