PDB entry 5fer

View 5fer on RCSB PDB site
Description: Complex of TRIM25 RING with UbcH5-Ub
Class: ligase
Keywords: E3 ligase, ubiquitin, Ligase
Deposited on 2015-12-17, released 2016-05-18
The last revision prior to the SCOPe 2.07 freeze date was dated 2017-09-13, with a file datestamp of 2017-09-08.
Experiment type: XRAY
Resolution: 2.34 Å
R-factor: N/A
AEROSPACI score: 0.24 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: e3 ubiquitin/isg15 ligase trim25
    Species: Homo sapiens [TaxId:9606]
    Gene: TRIM25, EFP, RNF147, ZNF147
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: ubiquitin-conjugating enzyme e2 d1
    Species: Homo sapiens [TaxId:9606]
    Gene: UBE2D1, SFT, UBC5A, UBCH5, UBCH5A
    Database cross-references and differences (RAF-indexed):
    • Uniprot P51668 (3-End)
      • engineered mutation (24)
      • engineered mutation (87)
    Domains in SCOPe 2.07: d5ferb_
  • Chain 'C':
    Compound: Ubiquitin-40S ribosomal protein S27a
    Species: Bos taurus [TaxId:9913]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5ferc_
  • Chain 'D':
    Compound: e3 ubiquitin/isg15 ligase trim25
    Species: Homo sapiens [TaxId:9606]
    Gene: TRIM25, EFP, RNF147, ZNF147
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: ubiquitin-conjugating enzyme e2 d1
    Species: Homo sapiens [TaxId:9606]
    Gene: UBE2D1, SFT, UBC5A, UBCH5, UBCH5A
    Database cross-references and differences (RAF-indexed):
    • Uniprot P51668 (3-End)
      • engineered mutation (24)
      • engineered mutation (87)
    Domains in SCOPe 2.07: d5fere_
  • Chain 'F':
    Compound: Ubiquitin-40S ribosomal protein S27a
    Species: Bos taurus [TaxId:9913]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d5ferf_
  • Heterogens: ZN, HOH

PDB Chain Sequences:

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >5ferB (B:)
gpgmalkriqkelsdlqrdppahcragpvgddlfhwqatimgppdsayqggvffltvhfp
tdypfkppkiafttkiyhpninsngsikldilrsqwspaltvskvllsicsllcdpnpdd
plvpdiaqiyksdkekynrharewtqkyam

    Sequence, based on observed residues (ATOM records): (download) 
    >5ferB (B:)
malkriqkelsdlqrdppahcragpvgddlfhwqatimgppdsayqggvffltvhfptdy
pfkppkiafttkiyhpninsngsikldilrsqwspaltvskvllsicsllcdpnpddplv
pdiaqiyksdkekynrharewtqky

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >5ferC (C:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgg

  • Chain 'D':
    No sequence available.

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >5ferE (E:)
gpgmalkriqkelsdlqrdppahcragpvgddlfhwqatimgppdsayqggvffltvhfp
tdypfkppkiafttkiyhpninsngsikldilrsqwspaltvskvllsicsllcdpnpdd
plvpdiaqiyksdkekynrharewtqkyam

    Sequence, based on observed residues (ATOM records): (download) 
    >5ferE (E:)
malkriqkelsdlqrdppahcragpvgddlfhwqatimgppdsayqggvffltvhfptdy
pfkppkiafttkiyhpninsngsikldilrsqwspaltvskvllsicsllcdpnpddplv
pdiaqiyksdkekynrharewtqkya

  • Chain 'F':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >5ferF (F:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgg