PDB entry 6s53

View 6s53 on RCSB PDB site
Description: Crystal structure of TRIM21 RING domain in complex with an isopeptide-linked Ube2N~ubiquitin conjugate
Class: ligase
Keywords: E3 ubiquitin ligase, E2 conjugating enzyme, intracellular immunity, viral defence, TRIM21, Ube2N, ubiquitin, LIGASE
Deposited on 2019-06-30, released 2019-09-11
The last revision prior to the SCOPe 2.08 freeze date was dated 2019-10-16, with a file datestamp of 2019-10-11.
Experiment type: XRAY
Resolution: 2.8 Å
R-factor: N/A
AEROSPACI score: 0.17 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: e3 ubiquitin-protein ligase trim21
    Species: Homo sapiens [TaxId:9606]
    Gene: TRIM21, RNF81, RO52, SSA1
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: e3 ubiquitin-protein ligase trim21
    Species: Homo sapiens [TaxId:9606]
    Gene: TRIM21, RNF81, RO52, SSA1
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: Ubiquitin-conjugating enzyme E2 N
    Species: Homo sapiens [TaxId:9606]
    Gene: UBE2N, BLU
    Database cross-references and differences (RAF-indexed):
    • Uniprot P61088 (Start-151)
      • conflict (86)
      • conflict (91)
    Domains in SCOPe 2.08: d6s53c_
  • Chain 'D':
    Compound: Polyubiquitin-C
    Species: Homo sapiens [TaxId:9606]
    Gene: UBC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6s53d_
  • Chain 'E':
    Compound: Ubiquitin-conjugating enzyme E2 N
    Species: Homo sapiens [TaxId:9606]
    Gene: UBE2N, BLU
    Database cross-references and differences (RAF-indexed):
    • Uniprot P61088 (Start-151)
      • conflict (86)
      • conflict (91)
    Domains in SCOPe 2.08: d6s53e_
  • Chain 'F':
    Compound: Polyubiquitin-C
    Species: Homo sapiens [TaxId:9606]
    Gene: UBC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6s53f_
  • Chain 'G':
    Compound: e3 ubiquitin-protein ligase trim21
    Species: Homo sapiens [TaxId:9606]
    Gene: TRIM21, RNF81, RO52, SSA1
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: e3 ubiquitin-protein ligase trim21
    Species: Homo sapiens [TaxId:9606]
    Gene: TRIM21, RNF81, RO52, SSA1
    Database cross-references and differences (RAF-indexed):
  • Chain 'I':
    Compound: Ubiquitin-conjugating enzyme E2 N
    Species: Homo sapiens [TaxId:9606]
    Gene: UBE2N, BLU
    Database cross-references and differences (RAF-indexed):
    • Uniprot P61088 (Start-151)
      • conflict (86)
      • conflict (91)
    Domains in SCOPe 2.08: d6s53i_
  • Chain 'J':
    Compound: Polyubiquitin-C
    Species: Homo sapiens [TaxId:9606]
    Gene: UBC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6s53j_
  • Chain 'K':
    Compound: Ubiquitin-conjugating enzyme E2 N
    Species: Homo sapiens [TaxId:9606]
    Gene: UBE2N, BLU
    Database cross-references and differences (RAF-indexed):
    • Uniprot P61088 (Start-151)
      • conflict (86)
      • conflict (91)
    Domains in SCOPe 2.08: d6s53k_
  • Chain 'L':
    Compound: Polyubiquitin-C
    Species: Homo sapiens [TaxId:9606]
    Gene: UBC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6s53l_
  • Heterogens: ZN, MPD, HOH

PDB Chain Sequences:

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    No sequence available.

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >6s53C (C:)
maglprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpe
eypmaapkvrfmtkiyhpnvdklgrikldiladkwspalqirtvllsiqallsapnpddp
landvaeqwktneaqaietarawtrlyamnni

    Sequence, based on observed residues (ATOM records): (download) 
    >6s53C (C:)
lprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpeeyp
maapkvrfmtkiyhpnvdklgrikldiladkwspalqirtvllsiqallsapnpddplan
dvaeqwktneaqaietarawtrlyamnni

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6s53D (D:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgg

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >6s53E (E:)
maglprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpe
eypmaapkvrfmtkiyhpnvdklgrikldiladkwspalqirtvllsiqallsapnpddp
landvaeqwktneaqaietarawtrlyamnni

    Sequence, based on observed residues (ATOM records): (download) 
    >6s53E (E:)
prriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpeeypm
aapkvrfmtkiyhpnvdklgrikldiladkwspalqirtvllsiqallsapnpddpland
vaeqwktneaqaietarawtrlyamnni

  • Chain 'F':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6s53F (F:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgg

  • Chain 'G':
    No sequence available.

  • Chain 'H':
    No sequence available.

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >6s53I (I:)
maglprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpe
eypmaapkvrfmtkiyhpnvdklgrikldiladkwspalqirtvllsiqallsapnpddp
landvaeqwktneaqaietarawtrlyamnni

    Sequence, based on observed residues (ATOM records): (download) 
    >6s53I (I:)
lprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpeeyp
maapkvrfmtkiyhpnvdklgrikldiladkwspalqirtvllsiqallsapnpddplan
dvaeqwktneaqaietarawtrlyamnni

  • Chain 'J':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6s53J (J:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgg

  • Chain 'K':
    Sequence, based on SEQRES records: (download) 
    >6s53K (K:)
maglprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpe
eypmaapkvrfmtkiyhpnvdklgrikldiladkwspalqirtvllsiqallsapnpddp
landvaeqwktneaqaietarawtrlyamnni

    Sequence, based on observed residues (ATOM records): (download) 
    >6s53K (K:)
lprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpeeyp
maapkvrfmtkiyhpnvdklgrikldiladkwspalqirtvllsiqallsapnpddplan
dvaeqwktneaqaietarawtrlyamnni

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6s53L (L:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgg