PDB entry 3d2u

View 3d2u on RCSB PDB site
Description: Structure of UL18, a Peptide-Binding Viral MHC Mimic, Bound to a Host Inhibitory Receptor
Class: immune system
Keywords: MHC class I homolog, Disease mutation, Glycation, Glycoprotein, Immune response, Immunoglobulin domain, MHC I, Pyrrolidone carboxylic acid, Secreted, Membrane, Phosphoprotein, Receptor, Transmembrane, IMMUNE SYSTEM
Deposited on 2008-05-08, released 2008-07-08
The last revision prior to the SCOPe 2.02 freeze date was dated 2011-07-13, with a file datestamp of 2011-05-25.
Experiment type: XRAY
Resolution: 2.21 Å
R-factor: 0.241
AEROSPACI score: 0.33 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: UL18 protein
    Species: Human herpesvirus 5 [TaxId:10359]
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q4A1U8 (0-280)
      • engineered (35)
      • engineered (146)
      • variant (185)
      • engineered (219)
      • engineered (258)
  • Chain 'B':
    Compound: Beta-2-microglobulin
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P61769 (0-98)
      • variant (44)
    Domains in SCOPe 2.02: d3d2ub_
  • Chain 'C':
    Compound: actin
    Species: HOMO SAPIENS, synthetic [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: Leukocyte immunoglobulin-like receptor subfamily B member 1
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q8NHL6 (Start-197)
      • variant (44)
      • variant (118)
      • variant (131)
    Domains in SCOPe 2.02: d3d2ud1, d3d2ud2
  • Chain 'E':
    Compound: UL18 protein
    Species: Human herpesvirus 5 [TaxId:10359]
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q4A1U8
      • engineered (35)
      • engineered (146)
      • variant (185)
      • engineered (219)
      • engineered (258)
  • Chain 'F':
    Compound: Beta-2-microglobulin
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P61769 (0-98)
      • variant (44)
    Domains in SCOPe 2.02: d3d2uf_
  • Chain 'G':
    Compound: actin
    Species: HOMO SAPIENS, synthetic [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: Leukocyte immunoglobulin-like receptor subfamily B member 1
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q8NHL6 (Start-197)
      • variant (44)
      • variant (118)
      • variant (131)
    Domains in SCOPe 2.02: d3d2uh1, d3d2uh2
  • Heterogens: NAG, MAN, BMA, FUC, HOH

PDB Chain Sequences:

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >3d2uB (B:)
iqrtpkiqvysrhpaengksnflncyvsgfhpsdievdllkngeriekvehsdlsfskdw
sfyllyyteftptekdeyacrvnhvtlsqpkivkwdrdm

  • Chain 'C':
    No sequence available.

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >3d2uD (D:)
ghlpkptlwaepgsvitqgspvtlrcqggqetqeyrlyrekktapwitripqelvkkgqf
pipsitwehagryrcyygsdtagrsessdplelvvtgayikptlsaqpspvvnsggnvtl
qcdsqvafdgfilckegedehpqclnsqphargssraifsvgpvspsrrwwyrcyaydsn
spyewslpsdllellvlg

    Sequence, based on observed residues (ATOM records): (download) 
    >3d2uD (D:)
pkptlwaepgsvitqgspvtlrcqggqetqeyrlyrekktapwitripqelvkkgqfpip
sitwehagryrcyygsdtagrsessdplelvvtgayikptlsaqpspvvnsggnvtlqcd
sqvafdgfilckeqclnssraifsvgpvspsrrwwyrcyaydsnspyewslpsdllellv
lg

  • Chain 'E':
    No sequence available.

  • Chain 'F':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >3d2uF (F:)
iqrtpkiqvysrhpaengksnflncyvsgfhpsdievdllkngeriekvehsdlsfskdw
sfyllyyteftptekdeyacrvnhvtlsqpkivkwdrdm

  • Chain 'G':
    No sequence available.

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >3d2uH (H:)
ghlpkptlwaepgsvitqgspvtlrcqggqetqeyrlyrekktapwitripqelvkkgqf
pipsitwehagryrcyygsdtagrsessdplelvvtgayikptlsaqpspvvnsggnvtl
qcdsqvafdgfilckegedehpqclnsqphargssraifsvgpvspsrrwwyrcyaydsn
spyewslpsdllellvlg

    Sequence, based on observed residues (ATOM records): (download) 
    >3d2uH (H:)
hlpkptlwaepgsvitqgspvtlrcqggqetqeyrlyrekktapwitripqelvkkgqfp
ipsitwehagryrcyygsdtagrsessdplelvvtgayikptlsaqpspvvnsggnvtlq
cdsqvafdgfilckegeqclnsraifsvgpvspsrrwwyrcyaydsnspyewslpsdlle
llvlg