PDB entry 4kdm

View 4kdm on RCSB PDB site
Description: Crystal structure of the hemagglutinin of ferret-transmissible H5N1 virus
Class: viral protein
Keywords: homotrimer, virus attachment and membrane fusion, VIRAL PROTEIN
Deposited on 2013-04-25, released 2013-07-24
The last revision prior to the SCOPe 2.06 freeze date was dated 2014-10-29, with a file datestamp of 2014-10-24.
Experiment type: XRAY
Resolution: 2.5 Å
R-factor: 0.217
AEROSPACI score: 0.23 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Hemagglutinin
    Species: Influenza A virus [TaxId:284218]
    Gene: HA
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q6DQ33 (1-321)
      • expression tag (0)
      • engineered mutation (154)
      • engineered mutation (220)
      • engineered mutation (222)
      • engineered mutation (315)
    Domains in SCOPe 2.06: d4kdma1, d4kdma2
  • Chain 'B':
    Compound: Hemagglutinin
    Species: Influenza A virus [TaxId:284218]
    Gene: HA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4kdmb_
  • Chain 'C':
    Compound: Hemagglutinin
    Species: Influenza A virus [TaxId:284218]
    Gene: HA
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q6DQ33 (1-321)
      • expression tag (0)
      • engineered mutation (154)
      • engineered mutation (220)
      • engineered mutation (222)
      • engineered mutation (315)
    Domains in SCOPe 2.06: d4kdmc1, d4kdmc2
  • Chain 'D':
    Compound: Hemagglutinin
    Species: Influenza A virus [TaxId:284218]
    Gene: HA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4kdmd_
  • Chain 'E':
    Compound: Hemagglutinin
    Species: Influenza A virus [TaxId:284218]
    Gene: HA
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q6DQ33 (1-321)
      • expression tag (0)
      • engineered mutation (154)
      • engineered mutation (220)
      • engineered mutation (222)
      • engineered mutation (315)
    Domains in SCOPe 2.06: d4kdme1, d4kdme2
  • Chain 'F':
    Compound: Hemagglutinin
    Species: Influenza A virus [TaxId:284218]
    Gene: HA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4kdmf_
  • Heterogens: NAG, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4kdmA (A:)
qdqicigyhannsteqvdtimeknvtvthaqdilekkhngklcdldgvkplilrdcsvag
wllgnpmcdefinvpewsyivekanpvndlcypgdfndyeelkhllsrinhfekiqiipk
sswssheaslgvssacpyqgkssffrnvvwlikkdstyptikrsynntnqedllvlwgih
hpndaaeqtklyqnpttyisvgtstlnqrlvpriatrskvkglsgrmeffwtilkpndai
nfesngnfiapeyaykivkkgdstimkseleygncntkcqtpmgainssmpfhnihplti
gecpkyvksnrlvlaiglrnsp

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4kdmB (B:)
glfgaiagfieggwqgmvdgwygyhhsneqgsgyaadkestqkaidgvtnkvnsiidkmn
tqfeavgrefnnlerrienlnkkmedgfldvwtynaellvlmenertldfhdsnvknlyd
kvrlqlrdnakelgngcfefyhkcdnecmesvrngtydypqyseearlkreeisg

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4kdmC (C:)
qdqicigyhannsteqvdtimeknvtvthaqdilekkhngklcdldgvkplilrdcsvag
wllgnpmcdefinvpewsyivekanpvndlcypgdfndyeelkhllsrinhfekiqiipk
sswssheaslgvssacpyqgkssffrnvvwlikkdstyptikrsynntnqedllvlwgih
hpndaaeqtklyqnpttyisvgtstlnqrlvpriatrskvkglsgrmeffwtilkpndai
nfesngnfiapeyaykivkkgdstimkseleygncntkcqtpmgainssmpfhnihplti
gecpkyvksnrlvlaiglrnsp

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4kdmD (D:)
glfgaiagfieggwqgmvdgwygyhhsneqgsgyaadkestqkaidgvtnkvnsiidkmn
tqfeavgrefnnlerrienlnkkmedgfldvwtynaellvlmenertldfhdsnvknlyd
kvrlqlrdnakelgngcfefyhkcdnecmesvrngtydypqyseearlkreeisg

  • Chain 'E':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4kdmE (E:)
qdqicigyhannsteqvdtimeknvtvthaqdilekkhngklcdldgvkplilrdcsvag
wllgnpmcdefinvpewsyivekanpvndlcypgdfndyeelkhllsrinhfekiqiipk
sswssheaslgvssacpyqgkssffrnvvwlikkdstyptikrsynntnqedllvlwgih
hpndaaeqtklyqnpttyisvgtstlnqrlvpriatrskvkglsgrmeffwtilkpndai
nfesngnfiapeyaykivkkgdstimkseleygncntkcqtpmgainssmpfhnihplti
gecpkyvksnrlvlaiglrnsp

  • Chain 'F':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4kdmF (F:)
glfgaiagfieggwqgmvdgwygyhhsneqgsgyaadkestqkaidgvtnkvnsiidkmn
tqfeavgrefnnlerrienlnkkmedgfldvwtynaellvlmenertldfhdsnvknlyd
kvrlqlrdnakelgngcfefyhkcdnecmesvrngtydypqyseearlkreeisg