PDB entry 4di6

View 4di6 on RCSB PDB site
Description: crystal structure of nucleoside-diphosphate kinase from Borrelia burgdorferi
Class: transferase
Keywords: SSGCID, NUCLEOSIDE DIPHOSPHATE KINASE, KINASE, Structural Genomics, Seattle Structural Genomics Center for Infectious Disease, NIAID, National Institute of Allergy and Infectious Diseases, TRANSFERASE
Deposited on 2012-01-30, released 2012-02-08
The last revision prior to the SCOPe 2.08 freeze date was dated 2018-06-13, with a file datestamp of 2018-06-08.
Experiment type: XRAY
Resolution: 2.4 Å
R-factor: N/A
AEROSPACI score: 0.23 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Nucleoside diphosphate kinase
    Species: Borrelia burgdorferi [TaxId:139]
    Gene: ndk, BB_0463
    Database cross-references and differences (RAF-indexed):
    • Uniprot O51419 (23-189)
      • expression tag (21-22)
    Domains in SCOPe 2.08: d4di6a1, d4di6a2
  • Chain 'B':
    Compound: Nucleoside diphosphate kinase
    Species: Borrelia burgdorferi [TaxId:139]
    Gene: ndk, BB_0463
    Database cross-references and differences (RAF-indexed):
    • Uniprot O51419 (23-189)
      • expression tag (21-22)
    Domains in SCOPe 2.08: d4di6b1, d4di6b2
  • Chain 'C':
    Compound: Nucleoside diphosphate kinase
    Species: Borrelia burgdorferi [TaxId:139]
    Gene: ndk, BB_0463
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d4di6c_
  • Chain 'D':
    Compound: Nucleoside diphosphate kinase
    Species: Borrelia burgdorferi [TaxId:139]
    Gene: ndk, BB_0463
    Database cross-references and differences (RAF-indexed):
    • Uniprot O51419 (23-189)
      • expression tag (21-22)
    Domains in SCOPe 2.08: d4di6d1, d4di6d2
  • Chain 'E':
    Compound: Nucleoside diphosphate kinase
    Species: Borrelia burgdorferi [TaxId:139]
    Gene: ndk, BB_0463
    Database cross-references and differences (RAF-indexed):
    • Uniprot O51419 (23-189)
      • expression tag (22)
    Domains in SCOPe 2.08: d4di6e1, d4di6e2
  • Chain 'F':
    Compound: Nucleoside diphosphate kinase
    Species: Borrelia burgdorferi [TaxId:139]
    Gene: ndk, BB_0463
    Database cross-references and differences (RAF-indexed):
    • Uniprot O51419 (23-189)
      • expression tag (22)
    Domains in SCOPe 2.08: d4di6f1, d4di6f2
  • Heterogens: HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >4di6A (A:)
mahhhhhhmgtleaqtqgpgsmsmllqktlcivkpdgvrrgligdvvsrfervglkmvaa
kmlivdeslakkhylyddivfrhseavwnslikfisnspvftfvvegvesievvrklcga
tepklaipgtirgdfsyhsfkysnekgfsiynvihasaneadamreipiwfkdneilnyk
rddecehyyc

    Sequence, based on observed residues (ATOM records): (download) 
    >4di6A (A:)
msmllqktlcivkpdgvrrgligdvvsrfervglkmvaakmlivdeslakkhylyddivf
rhseavwnslikfisnspvftfvvegvesievvrklcgatepklaipgtirgdfsyhsfk
ysnekgfsiynvihasaneadamreipiwfkdneilnykrddecehyyc

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >4di6B (B:)
mahhhhhhmgtleaqtqgpgsmsmllqktlcivkpdgvrrgligdvvsrfervglkmvaa
kmlivdeslakkhylyddivfrhseavwnslikfisnspvftfvvegvesievvrklcga
tepklaipgtirgdfsyhsfkysnekgfsiynvihasaneadamreipiwfkdneilnyk
rddecehyyc

    Sequence, based on observed residues (ATOM records): (download) 
    >4di6B (B:)
msmllqktlcivkpdgvrrgligdvvsrfervglkmvaakmlivdeslakkhylyddivf
rhseavwnslikfisnspvftfvvegvesievvrklcgatepklaipgtirgdfsyhsfk
ysnekgfsiynvihasaneadamreipiwfkdneilnykrddecehyyc

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >4di6C (C:)
mahhhhhhmgtleaqtqgpgsmsmllqktlcivkpdgvrrgligdvvsrfervglkmvaa
kmlivdeslakkhylyddivfrhseavwnslikfisnspvftfvvegvesievvrklcga
tepklaipgtirgdfsyhsfkysnekgfsiynvihasaneadamreipiwfkdneilnyk
rddecehyyc

    Sequence, based on observed residues (ATOM records): (download) 
    >4di6C (C:)
llqktlcivkpdgvrrgligdvvsrfervglkmvaakmlivdeslakkhylyddivfrhs
eavwnslikfisnspvftfvvegvesievvrklcgatepklaipgtirgdfsyhsfkysn
ekgfsiynvihasaneadamreipiwfkdneilnykrddecehyyc

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >4di6D (D:)
mahhhhhhmgtleaqtqgpgsmsmllqktlcivkpdgvrrgligdvvsrfervglkmvaa
kmlivdeslakkhylyddivfrhseavwnslikfisnspvftfvvegvesievvrklcga
tepklaipgtirgdfsyhsfkysnekgfsiynvihasaneadamreipiwfkdneilnyk
rddecehyyc

    Sequence, based on observed residues (ATOM records): (download) 
    >4di6D (D:)
msmllqktlcivkpdgvrrgligdvvsrfervglkmvaakmlivdeslakkhylyddivf
rhseavwnslikfisnspvftfvvegvesievvrklcgatepklaipgtirgdfsyhsfk
ysnekgfsiynvihasaneadamreipiwfkdneilnykrddecehyyc

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >4di6E (E:)
mahhhhhhmgtleaqtqgpgsmsmllqktlcivkpdgvrrgligdvvsrfervglkmvaa
kmlivdeslakkhylyddivfrhseavwnslikfisnspvftfvvegvesievvrklcga
tepklaipgtirgdfsyhsfkysnekgfsiynvihasaneadamreipiwfkdneilnyk
rddecehyyc

    Sequence, based on observed residues (ATOM records): (download) 
    >4di6E (E:)
smllqktlcivkpdgvrrgligdvvsrfervglkmvaakmlivdeslakkhylyddivfr
hseavwnslikfisnspvftfvvegvesievvrklcgatepklaipgtirgdfsyhsfky
snekgfsiynvihasaneadamreipiwfkdneilnykrddecehyyc

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >4di6F (F:)
mahhhhhhmgtleaqtqgpgsmsmllqktlcivkpdgvrrgligdvvsrfervglkmvaa
kmlivdeslakkhylyddivfrhseavwnslikfisnspvftfvvegvesievvrklcga
tepklaipgtirgdfsyhsfkysnekgfsiynvihasaneadamreipiwfkdneilnyk
rddecehyyc

    Sequence, based on observed residues (ATOM records): (download) 
    >4di6F (F:)
smllqktlcivkpdgvrrgligdvvsrfervglkmvaakmlivdeslakkhylyddivfr
hseavwnslikfisnspvftfvvegvesievvrklcgatepklaipgtirgdfsyhsfky
snekgfsiynvihasaneadamreipiwfkdneilnykrddecehyyc