PDB entry 6f6j

View 6f6j on RCSB PDB site
Description: crystal structure of the fe(ii)/alpha-ketoglutarate dependent dioxygenase kdo1 with fe(ii)/succinate/(3s)-3-hydroxy-l-lysine
Deposited on 2017-12-05, released 2018-11-14
The last revision was dated 2018-11-21, with a file datestamp of 2018-11-16.
Experiment type: XRAY
Resolution: 2 Å
R-factor: N/A
AEROSPACI score: 0.31 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: L-lysine 3-hydroxylase
    Species: Catenulispora acidiphila (strain DSM 44928 / NRRL B-24433 / NBRC 102108 / JCM 14897) [TaxId:479433]
    Gene: Caci_0231
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: L-lysine 3-hydroxylase
    Species: Catenulispora acidiphila (strain DSM 44928 / NRRL B-24433 / NBRC 102108 / JCM 14897) [TaxId:479433]
    Gene: Caci_0231
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: L-lysine 3-hydroxylase
    Species: Catenulispora acidiphila (strain DSM 44928 / NRRL B-24433 / NBRC 102108 / JCM 14897) [TaxId:479433]
    Gene: Caci_0231
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: L-lysine 3-hydroxylase
    Species: Catenulispora acidiphila (strain DSM 44928 / NRRL B-24433 / NBRC 102108 / JCM 14897) [TaxId:479433]
    Gene: Caci_0231
    Database cross-references and differences (RAF-indexed):
  • Heterogens: FE, SIN, CUW, ACT, HOH

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain 'A':
    Sequence, based on SEQRES records:
    >6f6jA (A:)
mknlsayevyespktsgesrteavseaafesdpevsailvltsseastlervadlvtaha
lyaahdfcaqaqlaaaelpsrvvarlqefawgdmneghllikglpqvrslpptptsnvha
vaattpmsryqalinecvgrmiayeaeghghtfqdmvpsamsahsqtslgsavelelhte
qafsplrpdfvslaclrgdpraltylfsarqlvatlttqeiamlrepmwtttvdesflae
grtfllgfergpipilsgadddpfivfdqdlmrgisapaqelqqtvirayyaervshcla
pgemllidnrravhgrsifaprfdgadrflsrsfivadgsrsrharssfgrvvsarfs

    Sequence, based on observed residues (ATOM records):
    >6f6jA (A:)
evsailvltsseastlervadlvtahalyaahdfcaqaqlaaaelpsrvvarlqefawgd
mneghllikglpqvrslpptptsnvhavaattpmsryqalinecvgrmiayeaeghghtf
qdmvpsamsahsqtslgsavelelhteqafsplrpdfvslaclrgdpraltylfsarqlv
atlttqeiamlrepmwtttvdesflaegrtfllgfergpipilsgadddpfivfdqdlmr
gisapaqelqqtvirayyaervshclapgemllidnrravhgrsifaprfdgadrflsrs
fivadgsrsrharssfgrvvsarfs

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6f6jB (B:)
mknlsayevyespktsgesrteavseaafesdpevsailvltsseastlervadlvtaha
lyaahdfcaqaqlaaaelpsrvvarlqefawgdmneghllikglpqvrslpptptsnvha
vaattpmsryqalinecvgrmiayeaeghghtfqdmvpsamsahsqtslgsavelelhte
qafsplrpdfvslaclrgdpraltylfsarqlvatlttqeiamlrepmwtttvdesflae
grtfllgfergpipilsgadddpfivfdqdlmrgisapaqelqqtvirayyaervshcla
pgemllidnrravhgrsifaprfdgadrflsrsfivadgsrsrharssfgrvvsarfs

    Sequence, based on observed residues (ATOM records):
    >6f6jB (B:)
pevsailvltsseastlervadlvtahalyaahdfcaqaqlaaaelpsrvvarlqefawg
dmneghllikglpqvrslpptptsnvhavaattpmsryqalinecvgrmiayeaeghght
fqdmvpsamsahsqtslgsavelelhteqafsplrpdfvslaclrgdpraltylfsarql
vatlttqeiamlrepmwtttvdesflaegrtfllgfergpipilsgadddpfivfdqdlm
rgisapaqelqqtvirayyaervshclapgemllidnrravhgrsifaprfdgadrflsr
sfivadgsrsrharssfgrvvsarfs

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6f6jC (C:)
mknlsayevyespktsgesrteavseaafesdpevsailvltsseastlervadlvtaha
lyaahdfcaqaqlaaaelpsrvvarlqefawgdmneghllikglpqvrslpptptsnvha
vaattpmsryqalinecvgrmiayeaeghghtfqdmvpsamsahsqtslgsavelelhte
qafsplrpdfvslaclrgdpraltylfsarqlvatlttqeiamlrepmwtttvdesflae
grtfllgfergpipilsgadddpfivfdqdlmrgisapaqelqqtvirayyaervshcla
pgemllidnrravhgrsifaprfdgadrflsrsfivadgsrsrharssfgrvvsarfs

    Sequence, based on observed residues (ATOM records):
    >6f6jC (C:)
evsailvltsseastlervadlvtahalyaahdfcaqaqlaaaelpsrvvarlqefawgd
mneghllikglpqvrslpptptsnvhavaattpmsryqalinecvgrmiayeaeghghtf
qdmvpsamsahsqtslgsavelelhteqafsplrpdfvslaclrgdpraltylfsarqlv
atlttqeiamlrepmwtttvdesflaegrtfllgfergpipilsgadddpfivfdqdlmr
gisapaqelqqtvirayyaervshclapgemllidnrravhgrsifaprfdgadrflsrs
fivadgsrsrharssfgrvvsarfs

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6f6jD (D:)
mknlsayevyespktsgesrteavseaafesdpevsailvltsseastlervadlvtaha
lyaahdfcaqaqlaaaelpsrvvarlqefawgdmneghllikglpqvrslpptptsnvha
vaattpmsryqalinecvgrmiayeaeghghtfqdmvpsamsahsqtslgsavelelhte
qafsplrpdfvslaclrgdpraltylfsarqlvatlttqeiamlrepmwtttvdesflae
grtfllgfergpipilsgadddpfivfdqdlmrgisapaqelqqtvirayyaervshcla
pgemllidnrravhgrsifaprfdgadrflsrsfivadgsrsrharssfgrvvsarfs

    Sequence, based on observed residues (ATOM records):
    >6f6jD (D:)
pevsailvltsseastlervadlvtahalyaahdfcaqaqlaaaelpsrvvarlqefawg
dmneghllikglpqvrslpptptsnvhavaattpmsryqalinecvgrmiayeaeghght
fqdmvpsamsahsqtslgsavelelhteqafsplrpdfvslaclrgdpraltylfsarql
vatlttqeiamlrepmwtttvdesflaegrtfllgfergpipilsgadddpfivfdqdlm
rgisapaqelqqtvirayyaervshclapgemllidnrravhgrsifaprfdgadrflsr
sfivadgsrsrharssfgrvvsarfs