Structure of PDB 4xyd Chain A Binding Site BS03

Receptor Information

>4xyd Chain A (length=445) Species: 375451 (Roseobacter denitrificans OCh 114)

MKYQSQSIALVYFAVALGLFAIQVSGGLLLGWIYVSPNFLSEILPFNIVR
MLHTNSLIVWLLLGFMGAAYFVIPEESEREIHSPLLAYLQLAIMVLGTLG
VVVTYLFNLFEGNWLLGKEGREFLEQPVWVKMGIVVAALIFMYNISMTVL
QGRKTAITNVLLLGLWGLTLLFLFAFYNPSNLALDKMYWWYVVHLWVEGT
WELVMASVLAFLMLKLTGVDREIIEKWLYLIVATALFSGILGTGHHYFWI
GTPGYWQWIGSIFSALEVVPFFGMMAFAFVMVWKGRKDHPNKAALLWSLG
CATLAFFGAGVWGFLHTLHGINYYTHGTQITAAHGHLAFFGAYVSLNLAI
FSYAFPILRKRDPYNQVLNMASFWLMAGGMTFMTFVLTFAGTVQTHAQRV
QGDYFMDVQDAITIFYWMRFGSGIAVVLGALLFIYAVAVPRKEII

Ligand information

• Ligand ID: FE
• InChI: InChI=1S/Fe/q+3
• InChIKey: VTLYFUHAOXGGBS-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  CACTVS 3.341
  OpenEye OEToolkits 1.5.0: [Fe+3]
• Formula: Fe
• Name: FE (III) ION
• DrugBank: DB13949
• PDB chain: 4xyd Chain A Residue 505

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4xyd Structure of the Membrane-intrinsic Nitric Oxide Reductase from Roseobacter denitrificans.
• Resolution: 2.85 Å
• Binding residue (original residue number in PDB): H194 E198 H245 H246
• Binding residue (residue number reindexed from 1): H194 E198 H245 H246
• Annotation score: 5

Enzymatic activity

• Enzyme Commision number: 1.7.2.5: nitric-oxide reductase (cytochrome c).

Gene Ontology

Molecular Function

• GO:0004129 cytochrome-c oxidase activity
• GO:0016491 oxidoreductase activity
• GO:0016966 nitric oxide reductase activity
• GO:0020037 heme binding
• GO:0046872 metal ion binding

Biological Process

• GO:0009060 aerobic respiration
• GO:0015990 electron transport coupled proton transport
• GO:0022904 respiratory electron transport chain

Cellular Component

• GO:0016020 membrane

External links

• PDB: RCSB:4xyd, PDBe:4xyd, PDBj:4xyd
• PDBsum: 4xyd
• PubMed: 27185533
• UniProt: Q16A04