Structure of PDB 6qpx Chain A Binding Site BS04

Receptor Information

>6qpx Chain A (length=454) Species: 329 (Ralstonia pickettii)

LPGDFGPPRGEPIHAVLTSPPLVPPPVNRTYPAKVIVELEVVEKEMQISE
GVSYTFWTFGGTVPGSFIRVRQGDTVEFHLKNHPSSKMPHNIDLHGVTGP
GGGAASSFTAPGHESQFTFKALNEGIYVYHCATAPVGMHIANGMYGLILV
EPPEGLPKVDHEYYVMQGDFYTAGKYREKGLQPFDMEKAIDERPSYVLFN
GAEGALTGDKALHAKVGETVRIFVGNGGPNLVSSFHVIGAIFDQVRYEGG
TNVQKNVQTTLIPAGGAAVVKFTARVPGSYVLVDHSIFRAFNKGAMAILK
IDGAENKLVYSGKELDSVALGDRAAPNMSAVTKATQASVSGTLTVQDQVQ
AGRALFAGTCSVCHQGNGAGLPGVFPPLAKSDFLAADPKRAMNIVLHGLN
GKIKVNGQEYDSVMPPMTQLNDDEVANILTYVLNSWDNPGGRVSAEDVKK
VRAQ

Ligand information

• Ligand ID: NO2
• InChI: InChI=1S/HNO2/c2-1-3/h(H,2,3)/p-1
• InChIKey: IOVCWXUNBOPUCH-UHFFFAOYSA-M
• SMILES:
  ACDLabs 10.04
  CACTVS 3.341: [O-]N=O
  OpenEye OEToolkits 1.5.0: N(=O)[O-]
• Formula: N O2
• Name: NITRITE ION
• DrugBank: DB12529
• PDB chain: 6qpx Chain A Residue 504

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6qpx Unexpected Roles of a Tether Harboring a Tyrosine Gatekeeper Residue in Modular Nitrite Reductase Catalysis.
• Resolution: 1.7 Å
• Binding residue (original residue number in PDB): D97 H99 H134
• Binding residue (residue number reindexed from 1): D93 H95 H130
• Annotation score: 5

Enzymatic activity

• Catalytic site (original residue number in PDB): H94 D97 H99 H134 C135 H143 M148 H240 Q262 T263 H289
• Catalytic site (residue number reindexed from 1): H90 D93 H95 H130 C131 H139 M144 H236 Q258 T259 H285
• Enzyme Commision number: 1.7.2.1: nitrite reductase (NO-forming).

Gene Ontology

Molecular Function

• GO:0005507 copper ion binding
• GO:0009055 electron transfer activity
• GO:0016491 oxidoreductase activity
• GO:0020037 heme binding
• GO:0046872 metal ion binding
• GO:0050421 nitrite reductase (NO-forming) activity

Cellular Component

• GO:0042597 periplasmic space

External links

• PDB: RCSB:6qpx, PDBe:6qpx, PDBj:6qpx
• PDBsum: 6qpx
• PubMed: 32051772
• UniProt: I6NAW4