Structure of PDB 9f8x Chain D Binding Site BS04

Receptor Information
>9f8x Chain D (length=572) Species: 2743 (Marinobacter nauticus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AHVAPGELDEYYGFWSGGHQGEVRVLGVPSMRELMRIPVFNVDSATGWGI
TNESKEILGGDQQYLNGDCHHPHISMTDGRYDGKYLFINDKANTRVARIR
LDIMKTDKITHIPNVQAIHGLRLQKVPKTNYVFCNAEFVIPQPNDGTDFS
LDNSYTMFTAIDAETMDVAWQVIVDGNLDNTDADYTGKYAASTCYNSERA
VDLAGTMRNDRDWVVVFNVERIAAAVKAGNFKTIGDSKVPVVDGRGESEF
TRYIPVPKNPHGLNTSPDGKYFIANGKLSPTVSVIAIDKLDDLFEDKIEL
RDTIVAEPELGLGPLHTTFDGRGNAYTTLFIDSQVCKWNIADAIKHYNGD
RVNYIRQKLDVQYQPGHNHASLTESRDADGKWLVVLSKFSKDRFLPVGPL
HPENDQLIDISGEEMKLVHDGPTYAEPHDCILVRRDQIKTKKIYERNDPY
FASCRAQAEKDGVTLESDNKVIRDGNKVRVYMTSVAPQYGMTEFKVKEGD
EVTVYITNLDMVEDVTHGFCMVNHGVSMEISPQQTASVTFTAGKPGVYWY
YCNWFCHALHMEMGGRMLVEKA
Ligand information
Ligand IDCA
InChIInChI=1S/Ca/q+2
InChIKeyBHPQYMZQTOCNFJ-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Ca++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Ca+2]
FormulaCa
NameCALCIUM ION
ChEMBL
DrugBankDB14577
ZINC
PDB chain9f8x Chain D Residue 705 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB9f8x Revisiting the metal sites of nitrous oxide reductase in a low-dose structure from Marinobacter nauticus.
Resolution1.498 Å
Binding residue
(original residue number in PDB)		K450 E465
Binding residue
(residue number reindexed from 1)		K388 E403
Annotation score1
Gene Ontology
Molecular Function
GO:0005507 copper ion binding
GO:0005509 calcium ion binding
GO:0016491 oxidoreductase activity
GO:0046872 metal ion binding
GO:0050304 nitrous-oxide reductase activity
Biological Process
GO:0019333 denitrification pathway
GO:1902600 proton transmembrane transport
Cellular Component
GO:0042597 periplasmic space

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:9f8x, PDBe:9f8x, PDBj:9f8x
PDBsum9f8x
PubMed38720157
UniProtA0A368XMX8

[Back to BioLiP]