Structure of PDB 6dkt Chain D Binding Site BS02

Receptor Information

>6dkt Chain D (length=283) Species: 224308 (Bacillus subtilis subsp. subtilis str. 168)

KTISVIGMPMDLGQARRGVDMGPSAIRYAHLIERLSDMGYTVEDLGDIPI
NNLNSVLAGNEKLAQKVNKVIEEKKFPLVLGGDHSIAIGTLAGTAKHYDN
LGVIWYDAHGDLNTLETSPSGNIHGMPLAVSLGIGHESLVNLEGYAPKIK
PENVVIIGARSLDEGERKYIKESGMKVYTMHEIDRLGMTKVIEETLDYLS
ACDGVHLSLDLDGLDPNDAPGVGTPVVGGISYRESHLAMEMLYDAGIITS
AEFVEVNPILDHKNKTGKTAVELVESLLGKKLL

Ligand information

• Ligand ID: MN
• InChI: InChI=1S/Mn/q+2
• InChIKey: WAEMQWOKJMHJLA-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mn+2]
  CACTVS 3.341: [Mn++]
• Formula: Mn
• Name: MANGANESE (II) ION
• DrugBank: DB06757
• PDB chain: 6dkt Chain D Residue 501

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6dkt Structure of Arginase from Bacillus subtilis at 2.08 Angstroms resolution
• Resolution: 2.08 Å
• Binding residue (original residue number in PDB): D120 H122 D223 D225
• Binding residue (residue number reindexed from 1): D107 H109 D210 D212
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 3.5.3.1: arginase.

Gene Ontology

Molecular Function

• GO:0004053 arginase activity
• GO:0016787 hydrolase activity
• GO:0016813 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
• GO:0030145 manganese ion binding
• GO:0046872 metal ion binding

Biological Process

• GO:0000050 urea cycle
• GO:0006525 arginine metabolic process
• GO:0019547 arginine catabolic process to ornithine

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:6dkt, PDBe:6dkt, PDBj:6dkt
• PDBsum: 6dkt
• UniProt: P39138|ARGI_BACSU Arginase (Gene Name=rocF)