Structure of PDB 6vst Chain H

Receptor sequence

>6vstH (length=320) Species: 3880 (Medicago truncatula)

NVSPALLEKAQNRVIDAALTFIRERAKFKGELMRSLGGVAATSSLLGVPL
GHHSSFHEGSAFAPPRIREAIWCDSTNSTTEEGKNLRDPRVITNVGDVPI
EEIRDCGVDDKRLANVISESVKLVMDEDPLRPLVLGGDHSISFPVVRAVS
EKLGGAVDILHFDAHPDLYHDFEGNYYSHASPFARIMEGGYARRLVQVGI
RSITNDVREQVKKYGVETHEMRTLSRDRPILENLKLGEGVKGVYVSIDVD
SLDPSIAPGVSHHEPGGLLFRDILNILQNLQGDIVGGDVVEYNPQRDTYD
GITALVAAKLVRELAAKMSK

3D structure

• PDB: 6vst The Neighboring Subunit Is Engaged to Stabilize the Substrate in the Active Site of Plant Arginases.
• Chain: H
• Resolution: 2.12 Å

Enzymatic activity

• Enzyme Commision number: 3.5.3.1: arginase.
  3.5.3.11: agmatinase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	MN	H	D181 H183 D266 D268	D163 H165 D248 D250
BS02	MN	H	H157 D181 D185 D266	H139 D163 D167 D248
BS03	ORN	H	H183 Y187 H197 H280	H165 Y169 H179 H262

Gene Ontology

Molecular Function

• GO:0004053 arginase activity
• GO:0008783 agmatinase activity
• GO:0016787 hydrolase activity
• GO:0016813 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines
• GO:0046872 metal ion binding

Biological Process

• GO:0000050 urea cycle
• GO:0006525 arginine metabolic process
• GO:0009446 putrescine biosynthetic process
• GO:0019547 arginine catabolic process to ornithine
• GO:0033388 putrescine biosynthetic process from arginine
• GO:0033389 putrescine biosynthetic process from arginine, using agmatinase
• GO:0034214 protein hexamerization

Cellular Component

• GO:0005739 mitochondrion

External links

• PDB: RCSB:6vst, PDBe:6vst, PDBj:6vst
• PDBsum: 6vst
• PubMed: 32754173
• UniProt: G7JFU5|ARGI_MEDTR Arginase, mitochondrial (Gene Name=ARGAH)