Structure of PDB 3q4d Chain E

Receptor sequence

>3q4dE (length=368) Species: 269798 (Cytophaga hutchinsonii ATCC 33406)

MIITQVELYKSPVKLKEPFKISLGILTHANNVIVRIHTASGHIGYGECSP
FMTIHGESMDTAFIVGQYLAKGLIGTSCLDIVSNSLLMDAIIYGNSCIKS
AFNIALYDLAAQHAGLPLYAFLGGKKDKIIQTDYTVSIDEPHKMAADAVQ
IKKNGFEIIKVKVGGSKELDVERIRMIREAAGDSITLRIDANQGWSVETA
IETLTLLEPYNIQHCEEPVSRNLYTALPKIRQACRIPIMADESCCNSFDA
ERLIQIQACDSFNLKLSKSAGITNALNIIRLAEQAHMPVQVGGFLESRLG
FTAAAHVALVSKTICYYDFDTPLMFEADPVRGGIVYQQRGIIEVPETAGL
GAGYQKDYLSGLEKICIN

3D structure

• PDB: 3q4d Homology models guide discovery of diverse enzyme specificities among dipeptide epimerases in the enolase superfamily.
• Chain: E
• Resolution: 3.0 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): F19 P50 T53 T135 K160 K162 D190 N192 E216 D241 E242 S243 K265 G292 G293 F294 Y317 D318 F319
• Catalytic site (residue number reindexed from 1): F19 P50 T53 T135 K160 K162 D190 N192 E216 D241 E242 S243 K265 G292 G293 F294 Y317 D318 F319
• Enzyme Commision number: 5.1.1.-

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	MG	E	D190 D241	D190 D241
BS02	DAL	E	F19 K162 D318 D320	F19 K162 D318 D320
BS03	ALA	E	K162 D190 D241 K265 G293	K162 D190 D241 K265 G293

Gene Ontology

Molecular Function

• GO:0000287 magnesium ion binding
• GO:0016853 isomerase activity
• GO:0016854 racemase and epimerase activity
• GO:0016855 racemase and epimerase activity, acting on amino acids and derivatives
• GO:0046872 metal ion binding

Biological Process

• GO:0006518 peptide metabolic process

External links

• PDB: RCSB:3q4d, PDBe:3q4d, PDBj:3q4d
• PDBsum: 3q4d
• PubMed: 22392983
• UniProt: Q11T61|AAEP_CYTH3 D-Ala-D/L-Ala epimerase (Gene Name=tfdD)