Structure of PDB 3koz Chain B

Receptor sequence

>3kozB (length=728) Species: 1511 (Acetoanaerobium sticklandii)

LQLRVNEKLDVENILKDLDKYTPKRRGWTWRQPAENLQMGPFIYKDASTP
LENSVALPSAKYFGDIDPQPLPVITTEIASGRFEDDIRRMRMAAWHGADH
IMVIRTAGQSHYDGLIEGTPQGIGGVPITRKQVRAQRKALDLIEEEVGRP
INYHSYVSGVAGPDIAVMFAEEGVNGAHQDPQYNVLYRNINMIRSFIDAC
ESKTIMAWADMAQIDGAHNANATAREAWKVMPELMVQHALNSIFSLKVGM
KKSNICLSTVPPTAPPAPSMYLDLPYAVALREMFEGYRMRAQMNTKYMEA
STREATVTHVLNLLISKLTRADIQSTITPDEGRNVPWHIYNIEACDTAKQ
ALIGMDGLMDMVQLKREGVLGDTVRELKERAVLFMEEIIEAGGYFNAVEQ
GFFVDSGYYPERNGDGIARQINGGIGAGTVFERDEDYMAPVTAHFGYNNV
KQYDEALVSEPSKLIDGCTLEVPEKIVYIDELDENDNVNVRMEETKEFRS
MIKPEVEWQADGTVLLTMFLPTSKRVAEFAAIEFAKKMNLEEVEVINREV
MQEAEGTRIELKGRVPFSIDINSLVIPPILSEDEIREDIEKTPLKIVAAT
VGEDEHSVGLREVIDIKHGGIEKYGVEVHYLGTSVPVEKLVDAAIELKAD
AILASTIISHDDIHYKNMKRIHELAVEKGIRDKIMIGCGGTQVTPEVAVK
QGVDAGFGRGSKGIHVATFLVKKRREMR

3D structure

• PDB: 3koz Large-scale domain dynamics and adenosylcobalamin reorientation orchestrate radical catalysis in ornithine 4,5-aminomutase.
• Chain: B
• Resolution: 2.8 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): Y187 H225 R297 K629
• Catalytic site (residue number reindexed from 1): Y183 H218 R290 K617
• Enzyme Commision number: 5.4.3.5: D-ornithine 4,5-aminomutase.

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	Z97	B	E81 R109 S114 Y160 S162 H182 Y187 R192 H225 N226 R297	E77 R105 S110 Y156 S158 H178 Y183 R188 H218 N219 R290
BS02	B12	B	D616 E617 H618 S619 G621 L622 L665 A666 S667 S671 H672 G701 G702 T703 F719 G720 S723	D604 E605 H606 S607 G609 L610 L653 A654 S655 S659 H660 G689 G690 T691 F707 G708 S711
BS03	B12	B	Y116 I127	Y112 I123

Gene Ontology

Molecular Function

• GO:0003824 catalytic activity
• GO:0016853 isomerase activity
• GO:0031419 cobalamin binding
• GO:0046872 metal ion binding
• GO:0046983 protein dimerization activity
• GO:0047831 D-ornithine 4,5-aminomutase activity

External links

• PDB: RCSB:3koz, PDBe:3koz, PDBj:3koz
• PDBsum: 3koz
• PubMed: 20106986
• UniProt: E3PY95|OAME_ACESD D-ornithine 4,5-aminomutase subunit beta (Gene Name=oraE)