Structure of PDB 3wbf Chain C

Receptor sequence

>3wbfC (length=297) Species: 292459 (Symbiobacterium thermophilum IAM 14863) [Search protein sequence]

KLRVAVVGYGNVGRYALEAVQAAPDMELVGVVRRKVLAATPPELTGVRVV
TDISQLEGVQGALLCVPTRSVPEYAEAMLRRGIHTVDSYDIHGDLADLRR
RLDPVAREHGAAAVISAGWDPGTDSIIRALLEFMAPKGITYTNFGPGMSM
GHSVAVKAIPGVRDALSMTIPAGMGVHKRAVYVELEPGADFAEVERAIKT
DPYFVRDETRVTQVESVSALMDVGHGVVMERKGVSGATHNQLFRFEMRIN
NPALTAQVMVAALRAAARQKPGCYTMIEIPVIDYLPGDREAWIRKLV

3D structure

PDB

3wbf Structural and mutational studies on the unusual substrate specificity of meso-diaminopimelate dehydrogenase from Symbiobacterium thermophilum.

Chain

Resolution

2.12 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

1.4.1.16: diaminopimelate dehydrogenase.

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	API	C	D92 D122 F146 S151 M152 G153 T171 R181	D90 D120 F144 S149 M150 G151 T169 R179
BS02	NAP	C	G10 Y11 G12 N13 V14 R35 R36 C67 V68 P69 T70 Y76 S90 D92 G120 W121 D122 P123 M152 G153 V156 N253 T257	G8 Y9 G10 N11 V12 R33 R34 C65 V66 P67 T68 Y74 S88 D90 G118 W119 D120 P121 M150 G151 V154 N251 T255

Gene Ontology

	Molecular Function
GO:0000166	nucleotide binding
GO:0016491	oxidoreductase activity
GO:0047850	diaminopimelate dehydrogenase activity

	Biological Process
GO:0009085	lysine biosynthetic process
GO:0009089	lysine biosynthetic process via diaminopimelate
GO:0019877	diaminopimelate biosynthetic process

View graph for
Molecular Function

View graph for
Biological Process

External links

PDB	RCSB:3wbf, PDBe:3wbf, PDBj:3wbf
PDBsum	3wbf
PubMed	24339368
UniProt	Q67PI3

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