Structure of PDB 3ekm Chain C

Receptor sequence
>3ekmC (length=287) Species: 3702 (Arabidopsis thaliana) [Search protein sequence]
GVLHFVKYHGLGNDFILVDNRDSSEPKITQEQAAKLCDRNFGVGADGVIF
AMPGVNGTDYAMRIFNSDGSEPEMCGNGVRCFARFIAELENLQGKHSFTI
HTGAGLIVPEIQDDGQVKVDMGTPILKAQDVPTKLSGNKGEAVVEAELVV
DGVSWNVTCVSMGNPHCITFGKKGGPNLKVDDLNLPEIGPKFEHHEMFPA
RTNTEFVEVLSRSHLKMRVWERGAGATLACGTGACALVVAAVLEGRADRK
CTVDLPGGPLEIEWKQEDNHIYMTGPAEAVFYGSALL
3D structure
PDB3ekm Crystal structure of diaminopimelate epimerase from Arabidopsis thaliana, an amino acid racemase critical for L-lysine biosynthesis.
ChainC
Resolution2.3 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) C99 H190 E245 C254 G257
Catalytic site (residue number reindexed from 1) C75 H166 E221 C230 G233
Enzyme Commision number 5.1.1.7: diaminopimelate epimerase.
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 ZDR C N37 N90 P96 C99 G100 N101 N188 N227 E245 R246 C254 G255 T256 N13 N66 P72 C75 G76 N77 N164 N203 E221 R222 C230 G231 T232
Gene Ontology
Molecular Function
GO:0008837 diaminopimelate epimerase activity
Biological Process
GO:0009089 lysine biosynthetic process via diaminopimelate
Cellular Component
GO:0005737 cytoplasm

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:3ekm, PDBe:3ekm, PDBj:3ekm
PDBsum3ekm
PubMed19013471
UniProtQ9LFG2|DAPF_ARATH Diaminopimelate epimerase, chloroplastic (Gene Name=DAPF)

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