Structure of PDB 1km0 Chain D

Receptor sequence
>1km0D (length=214) Species: 145262 (Methanothermobacter thermautotrophicus) [Search protein sequence]
MDVMNRLILAMDLMNRDDALRVTGEVREYIDTVKIGYPLVLSEGMDIIAE
FRKRFGCRIIANFKVADIPETNEKICRATFKAGADAIIVHGFPGADSVRA
CLNVAEEMGREVFLLTEMSHPGAEMFIQGAADEIARMGVDLGVKNYVGPS
TRPERLSRLREIIGQDSFLISPGVGAQGGDPGETLRFADAIIVGRSIYLA
DNPAAAAAGIIESI
3D structure
PDB1km0 Mapping the active site-ligand interactions of orotidine 5'-monophosphate decarboxylase by crystallography.
ChainD
Resolution1.7 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) K42 N70 K72 D75
Catalytic site (residue number reindexed from 1) K34 N62 K64 D67
Enzyme Commision number 4.1.1.23: orotidine-5'-phosphate decarboxylase.
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 UP6 D D75 I76 T79 D67 I68 T71 BindingDB: Ki=12400nM
BS02 UP6 D D20 K42 N70 K72 M126 S127 P180 Q185 G202 R203 D12 K34 N62 K64 M118 S119 P172 Q177 G194 R195 BindingDB: Ki=12400nM
Gene Ontology
Molecular Function
GO:0004590 orotidine-5'-phosphate decarboxylase activity
GO:0016831 carboxy-lyase activity
Biological Process
GO:0006207 'de novo' pyrimidine nucleobase biosynthetic process
GO:0006221 pyrimidine nucleotide biosynthetic process
GO:0044205 'de novo' UMP biosynthetic process
Cellular Component
GO:0005829 cytosol

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Cellular Component
External links
PDB RCSB:1km0, PDBe:1km0, PDBj:1km0
PDBsum1km0
PubMed11900543
UniProtO26232|PYRF_METTH Orotidine 5'-phosphate decarboxylase (Gene Name=pyrF)

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