Structure of PDB 1rvy Chain A

Receptor sequence
>1rvyA (length=463) Species: 9986 (Oryctolagus cuniculus) [Search protein sequence]
WSSHEQMLAQPLKDSDAEVYDIIKKESNRQRVGLELIASENFASRAVLEA
LGSCLNNKYSQGYPGQRYYGGTEHIDELETLCQKRALQAYGLDPQCWGVN
VQPYSGSPANFAVYTALVEPHGRIMGLDLPDGGHLTHGFMTDKKKISATS
IFFESMAYKVNPDTGYIDYDRLEENARLFHPKLIIAGTSCYSRNLDYGRL
RKIADENGAYLMADMAHISGLVVAGVVPSPFEHCHVVTTTTHKTLRGCRA
GMIFYRRGVRSEILYNLESLINSAVFPGLQGGPHNHAIAGVAVALKQAMT
PEFKEYQRQVVANCRALSAALVELGYKIVTGGSDNHLILVDLRSKGTDGG
RAEKVLEACSIACNKNTCPGDKSALRPSGLRLGTPALTSRGLLEKDFQKV
AHFIHRGIELTVQIQDDTGPRATLKEFKEKLAGDEKHQRAVRALRQEVES
FAALFPLPGLPGF
3D structure
PDB1rvy Serine Hydroxymethyltransferase: Role of Glu75 and Evidence that Serine Is Cleaved by a Retroaldol Mechanism.
ChainA
Resolution2.9 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) Y73 Q75 D228 T254 K257 R263
Catalytic site (residue number reindexed from 1) Y59 Q61 D214 T240 K243 R249
Enzyme Commision number 2.1.2.1: glycine hydroxymethyltransferase.
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 PLG A S53 S119 G120 S121 H148 S203 D228 A230 H231 T254 H256 K257 S39 S105 G106 S107 H134 S189 D214 A216 H217 T240 H242 K243
Gene Ontology
Molecular Function
GO:0000900 mRNA regulatory element binding translation repressor activity
GO:0004372 glycine hydroxymethyltransferase activity
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0030170 pyridoxal phosphate binding
GO:0036094 small molecule binding
GO:0042802 identical protein binding
GO:0042803 protein homodimerization activity
GO:0048027 mRNA 5'-UTR binding
GO:0050897 cobalt ion binding
GO:0070905 serine binding
Biological Process
GO:0006544 glycine metabolic process
GO:0006563 L-serine metabolic process
GO:0006565 L-serine catabolic process
GO:0006730 one-carbon metabolic process
GO:0009113 purine nucleobase biosynthetic process
GO:0017148 negative regulation of translation
GO:0019264 glycine biosynthetic process from serine
GO:0035999 tetrahydrofolate interconversion
GO:0046653 tetrahydrofolate metabolic process
GO:0046655 folic acid metabolic process
GO:0051289 protein homotetramerization
GO:1904482 cellular response to tetrahydrofolate
GO:1990830 cellular response to leukemia inhibitory factor
Cellular Component
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:1rvy, PDBe:1rvy, PDBj:1rvy
PDBsum1rvy
PubMed15170323
UniProtP07511|GLYC_RABIT Serine hydroxymethyltransferase, cytosolic (Gene Name=SHMT1)

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