Structure of PDB 4ot8 Chain D

Receptor sequence
>4ot8D (length=408) Species: 216591 (Burkholderia cenocepacia J2315) [Search protein sequence]
STIANVDPEIFAAIEQENRRQEDHIELIASENYTSPAVMAAQGSQLTNKY
AEGYPGKRYYGGCEYVDVVEQLAIDRVKQLFGAEAANVQPNSGSQANQGV
FFAMLKPGDTIMGMSLAHGGHLTHGSPVNMSGKWFNVVSYGLNENEDIDY
DAAEKLANEHKPKLIVAGASAFALKIDFERLAKIAKSVGAYLMVDMAHYA
GLIAAGVYPNPVPHADFVTTTTHKSLRGPRGGVILMKAEYEKPINSAIFP
GIQGGPLMHVIAAKAVAFKEALSPEFKEYQQKVVENARVLAETLVKRGLR
IVSGRTESHVMLVDLRAKHITGKAAEAALGAAHITVNKNAIPNDPEKPFV
TSGIRLGSPAMTTRGFGPAEAEQVGNLIADVLENPEDAATIERVRAQVAE
LTKRFPVY
3D structure
PDB4ot8 X-ray Crystal Structure of Serine Hydroxymethyl Transferase from Burkholderia cenocepacia bound to PLP and Serine
ChainD
Resolution2.0 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) Y56 E58 D201 T227 K230 R236
Catalytic site (residue number reindexed from 1) Y50 E52 D195 T221 K224 R230
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 PLP D Y56 G260 Y50 G254
BS02 SER D E58 Y66 E52 Y60
BS03 SER D S36 H127 H204 R361 S30 H121 H198 R355
BS04 PLP D S98 G99 S100 H127 S176 D201 A203 H204 T227 K230 S92 G93 S94 H121 S170 D195 A197 H198 T221 K224
Gene Ontology
Molecular Function
GO:0004372 glycine hydroxymethyltransferase activity
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0030170 pyridoxal phosphate binding
GO:0050897 cobalt ion binding
GO:0070905 serine binding
Biological Process
GO:0006545 glycine biosynthetic process
GO:0006565 L-serine catabolic process
GO:0006730 one-carbon metabolic process
GO:0008652 amino acid biosynthetic process
GO:0019264 glycine biosynthetic process from serine
GO:0035999 tetrahydrofolate interconversion
GO:0046653 tetrahydrofolate metabolic process
GO:0046655 folic acid metabolic process
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol

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Cellular Component
External links
PDB RCSB:4ot8, PDBe:4ot8, PDBj:4ot8
PDBsum4ot8
PubMed
UniProtB4ECY9

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