Structure of PDB 4otl Chain B Binding Site BS03

Receptor Information
>4otl Chain B (length=409) Species: 216591 (Burkholderia cenocepacia J2315) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
STIANVDPEIFAAIEQENRRQEDHIELIASENYTSPAVMAAQGSQLTNKY
AEGYPGKRYYGGCEYVDVVEQLAIDRVKQLFGAEAANVQPNSGSQANQGV
FFAMLKPGDTIMGMSLAHGGHLTHGSPVNMSGKWFNVVSYGLNENEDIDY
DAAEKLANEHKPKLIVAGASAFALKIDFERLAKIAKSVGAYLMVDMAHYA
GLIAAGVYPNPVPHADFVTTTTHKSLRGPRGGVILMKAEYEKPINSAIFP
GIQGGPLMHVIAAKAVAFKEALSPEFKEYQQKVVENARVLAETLVKRGLR
IVSGRTESHVMLVDLRAKHITGKAAEAALGAAHITVNKNAIPNDPEKPFV
TSGIRLGSPAMTTRGFGPAEAEQVGNLIADVLENPEDAATIERVRAQVAE
LTKRFPVYR
Ligand information
Ligand IDGLY
InChIInChI=1S/C2H5NO2/c3-1-2(4)5/h1,3H2,(H,4,5)
InChIKeyDHMQDGOQFOQNFH-UHFFFAOYSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0C(C(=O)O)N
CACTVS 3.341NCC(O)=O
ACDLabs 10.04O=C(O)CN
FormulaC2 H5 N O2
NameGLYCINE
ChEMBLCHEMBL773
DrugBankDB00145
ZINCZINC000004658552
PDB chain4otl Chain D Residue 801 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB4otl X-ray Crystal Structure of Serine Hydroxymethyl Transferase from Burkholderia cenocepacia bound to PLP and Glycine
Resolution2.0 Å
Binding residue
(original residue number in PDB)		Y56 Y66
Binding residue
(residue number reindexed from 1)		Y50 Y60
Annotation score5
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.
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

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:4otl, PDBe:4otl, PDBj:4otl
PDBsum4otl
PubMed
UniProtB4ECY9

[Back to BioLiP]