Structure of PDB 1wyu Chain B

Receptor sequence

>1wyuB (length=473) Species: 300852 (Thermus thermophilus HB8)

SFPLIFERSRKGRRGLKLVKAVPKAEDLIPKEHLREVPPRLPEVDELTLV
RHYTGLSRRQVGVDTTFYPLGSCTMKYNPKLHEEAARLFADLHPYQDPRT
AQGALRLMWELGEYLKALTGMDAITLEPAAGAHGELTGILIIRAYHEDRG
EGRTRRVVLVPDSAHGSNPATASMAGYQVREIPSGPEGEVDLEALKRELG
PHVAALMLTNPNTLGLFERRILEISRLCKEAGVQLYYDGANLNAIMGWAR
PGDMGFDVVHLNLHKTFTVPHGGGGPGSGPVGVKAHLAPYLPVPLVERGE
EGFYLDFDRPKSIGRVRSFYGNFLALVRAWAYIRTLGLEGLKKAAALAVL
NARYLKELLKEKGYRVPYDGPSMHEFVAQPPEGFRALDLAKGLLELGFHP
PTVYFPLIVKEALMVEPTETEAKETLEAFAEAMGALLKKPKEWLENAPYS
TPVRRLDELRANKHPKLTYFDEG

3D structure

• PDB: 1wyu Structure of P-protein of the glycine cleavage system: implications for nonketotic hyperglycinemia
• Chain: B
• Resolution: 2.1 Å

Enzymatic activity

• Enzyme Commision number: 1.4.4.2: glycine dehydrogenase (aminomethyl-transferring).

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	B	S73 A131 G132 A133 H166 D239 A241 N263 H265 K266	S72 A130 G131 A132 H165 D238 A240 N262 H264 K265

Gene Ontology

Molecular Function

• GO:0004375 glycine dehydrogenase (decarboxylating) activity
• GO:0016491 oxidoreductase activity
• GO:0016594 glycine binding
• GO:0030170 pyridoxal phosphate binding

Biological Process

• GO:0006546 glycine catabolic process
• GO:0019464 glycine decarboxylation via glycine cleavage system

Cellular Component

• GO:0005829 cytosol
• GO:0005960 glycine cleavage complex

External links

• PDB: RCSB:1wyu, PDBe:1wyu, PDBj:1wyu
• PDBsum: 1wyu
• PubMed: 15791207
• UniProt: Q5SKW7|GCSPB_THET8 Probable glycine dehydrogenase (decarboxylating) subunit 2 (Gene Name=gcvPB)