Structure of PDB 6pk3 Chain B Binding Site BS01

Receptor Information
>6pk3 Chain B (length=400) Species: 3702 (Arabidopsis thaliana) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DYMYGPGRHHLFVPGPVNIPEPVIRAMNRNNEDYRSPAIPALTKTLLEDV
KKIFKTTSGTPFLFPTTGTGAWESALTNTLSPGDRIVSFLIGQFSLLWID
QQKRLNFNVDVVESDWGQGANLQVLASKLSQDENHTIKAICIVHNETATG
VTNDISAVRTLLDHYKHPALLLVDGVSSICALDFRMDEWGVDVALTGSQK
ALSLPTGLGIVCASPKALEATKTSKSLKVFFDWNDYLKFYKLGTYWPYTP
SIQLLYGLRAALDLIFEEGLENIIARHARLGKATRLAVEAWGLKNCTQKE
EWISNTVTAVMVPPHIDGSEIVRRAWQRYNLSLGLGLNKVAGKVFRIGHL
GNVNELQLLGCLAGVEMILKDVGYPVVMGSGVAAASTYLQHHIPLIPSRI
Ligand information
Ligand IDPLP
InChIInChI=1S/C8H10NO6P/c1-5-8(11)7(3-10)6(2-9-5)4-15-16(12,13)14/h2-3,11H,4H2,1H3,(H2,12,13,14)
InChIKeyNGVDGCNFYWLIFO-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341Cc1ncc(CO[P](O)(O)=O)c(C=O)c1O
OpenEye OEToolkits 1.5.0Cc1c(c(c(cn1)COP(=O)(O)O)C=O)O
ACDLabs 10.04O=P(O)(O)OCc1cnc(c(O)c1C=O)C
FormulaC8 H10 N O6 P
NamePYRIDOXAL-5'-PHOSPHATE;
VITAMIN B6 Phosphate
ChEMBLCHEMBL82202
DrugBankDB00114
ZINCZINC000001532514
PDB chain6pk3 Chain B Residue 501 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6pk3 Crystal Structure Of Photorespiratory Alanine:Glyoxylate Aminotransferase 1 (AGT1) FromArabidopsis thaliana.
Resolution2.18 Å
Binding residue
(original residue number in PDB)		T68 G69 T70 W73 F95 T148 D175 V177 Q200 K201
Binding residue
(residue number reindexed from 1)		T67 G68 T69 W72 F94 T147 D174 V176 Q199 K200
Annotation score1
Enzymatic activity
Enzyme Commision number 2.6.1.-
2.6.1.44: alanine--glyoxylate transaminase.
2.6.1.45: serine--glyoxylate transaminase.
2.6.1.51: serine--pyruvate transaminase.
Gene Ontology
Molecular Function
GO:0003729 mRNA binding
GO:0004760 L-serine-pyruvate transaminase activity
GO:0008453 alanine-glyoxylate transaminase activity
GO:0008483 transaminase activity
GO:0050281 L-serine-glyoxylate transaminase activity
Biological Process
GO:0009853 photorespiration
Cellular Component
GO:0005739 mitochondrion
GO:0005777 peroxisome
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0009507 chloroplast
GO:0009570 chloroplast stroma
GO:0048046 apoplast

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6pk3, PDBe:6pk3, PDBj:6pk3
PDBsum6pk3
PubMed31681359
UniProtQ56YA5|SGAT_ARATH Serine--glyoxylate aminotransferase (Gene Name=AGT1)

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