Structure of PDB 1gpu Chain B Binding Site BS03

Receptor Information
>1gpu Chain B (length=678) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
QFTDIDKLAVSTIRILAVDTVSKANSGHPGAPLGMAPAAHVLWSQMRMNP
TNPDWINRDRFVLSNGHAVALLYSMLHLTGYDLSIEDLKQFRQLGSRTPG
HPEFELPGVEVTTGPLGQGISNAVGMAMAQANLAATYNKPGFTLSDNYTY
VFLGDGCLQEGISSEASSLAGHLKLGNLIAIYDDNKITIDGATSISFDED
VAKRYEAYGWEVLYVENGNEDLAGIAKAIAQAKLSKDKPTLIKMTTTIGY
GSLHAGSHSVHGAPLKADDVKQLKSKFGFNPDKSFVVPQEVYDHYQKTIL
KPGVEANNKWNKLFSEYQKKFPELGAELARRLSGQLPANWESKLPTYTAK
DSAVATRKLSETVLEDVYNQLPELIGGSADLTPSNLTRWKEALDFQPPSS
GSGNYSGRYIRYGIREHAMGAIMNGISAFGANYKPYGGTFLNFVSYAAGA
VRLSALSGHPVIWVATHDSIGVGEDGPTHQPIETLAHFRSLPNIQVWRPA
DGNEVSAAYKNSLESKHTPSIIALSRQNLPQLEGSSIESASKGGYVLQDV
ANPDIILVATGSEVSLSVEAAKTLAAKNIKARVVSLPDFFTFDKQPLEYR
LSVLPDNVPIMSVEVLATTCWGKYAHQSFGIDRFGASGKAPEVFKFFGFT
PEGVAERAQKTIAFYKGDKLISPLKKAF
Ligand information
Ligand IDTHD
InChIInChI=1S/C14H22N4O9P2S/c1-8-12(3-4-26-29(24,25)27-28(21,22)23)30-14(11(20)7-19)18(8)6-10-5-16-9(2)17-13(10)15/h5,19-20H,3-4,6-7H2,1-2H3,(H,24,25)(H2,15,16,17)(H2,21,22,23)/b14-11+
InChIKeyLXZUEFPJZTWGEL-SDNWHVSQSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04O=P(O)(O)OP(=O)(O)OCCC=1S\C(=C(\O)CO)N(C=1C)Cc2cnc(nc2N)C
CACTVS 3.341Cc1ncc(CN2C(=C(CCO[P](O)(=O)O[P](O)(O)=O)SC2=C(O)CO)C)c(N)n1
OpenEye OEToolkits 1.5.0Cc1ncc(c(n1)N)CN2C(=C(SC2=C(CO)O)CCOP(=O)(O)OP(=O)(O)O)C
OpenEye OEToolkits 1.5.0Cc1ncc(c(n1)N)CN\2C(=C(S/C2=C(\CO)/O)CCO[P@@](=O)(O)OP(=O)(O)O)C
CACTVS 3.341Cc1ncc(CN\2C(=C(CCO[P@](O)(=O)O[P](O)(O)=O)SC\2=C(/O)CO)C)c(N)n1
FormulaC14 H22 N4 O9 P2 S
Name2-[3-[(4-AMINO-2-METHYL-5-PYRIMIDINYL)METHYL]-2-(1,2-DIHYDROXYETHYL)-4-METHYL-1,3-THIAZOL-3-IUM-5-YL]ETHYL TRIHYDROGEN DIPHOSPHATE;
({ALPHA,BETA}-DIHYDROXYETHYL)-THIAMIN DIPHOSPHATE
ChEMBL
DrugBank
ZINCZINC000103558024
PDB chain1gpu Chain B Residue 1682 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB1gpu Snapshot of a Key Intermediate in Enzymatic Thiamin Catalysis: Crystal Structure of the Alpha-Carbanion of (Alpha,Beta-Dihydroxyethyl)-Thiamin Diphosphate in the Active Site of Transketolase from Saccharomyces Cerevisiae.
Resolution1.86 Å
Binding residue
(original residue number in PDB)		H69 H103 L118 D157 G158 N187 I189 I191 H263
Binding residue
(residue number reindexed from 1)		H67 H101 L116 D155 G156 N185 I187 I189 H261
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) H30 I250 H263 E418 H481
Catalytic site (residue number reindexed from 1) H28 I248 H261 E416 H479
Enzyme Commision number 2.2.1.1: transketolase.
Gene Ontology
Molecular Function
GO:0003824 catalytic activity
GO:0004802 transketolase activity
GO:0005515 protein binding
GO:0016740 transferase activity
GO:0046872 metal ion binding
Biological Process
GO:0006098 pentose-phosphate shunt
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:1gpu, PDBe:1gpu, PDBj:1gpu
PDBsum1gpu
PubMed11773632
UniProtP23254|TKT1_YEAST Transketolase 1 (Gene Name=TKL1)

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