Structure of PDB 6had Chain A Binding Site BS03

Receptor Information
>6had Chain A (length=617) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
HKPDQQKLQALKDTANRLRISSIQATTAAGSGHPTSCCSAAEIMAVLFFH
TMRYKSQDPRNPHNDRFVLSKGHAAPILYAVWAEAGFLAEAELLNLRKIS
SDLDGHPVPKQAFTDVATGSLGQGLGAACGMAYTGKYFDKASYRVYCLLG
DGELSQGSVWEAMAFASIYKLDNLVAILDINRLGQSDPAPLQHQMDIYQK
RCEAFGWHAIIVDGHSVEELCKAFGQAKHQPTAIIAKTFKGRGITGVEDK
ESWHGKPLPKNMAEQIIQEIYSQIQSKKKILATPPQEDAPSVDIANIRMP
SLPSYKVGDKIATRKAYGQALAKLGHASDRIIALDGDTKNSTFSEIFKKE
HPDRFIECYIAEQNMVSIAVGCATRNRTVPFCSTFAAFFTRAFDQIRMAA
ISESNINLCGSHCGVSIGEDGPSQMALEDLAMFRSVPTSTVFYPSDGVAT
EKAVELAANTKGICFIRTSRPENAIIYNNNEDFQVGQAKVVLKSKDDQVT
VIGAGVTLHEALAAAELLKKEKINIRVLDPFTIKPLDRKLILDSARATKG
RILTVEDHYYEGGIGEAVSSAVVGEPGITVTHLAVNRVPRSGKPAELLKM
FGIDRDAIAQAVRGLIT
Ligand information
Ligand IDTPP
InChIInChI=1S/C12H18N4O7P2S/c1-8-11(3-4-22-25(20,21)23-24(17,18)19)26-7-16(8)6-10-5-14-9(2)15-12(10)13/h5,7H,3-4,6H2,1-2H3,(H4-,13,14,15,17,18,19,20,21)/p+1
InChIKeyAYEKOFBPNLCAJY-UHFFFAOYSA-O
SMILES
SoftwareSMILES
CACTVS 3.341Cc1ncc(C[n+]2csc(CCO[P@@](O)(=O)O[P](O)(O)=O)c2C)c(N)n1
OpenEye OEToolkits 1.5.0Cc1c(sc[n+]1Cc2cnc(nc2N)C)CCO[P@](=O)(O)OP(=O)(O)O
OpenEye OEToolkits 1.5.0Cc1c(sc[n+]1Cc2cnc(nc2N)C)CCOP(=O)(O)OP(=O)(O)O
CACTVS 3.341Cc1ncc(C[n+]2csc(CCO[P](O)(=O)O[P](O)(O)=O)c2C)c(N)n1
ACDLabs 10.04O=P(O)(O)OP(=O)(O)OCCc1sc[n+](c1C)Cc2c(nc(nc2)C)N
FormulaC12 H19 N4 O7 P2 S
NameTHIAMINE DIPHOSPHATE
ChEMBLCHEMBL1236376
DrugBank
ZINCZINC000008215517
PDB chain6had Chain A Residue 704 [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]
PDB6had Low-barrier hydrogen bonds in enzyme cooperativity.
Resolution1.04 Å
Binding residue
(original residue number in PDB)		S40 K75 H77 L125 G154 G156 E157 N185 L187 Q189 K244 H258
Binding residue
(residue number reindexed from 1)		S36 K71 H73 L121 G150 G152 E153 N181 L183 Q185 K240 H254
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) H37 K244 H258 E366 R395 Q428
Catalytic site (residue number reindexed from 1) H33 K240 H254 E362 R391 Q424
Enzyme Commision number 2.2.1.1: transketolase.
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0003824 catalytic activity
GO:0004802 transketolase activity
GO:0005509 calcium ion binding
GO:0005515 protein binding
GO:0016740 transferase activity
GO:0016744 transketolase or transaldolase activity
GO:0030976 thiamine pyrophosphate binding
GO:0042803 protein homodimerization activity
GO:0046872 metal ion binding
Biological Process
GO:0006098 pentose-phosphate shunt
GO:0006796 phosphate-containing compound metabolic process
GO:0009052 pentose-phosphate shunt, non-oxidative branch
GO:0019637 organophosphate metabolic process
GO:0040008 regulation of growth
GO:0046166 glyceraldehyde-3-phosphate biosynthetic process
GO:1901135 carbohydrate derivative metabolic process
GO:1901159 xylulose 5-phosphate biosynthetic process
Cellular Component
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005777 peroxisome
GO:0005789 endoplasmic reticulum membrane
GO:0005829 cytosol
GO:0016604 nuclear body
GO:0031982 vesicle
GO:0070062 extracellular exosome

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6had, PDBe:6had, PDBj:6had
PDBsum6had
PubMed31534226
UniProtP29401|TKT_HUMAN Transketolase (Gene Name=TKT)

[Back to BioLiP]