Structure of PDB 5ey3 Chain A Binding Site BS01

Receptor Information
>5ey3 Chain A (length=442) Species: 99287 (Salmonella enterica subsp. enterica serovar Typhimurium str. LT2) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GSMFLAQEIIRKKRDGHALSDEEIRFFINGIRDNTISEGQIAALAMTIFF
HDMTMPERVSLTMAMRDSGTVLDWKSLNLNGPIVDKHSTGGVGDVTSLML
GPMVAACGGYVPMISGRGLGHTGGTLDKLEAIPGFDIFPDDNRFREIIQD
VGVAIIGQTSSLAPADKRFYATRDITATVDSIPLITGSILAKKLAEGLDA
LVMDVKVGSGAFMPTYELSEALAEAIVGVANGAGVRTTALLTDMNQVLAS
SAGNAVEVREAVQFLTGEYRNPRLFDVTMALCVEMLISGQLAKDDAEARA
KLQAVLDNGKAAEVFGRMVAAQKGPSDFVENYDKYLPTAMLSKAVYADTE
GFISAMDTRALGMAVVSMGGGRRQASDTIDYSVGFTDMARLGDSIDGQRP
LAVIHAKDEASWQEAAKAVKAAIILDDKAPASTPSVYRRITE
Ligand information
Ligand IDCTN
InChIInChI=1S/C9H13N3O5/c10-5-1-2-12(9(16)11-5)8-7(15)6(14)4(3-13)17-8/h1-2,4,6-8,13-15H,3H2,(H2,10,11,16)/t4-,6-,7-,8-/m1/s1
InChIKeyUHDGCWIWMRVCDJ-XVFCMESISA-N
SMILES
SoftwareSMILES
CACTVS 3.341NC1=NC(=O)N(C=C1)[CH]2O[CH](CO)[CH](O)[CH]2O
OpenEye OEToolkits 1.5.0C1=CN(C(=O)N=C1N)[C@H]2[C@@H]([C@@H]([C@H](O2)CO)O)O
CACTVS 3.341NC1=NC(=O)N(C=C1)[C@@H]2O[C@H](CO)[C@@H](O)[C@H]2O
ACDLabs 10.04O=C1N=C(N)C=CN1C2OC(C(O)C2O)CO
OpenEye OEToolkits 1.5.0C1=CN(C(=O)N=C1N)C2C(C(C(O2)CO)O)O
FormulaC9 H13 N3 O5
Name4-AMINO-1-BETA-D-RIBOFURANOSYL-2(1H)-PYRIMIDINONE;
CYTIDINE
ChEMBLCHEMBL95606
DrugBankDB02097
ZINCZINC000002583632
PDB chain5ey3 Chain B Residue 506 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5ey3 X-ray structure of the thymidine phosphorylase from Salmonella typhimurium in complex with cytidine and sulphate
Resolution1.905 Å
Binding residue
(original residue number in PDB)
R115 E128
Binding residue
(residue number reindexed from 1)
R117 E130
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) D83 K84 H85 S86 T123 D164 R171 S186 K190 K191
Catalytic site (residue number reindexed from 1) D85 K86 H87 S88 T125 D166 R173 S188 K192 K193
Enzyme Commision number 2.4.2.4: thymidine phosphorylase.
Gene Ontology
Molecular Function
GO:0004645 1,4-alpha-oligoglucan phosphorylase activity
GO:0009032 thymidine phosphorylase activity
GO:0016154 pyrimidine-nucleoside phosphorylase activity
GO:0016757 glycosyltransferase activity
GO:0016763 pentosyltransferase activity
Biological Process
GO:0006206 pyrimidine nucleobase metabolic process
GO:0006213 pyrimidine nucleoside metabolic process
GO:0046104 thymidine metabolic process
Cellular Component
GO:0005829 cytosol

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Biological Process

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Cellular Component
External links
PDB RCSB:5ey3, PDBe:5ey3, PDBj:5ey3
PDBsum5ey3
PubMed
UniProtQ7CP66|TYPH_SALTY Thymidine phosphorylase (Gene Name=deoA)

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