Structure of PDB 4ld2 Chain A Binding Site BS02

Receptor Information
>4ld2 Chain A (length=188) Species: 228410 (Nitrosomonas europaea ATCC 19718) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NDALHIGLPPFLVQANNEPRVLAAPEARMGYVLELVRANIAADGGPFAAA
VFERDSGLLIAAGTNRVVPGRCSAAHAEILALSLAQAKLDTHDLSADGLP
ACELVTSAEPCVMCFGAVIWSGVRSLVCAARSDDVEAIGFDEGPRPENWM
GGLEARGITVTTGLLRDAACALLREYNACNGVIYNARC
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 chain4ld2 Chain A Residue 202 [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]
PDB4ld2 Structural basis of the substrate specificity of cytidine deaminase superfamily Guanine deaminase
Resolution1.55 Å
Binding residue
(original residue number in PDB)
F48 N66 H77 F141 E143
Binding residue
(residue number reindexed from 1)
F47 N65 H76 F140 E142
Annotation score2
Binding affinityMOAD: Ka=43000M^-1
Enzymatic activity
Enzyme Commision number 3.5.-.-
Gene Ontology
Molecular Function
GO:0003824 catalytic activity
GO:0008270 zinc ion binding
GO:0016787 hydrolase activity
GO:0046872 metal ion binding
GO:0047974 guanosine deaminase activity
Biological Process
GO:0006152 purine nucleoside catabolic process

View graph for
Molecular Function

View graph for
Biological Process
External links
PDB RCSB:4ld2, PDBe:4ld2, PDBj:4ld2
PDBsum4ld2
PubMed24083949
UniProtQ82Y41

[Back to BioLiP]