Structure of PDB 5cx6 Chain B Binding Site BS01

Receptor Information
>5cx6 Chain B (length=665) Species: 83810 (Thosea asigna virus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PTRLSLEAMLAERAMVARQDLAGLKRKLAGADRVLAPQSPEQCGRESAQA
QARSVTSELKSAVKEAQGLEHQTLDFLEQLGEYPVCGILHGDHPVHPSGT
HNNNGKVSVKRQFAAGVNTSDALTCAFRFEDSDLVRETALKTTYTDGTWA
GFVQRLKMQTTRKCVQEKVSRKLLKQLFPYDPQKLVDVSGELSELVLGIK
TNAIASAGPPYWRTKRDALPDMLDCVLPLLYDHIVRKDLTTLRNKHPELF
LAECKNKTDRYEVESLGEKTRPYFSHPFHLSALVSVLSQSFSGALKIMTE
DSTSFNAYGFSWTNGGAEDLAIWARQAGEAGKKPPRIACYGDDTDIYYRK
DGKLYRICPDFKQMDGSVDATTIEAVVDYVVDAHVKQYPTARQFWEEVGK
LWVEMATQSPFLIDGTKVYRKMQKDGLMTGVVGTTLFDTVKSALAYNDWA
DQLMFGSLNLLEEKYAIEFFKNKHGLVIKEGTWKPALVNEDPGFGELWTE
QKFLGLQLKVVRRENEKVYVPNLPFEDWLTMWVTPRSKYRSKETETMRER
TLFDRARGLLVTGAVFDERARGLMGAVINSTAPEVVCMRVQEGGGRGAPP
AYAFLTRDGVFEFPISDGYPSYDWVVSLYSRDHPCDMPRVFPEAATLIAS
YRKQVMDTRVVIKEE
Ligand information
Ligand IDCDP
InChIInChI=1S/C9H15N3O11P2/c10-5-1-2-12(9(15)11-5)8-7(14)6(13)4(22-8)3-21-25(19,20)23-24(16,17)18/h1-2,4,6-8,13-14H,3H2,(H,19,20)(H2,10,11,15)(H2,16,17,18)/t4-,6-,7-,8-/m1/s1
InChIKeyZWIADYZPOWUWEW-XVFCMESISA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0C1=CN(C(=O)N=C1N)C2C(C(C(O2)COP(=O)(O)OP(=O)(O)O)O)O
CACTVS 3.341NC1=NC(=O)N(C=C1)[C@@H]2O[C@H](CO[P@](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]2O
ACDLabs 10.04O=P(O)(O)OP(=O)(O)OCC2OC(N1C(=O)N=C(N)C=C1)C(O)C2O
OpenEye OEToolkits 1.5.0C1=CN(C(=O)N=C1N)[C@H]2[C@@H]([C@@H]([C@H](O2)CO[P@@](=O)(O)OP(=O)(O)O)O)O
CACTVS 3.341NC1=NC(=O)N(C=C1)[CH]2O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]2O
FormulaC9 H15 N3 O11 P2
NameCYTIDINE-5'-DIPHOSPHATE
ChEMBLCHEMBL425252
DrugBankDB04555
ZINCZINC000008215624
PDB chain5cx6 Chain B Residue 713 [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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PDB5cx6 The Structure of the RNA-Dependent RNA Polymerase of a Permutotetravirus Suggests a Link between Primer-Dependent and Primer-Independent Polymerases.
Resolution2.1 Å
Binding residue
(original residue number in PDB)		M556 R559 T560 D563 M597 V599 Q600 E601
Binding residue
(residue number reindexed from 1)		M547 R550 T551 D554 M588 V590 Q591 E592
Annotation score4
Enzymatic activity
Enzyme Commision number ?
External links