Structure of PDB 8t5s Chain A Binding Site BS04

Receptor Information
>8t5s Chain A (length=693) Species: 6239 (Caenorhabditis elegans) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
QLCLRNYQEELCQVALQGKNTIVTAPTGSGKTVIAANIIKEHFESRSSEG
KRFKALFMTPNSMILNQQAASISSYLDHVYHTQIIQGSDNVPTRNVIQSK
DLIVATPQMIVNLCNEHRNSLDSRLDQFFLSTFTIIFFDECHNTVKNSPY
SNIMREYHYLKNMGNMPEGHSLPQIIGLTASLGTGDKNDCLQVRNYIAGL
CASMDVKDLSIVKDNLEELRGYSPIVPDKVLLCERSTDGPIGMFTNRLTL
MMQEVEGLIRTALRNEHIGSFLDPPADKEHAGYQNWVCNQMNLVSGTSFR
ETGTRTIINEALDVLKECFCTLSYNINFHPEVALNYLKDEMEYRTPNFTV
NMIRIWERYHNQLVGTGSAENPMISKTVQYIVEQNLQRADSRTIIFVRTR
YEATILNKVLNSNEELLMLGIKSEWMSGLNKSTASSADISASKQKQMEKL
KMFADGEIRILVSTSVAEEGLDVPECSLVIKYNYATNEIAHVQRRGRGRA
LNSECVLITNSIALRDQESNNRDKESLMSETISLIQNSPAEFRKCVDEES
NKIWPRILREDTDKAQKIEEQINRNIVYKIICKKCEAILCTSKDIRSRNT
QYLVCDPGFWSLVRKTRTGSINCRRENCGLKLGQLIEVNTVDLPCLSALS
IVLLVEGTDKRIIVKKWKNILDKYFTPTEIRQLDVQTMRDADQ
Ligand information
Ligand IDADP
InChIInChI=1S/C10H15N5O10P2/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(24-10)1-23-27(21,22)25-26(18,19)20/h2-4,6-7,10,16-17H,1H2,(H,21,22)(H2,11,12,13)(H2,18,19,20)/t4-,6-,7-,10-/m1/s1
InChIKeyXTWYTFMLZFPYCI-KQYNXXCUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)OP(=O)(O)O)O)O)N
CACTVS 3.341Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 10.04O=P(O)(O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O
CACTVS 3.341Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@@](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)O)O)N
FormulaC10 H15 N5 O10 P2
NameADENOSINE-5'-DIPHOSPHATE
ChEMBLCHEMBL14830
DrugBankDB16833
ZINCZINC000012360703
PDB chain8t5s Chain A Residue 1103 [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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PDB8t5s C. elegans Dicer acts with the RIG-I-like helicase DRH-1 and RDE-4 to cleave dsRNA
Resolution2.9 Å
Binding residue
(original residue number in PDB)		L291 C292 R294 Q297 G317 G319 K320 T321 V322
Binding residue
(residue number reindexed from 1)		L2 C3 R5 Q8 G28 G30 K31 T32 V33
Annotation score5
Enzymatic activity
Enzyme Commision number 3.6.4.13: RNA helicase.
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0004386 helicase activity
GO:0005515 protein binding
GO:0005524 ATP binding
Biological Process
GO:0035194 regulatory ncRNA-mediated post-transcriptional gene silencing
GO:0045087 innate immune response
Cellular Component
GO:0005737 cytoplasm

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8t5s, PDBe:8t5s, PDBj:8t5s
PDBsum8t5s
PubMed38747717
UniProtG5EDI8

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