Structure of PDB 4d26 Chain A Binding Site BS02

Receptor Information
>4d26 Chain A (length=430) Species: 7091 (Bombyx mori) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GVTYVPPEPTNDETEIFSSTISSGINFDKFDHIAVKVSGENPPRPIESFE
TANLRKYVLDNVLKAGYRKPTPIQKNAIPIIMSGRDLMGCAQTGSGKTAA
FLVPIINMLLQDPKDLISENGCAQPQVIIVSPTRELTLQIFNEARKFSYG
SVLKVAVAYGGTAVRHQGDNIARGCHILVATPGRLHDFVERNRVSFGSVR
FVVLDQADCMLDMGFMPSIEKMMLHPTMVETTKRQTLMFSATFPEDIQHL
AGRFLNNYLFVAVGIVGGASTDVEQIFIEVTKYEKRNSLKQLIEENDGKR
ILVFVETKRNADFIAAMLSEQQLLTSSIHGDRMQREREEALQNFKSGKHC
ILVATAVAARGLDIKNVDIVVNYDLPKSIDEYVHRIGRTGRVGNRGKAVS
FYDSDQDLALVADLSKILRQADQSVPDFLK
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 chain4d26 Chain A Residue 1564 [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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PDB4d26 RNA Clamping by Vasa Assembles a Pirna Amplifier Complex on Transposon Transcripts.
Resolution2.1 Å
Binding residue
(original residue number in PDB)		T153 F182 Y200 K202 Q207 G227 G229 K230 T231 D496 R524 V525
Binding residue
(residue number reindexed from 1)		T20 F49 Y67 K69 Q74 G94 G96 K97 T98 D363 R391 V392
Annotation score5
Enzymatic activity
Enzyme Commision number 3.6.4.13: RNA helicase.
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0003724 RNA helicase activity
GO:0005524 ATP binding

View graph for
Molecular Function
External links
PDB RCSB:4d26, PDBe:4d26, PDBj:4d26
PDBsum4d26
PubMed24910301
UniProtO01378

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