Structure of PDB 7z11 Chain F Binding Site BS03

Receptor Information
>7z11 Chain F (length=728) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KFKLPAEFITRPHPSKDHGKETCTAYIHPNVLSSLEINPGSFCTVGKIGE
NGILVIARAGDEEVHPVNVITLSTTIRSVGNLILGDRLELKKAQVQPPYA
TKVTVGSLQGYNILECMEEKVIQKLLDDSGVIMPGMIFQNLKTKAGDESI
DVVITDASDDNLFYLSPPFIFRKGSTHITFSKETQANRKYNLPEPLSYAA
VGGLDKEIESLKSAIEIPLHQPTLFSSFGVSPPRGILLHGPPGTGKTMLL
RVVANTSNAHVLTINGPSIVSKYLGETEAALRDIFNEARKYQPSIIFIDE
IDSIAPNRANDDSGEVESRVVATLLTLMDGMGAAGKVVVIAATNRPNSVD
PALRRPGRFDQEVEIGIPDVDARFDILTKQFSRMSSDRHVLDSEAIKYIA
SKTHGYVGADLTALCRESVMKTIQRGLGTDANIDKFSLKVTLKDVESAMV
DIRPSAMREIFLEMPKVYWSDIGGQEELKTKMKEMIQLPLEASETFARLG
ISAPKGVLLYGPPGCSKTLTAKALATESGINFLAVKGPEIFNKYVGESER
AIREIFRKARSAAPSIIFFDEIDALSPDRDGSSTSAANHVLTSLLNEIDG
VEELKGVVIVAATNRPDEIDAALLRPGRLDRHIYVGPPDVNARLEILKKC
TKKFNTEESGVDLHELADRTEGYSGAEVVLLCQEAGLAAIMEDLDVAKVE
LRHFEKAFKGIARGITPEMLSYYEEFAL
Ligand information
Ligand IDAGS
InChIInChI=1S/C10H16N5O12P3S/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(25-10)1-24-28(18,19)26-29(20,21)27-30(22,23)31/h2-4,6-7,10,16-17H,1H2,(H,18,19)(H,20,21)(H2,11,12,13)(H2,22,23,31)/t4-,6-,7-,10-/m1/s1
InChIKeyNLTUCYMLOPLUHL-KQYNXXCUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OP(=S)(O)O)O)O)N
CACTVS 3.370Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=S)[C@@H](O)[C@H]3O
CACTVS 3.370Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=S)[CH](O)[CH]3O
OpenEye OEToolkits 1.7.6c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)OP(=S)(O)O)O)O)N
ACDLabs 12.01O=P(O)(OP(=S)(O)O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O
FormulaC10 H16 N5 O12 P3 S
NamePHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER;
ATP-GAMMA-S;
ADENOSINE 5'-(3-THIOTRIPHOSPHATE);
ADENOSINE 5'-(GAMMA-THIOTRIPHOSPHATE);
ADENOSINE-5'-DIPHOSPHATE MONOTHIOPHOSPHATE
ChEMBLCHEMBL131890
DrugBankDB02930
ZINCZINC000008295128
PDB chain7z11 Chain F Residue 902 [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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PDB7z11 Visualizing maturation factor extraction from the nascent ribosome by the AAA-ATPase Drg1.
Resolution3.2 Å
Binding residue
(original residue number in PDB)		G519 G560 C561 S562 K563 T564 L565 D616 I692
Binding residue
(residue number reindexed from 1)		G473 G514 C515 S516 K517 T518 L519 D570 I646
Annotation score4
Enzymatic activity
Enzyme Commision number 3.6.4.10: non-chaperonin molecular chaperone ATPase.
Gene Ontology
Molecular Function
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016787 hydrolase activity
GO:0016887 ATP hydrolysis activity
Biological Process
GO:0009410 response to xenobiotic stimulus
GO:0034214 protein hexamerization
GO:0042254 ribosome biogenesis
GO:0042273 ribosomal large subunit biogenesis
Cellular Component
GO:0005737 cytoplasm
GO:0030687 preribosome, large subunit precursor

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Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:7z11, PDBe:7z11, PDBj:7z11
PDBsum7z11
PubMed36097293
UniProtP32794|AFG2_YEAST ATPase family gene 2 protein (Gene Name=AFG2)

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