Structure of PDB 8apd Chain F1 Binding Site BS01

Receptor Information
>8apd Chain F1 (length=489) Species: 5702 (Trypanosoma brucei brucei) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PVADHKGRVGHVSQVIGAVVDVHFADGVPPVLTALDVVDKLGRDEPLTLE
IVQHLDAHTGRCIAMQTTDLLKLKAKVVSTGGNISVPVGRETLGRIFNVL
GDAIDQRGPVGEKLRMPIHAVAPKLADQAAEDAVLTTGIKVIDLILPYCK
GGKIGLFGGAGVGKTVIIMELINNVAKGHGGFSVFAGVGERTREGTDLYL
EMMQSKVIDLKGESKCVLVYGQMNEPPGARARVAQSALTMAEYFRDVEGQ
DVLLFIDNIFRFTQANSEVSALLGRIPAAVGYQPTLAEDLGQLQERITST
TKGSITSVQAVYVPADDITDPAPATTFSHLDATTVLDRAVAESGIYPAVN
PLECASRIMDPDVISVDHYNVAQDVVQMLTKYRELQDIIAVLGIDELSEE
DKLIVDRARKLVKFLSQPFQVAEVFTGMTGHYVQLDDTIDSFSGLLMGTY
DQVPEMAFYMVGGINSVLEKAKKMAEEAAELEKMRRARV
Ligand information
Ligand IDATP
InChIInChI=1S/C10H16N5O13P3/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(26-10)1-25-30(21,22)28-31(23,24)27-29(18,19)20/h2-4,6-7,10,16-17H,1H2,(H,21,22)(H,23,24)(H2,11,12,13)(H2,18,19,20)/t4-,6-,7-,10-/m1/s1
InChIKeyZKHQWZAMYRWXGA-KQYNXXCUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=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[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 10.04O=P(O)(O)OP(=O)(O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@@](=O)(O)O[P@](=O)(O)OP(=O)(O)O)O)O)N
CACTVS 3.341Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@](O)(=O)O[P@@](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
FormulaC10 H16 N5 O13 P3
NameADENOSINE-5'-TRIPHOSPHATE
ChEMBLCHEMBL14249
DrugBankDB00171
ZINCZINC000004261765
PDB chain8apd Chain F1 Residue 601 [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]
PDB8apd An ancestral interaction module promotes oligomerization in divergent mitochondrial ATP synthases.
Resolution3.7 Å
Binding residue
(original residue number in PDB)		G186 G188 K189 T190 V191 R216 Y371 F444 F450 T451
Binding residue
(residue number reindexed from 1)		G161 G163 K164 T165 V166 R191 Y346 F419 F425 T426
Annotation score5
Enzymatic activity
Enzyme Commision number 7.1.2.2: H(+)-transporting two-sector ATPase.
Gene Ontology
Molecular Function
GO:0005524 ATP binding
GO:0016887 ATP hydrolysis activity
GO:0046933 proton-transporting ATP synthase activity, rotational mechanism
GO:0046961 proton-transporting ATPase activity, rotational mechanism
Biological Process
GO:0006754 ATP biosynthetic process
GO:0015986 proton motive force-driven ATP synthesis
GO:0042776 proton motive force-driven mitochondrial ATP synthesis
GO:0046034 ATP metabolic process
GO:1902600 proton transmembrane transport
Cellular Component
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0045261 proton-transporting ATP synthase complex, catalytic core F(1)

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8apd, PDBe:8apd, PDBj:8apd
PDBsum8apd
PubMed36220811
UniProtQ9GPE9|ATPB_TRYBB ATP synthase subunit beta, mitochondrial (Gene Name=Tb427.03.1380)

[Back to BioLiP]