Structure of PDB 8ape Chain D1 Binding Site BS01

Receptor Information
>8ape Chain D1 (length=487) Species: 5702 (Trypanosoma brucei brucei) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VADHKGRVGHVSQVIGAVVDVHFADGVPPVLTALDVVDKLGRDEPLTLEI
VQHLDAHTGRCIAMQTTDLLKLKAKVVSTGGNISVPVGRETLGRIFNVLG
DAIDQRGPVGEKLRMPIHAVAPKLADQAAEDAVLTTGIKVIDLILPYCKG
GKIGLFGGAGVGKTVIIMELINNVAKGHGGFSVFAGVGERTREGTDLYLE
MMQSKVIDLKGESKCVLVYGQMNEPPGARARVAQSALTMAEYFRDVEGQD
VLLFIDNIFRFTQANSEVSALLGRIPAAVGYQPTLAEDLGQLQERITSTT
KGSITSVQAVYVPADDITDPAPATTFSHLDATTVLDRAVAESGIYPAVNP
LECASRIMDPDVISVDHYNVAQDVVQMLTKYRELQDIIAVLGIDELSEED
KLIVDRARKLVKFLSQPFQVAEVFTGMTGHYVQLDDTIDSFSGLLMGTYD
QVPEMAFYMVGGINSVLEKAKKMAEEAAELEKMRRAR
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 chain8ape Chain D1 Residue 601 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB8ape An ancestral interaction module promotes oligomerization in divergent mitochondrial ATP synthases.
Resolution3.7 Å
Binding residue
(original residue number in PDB)		A185 G186 G188 K189 T190 V191 Y371
Binding residue
(residue number reindexed from 1)		A159 G160 G162 K163 T164 V165 Y345
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)

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Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8ape, PDBe:8ape, PDBj:8ape
PDBsum8ape
PubMed36220811
UniProtQ9GPE9|ATPB_TRYBB ATP synthase subunit beta, mitochondrial (Gene Name=Tb427.03.1380)

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