Structure of PDB 8bef Chain x Binding Site BS01

Receptor Information
>8bef Chain x (length=210) Species: 3702 (Arabidopsis thaliana) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
QVTPSPDRVKWDYRGQRQIIPLGQWLPKVAVDAYVAPNVVLAGQVTVWDG
SSVWNGAVLRGDLNKITVGFCSNVQERCVVHAAWSSPTGLPAQTLIDRYV
TVGAYSLLRSCTIEPECIIGQHSILMEGSLVETRSILEAGSVLPPGRRIP
SGELWGGNPARFIRTLTNEETLEIPKLAVAINHLSGDYFSEFLPYSTIYL
EVEKFKKSLG
Ligand information
Ligand IDBCO
InChIInChI=1S/C25H42N7O17P3S/c1-4-5-16(34)53-9-8-27-15(33)6-7-28-23(37)20(36)25(2,3)11-46-52(43,44)49-51(41,42)45-10-14-19(48-50(38,39)40)18(35)24(47-14)32-13-31-17-21(26)29-12-30-22(17)32/h12-14,18-20,24,35-36H,4-11H2,1-3H3,(H,27,33)(H,28,37)(H,41,42)(H,43,44)(H2,26,29,30)(H2,38,39,40)/t14-,18-,19-,20+,24-/m1/s1
InChIKeyCRFNGMNYKDXRTN-CITAKDKDSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.4CCCC(=O)SCCNC(=O)CCNC(=O)C(C(C)(C)COP(=O)(O)OP(=O)(O)OCC1C(C(C(O1)n2cnc3c2ncnc3N)O)OP(=O)(O)O)O
CACTVS 3.385CCCC(=O)SCCNC(=O)CCNC(=O)[CH](O)C(C)(C)CO[P](O)(=O)O[P](O)(=O)OC[CH]1O[CH]([CH](O)[CH]1O[P](O)(O)=O)n2cnc3c(N)ncnc23
OpenEye OEToolkits 2.0.4CCCC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)COP(=O)(O)OP(=O)(O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)OP(=O)(O)O)O
CACTVS 3.385CCCC(=O)SCCNC(=O)CCNC(=O)[C@H](O)C(C)(C)CO[P](O)(=O)O[P](O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1O[P](O)(O)=O)n2cnc3c(N)ncnc23
ACDLabs 12.01O=P(O)(O)OC1C(OC(C1O)n2cnc3c2ncnc3N)COP(OP(=O)(O)OCC(C)(C(O)C(=O)NCCC(=O)NCCSC(=O)CCC)C)(O)=O
FormulaC25 H42 N7 O17 P3 S
NameButyryl Coenzyme A;
S-{(3S,5S,9R)-1-[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]-3,5,9-trihydroxy-8,8-dimethyl-3,5-dioxido-10,14-dioxo-2,4,6-trioxa-11,15-diaza-3lambda~5~,5lambda~5~-diphosphaheptadecan-17-yl} butanethioate (non-preferred name)
ChEMBL
DrugBank
ZINCZINC000008551126
PDB chain8bef Chain y Residue 302 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB8bef Cryo-EM structure of the respiratory I + III 2 supercomplex from Arabidopsis thaliana at 2 angstrom resolution.
Resolution2.13 Å
Binding residue
(original residue number in PDB)
R152 M169 P187 P188 R190 R204
Binding residue
(residue number reindexed from 1)
R109 M126 P144 P145 R147 R161
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0005515 protein binding
GO:0046872 metal ion binding
Biological Process
GO:0009651 response to salt stress
GO:0009737 response to abscisic acid
GO:0009853 photorespiration
GO:0010228 vegetative to reproductive phase transition of meristem
Cellular Component
GO:0000325 plant-type vacuole
GO:0005739 mitochondrion
GO:0005829 cytosol
GO:0016020 membrane
GO:0031966 mitochondrial membrane
GO:0045271 respiratory chain complex I

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:8bef, PDBe:8bef, PDBj:8bef
PDBsum8bef
PubMed36585502
UniProtQ9SMN1|GCAL2_ARATH Gamma carbonic anhydrase-like 2, mitochondrial (Gene Name=GAMMACAL2)

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