Structure of PDB 8e9h Chain M Binding Site BS01

Receptor Information
>8e9h Chain M (length=517) Species: 246196 (Mycolicibacterium smegmatis MC2 155) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TFPWLTVLWAVPVVGAAVVILLPAAQQVLAKWLALAVSVLTLAVTAVVAI
GFDPAAAQYQFVESHRWIPSFGTGYILGVDGIALALVVLTAVLVPLLIIA
GWNDASRQTGLAGRSVQAYLALTLAVEGMVLMSLVALDILLFYVFFEAML
IPMYFLIGGFGGENRSRAAVKFLLYNLFGGLIMLAAVIGLYVVTAGSDAF
AAGTFDFREIVAAVSSGEFAVNPAIMNFLFLGFMFAFAVKAPLWPFHRWL
PDAAVEATPASAVLMMAVMDKVGTFGMLRYCLQLFPDASTYFRPVVITLA
AIGIVYGAVLAIGQTDVMRLIAYTSISHFGFIILGIFVMTSQGQSGSTLY
MINHGISTAALFLIAGFLVSRRGSRLIDSYGGVQKVAPVLAGTFLVAGLA
TLSLPGLAPFISEFLVLIGTFTRYPVVAVFAATALVLSAVYILWTYQRMM
TGPVRDGIGDGDRPVRDLVPRELVVVAPLLALLLVLGIYPKPALDVINPA
VEHTLTTIGQTDPEPTV
Ligand information
Ligand IDXP2
InChIInChI=1S/C51H93O24P/c1-4-7-10-13-15-17-20-22-25-35(53)67-29-32(70-37(55)27-24-19-12-9-6-3)30-69-76(65,66)75-49-47(73-50-45(63)40(58)38(56)33(28-52)71-50)43(61)42(60)44(62)48(49)74-51-46(64)41(59)39(57)34(72-51)31-68-36(54)26-23-21-18-16-14-11-8-5-2/h32-34,38-52,56-64H,4-31H2,1-3H3,(H,65,66)/t32-,33-,34-,38-,39-,40+,41+,42-,43-,44+,45+,46+,47-,48+,49+,50-,51+/m1/s1
InChIKeyQGXVEMBXLAEQBM-PUGXMYIYSA-N
SMILES
SoftwareSMILES
CACTVS 3.385CCCCCCCCCCC(=O)OC[CH](CO[P](O)(=O)O[CH]1[CH](O[CH]2O[CH](CO)[CH](O)[CH](O)[CH]2O)[CH](O)[CH](O)[CH](O)[CH]1O[CH]3O[CH](COC(=O)CCCCCCCCCC)[CH](O)[CH](O)[CH]3O)OC(=O)CCCCCCC
OpenEye OEToolkits 2.0.7CCCCCCCCCCC(=O)OCC1C(C(C(C(O1)OC2C(C(C(C(C2OP(=O)(O)OCC(COC(=O)CCCCCCCCCC)OC(=O)CCCCCCC)OC3C(C(C(C(O3)CO)O)O)O)O)O)O)O)O)O
OpenEye OEToolkits 2.0.7CCCCCCCCCCC(=O)OC[C@@H]1[C@H]([C@@H]([C@@H](C(O1)O[C@H]2[C@H]([C@@H]([C@H]([C@H]([C@@H]2OP(=O)(O)OC[C@@H](COC(=O)CCCCCCCCCC)OC(=O)CCCCCCC)O[C@@H]3[C@H]([C@H](C([C@H](O3)CO)O)O)O)O)O)O)O)O)O
ACDLabs 12.01CCCCCCCCCCC(=O)OCC(OC(=O)CCCCCCC)COP(=O)(O)OC1C(OC2OC(COC(=O)CCCCCCCCCC)C(O)C(O)C2O)C(O)C(O)C(O)C1OC1OC(CO)C(O)C(O)C1O
CACTVS 3.385CCCCCCCCCCC(=O)OC[C@H](CO[P](O)(=O)O[C@H]1[C@H](O[C@H]2O[C@H](CO)[C@@H](O)[C@H](O)[C@@H]2O)[C@H](O)[C@@H](O)[C@H](O)[C@@H]1O[C@@H]3O[C@H](COC(=O)CCCCCCCCCC)[C@@H](O)[C@H](O)[C@@H]3O)OC(=O)CCCCCCC
FormulaC51 H93 O24 P
Name(2R)-3-{[(R)-hydroxy({(1S,2R,3R,4R,5S,6S)-3,4,5-trihydroxy-2-(alpha-D-mannopyranosyloxy)-6-[(6-O-undecanoyl-beta-D-mannopyranosyl)oxy]cyclohexyl}oxy)phosphoryl]oxy}-2-(octanoyloxy)propyl undecanoate
ChEMBL
DrugBank
ZINC
PDB chain8e9h Chain L Residue 701 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB8e9h Structure of mycobacterial respiratory complex I.
Resolution2.7 Å
Binding residue
(original residue number in PDB)
I315 W447 Q450
Binding residue
(residue number reindexed from 1)
I312 W444 Q447
Annotation score1
Enzymatic activity
Enzyme Commision number 1.6.99.5: Transferred entry: 1.6.5.11.
Gene Ontology
Molecular Function
GO:0003954 NADH dehydrogenase activity
GO:0008137 NADH dehydrogenase (ubiquinone) activity
GO:0016491 oxidoreductase activity
GO:0048039 ubiquinone binding
Biological Process
GO:0009060 aerobic respiration
GO:0015990 electron transport coupled proton transport
GO:0042773 ATP synthesis coupled electron transport
Cellular Component
GO:0016020 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:8e9h, PDBe:8e9h, PDBj:8e9h
PDBsum8e9h
PubMed36952383
UniProtA0QU24

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