Structure of PDB 8q3v Chain e Binding Site BS02

Receptor Information
>8q3v Chain e (length=294) Species: 145263 (Methanothermobacter marburgensis) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MDPMITGLGVVALMGAAATIAGAAEDLESDVGSQSNPNSQVQLAPQMGHL
HRIINKAVSGEPVAYGTWCGIAGSVAFVLMNSMQLPVIMAIAIGAVIAAM
VHTTYAVTSHMGRIVSQSQFNQPLFMDMLVQHLGPIAGHGFIVTFCTVGL
SYLMTLPIPGFAHPFPLPLLAVLWGITIGAIGSSTGDVHYGAEREYQQYP
FGGGIPVAIHGDITTKAELGARNSMDVVHFCAKYGGPLTGFAFGAIVFLS
FWNTIVFGITGGIISGLIIVLLLIILNNRLEVFARNRYGPYKEE
Ligand information
Ligand IDJCV
InChIInChI=1S/C98H193O19P/c1-70-29-17-33-74(5)41-25-49-82(13)57-61-110-66-86(68-114-98-96(107)90(101)89(100)88(65-99)116-98)112-63-59-84(15)51-27-43-76(7)35-19-31-72(3)39-23-47-80(11)55-56-81(12)48-24-40-73(4)32-20-36-77(8)44-28-52-85(16)60-64-113-87(69-115-118(108,109)117-97-94(105)92(103)91(102)93(104)95(97)106)67-111-62-58-83(14)50-26-42-75(6)34-18-30-71(2)38-22-46-79(10)54-53-78(9)45-21-37-70/h70-107H,17-69H2,1-16H3,(H,108,109)/t70-,71-,72-,73-,74+,75+,76+,77+,78-,79-,80-,81-,82+,83+,84+,85+,86-,87-,88+,89+,90-,91-,92-,93+,94+,95+,96+,97-,98+/m0/s1
InChIKeyJZJZIEMIUITWCY-BEAKYOBHSA-N
SMILES
SoftwareSMILES
CACTVS 3.385C[C@@H]1CCC[C@H](C)CCC[C@H](C)CC[C@@H](C)CCC[C@@H](C)CCC[C@@H](C)CCC[C@@H](C)CCOC[C@@H](CO[P](O)(=O)O[C@H]2[C@H](O)[C@@H](O)[C@H](O)[C@@H](O)[C@H]2O)OCC[C@H](C)CCC[C@H](C)CCC[C@H](C)CCC[C@H](C)CC[C@@H](C)CCC[C@@H](C)CCC[C@@H](C)CCC[C@@H](C)CCO[C@@H](COCC[C@H](C)CCC1)CO[C@@H]3O[C@H](CO)[C@@H](O)[C@H](O)[C@H]3O
OpenEye OEToolkits 2.0.7CC1CCCC(CCCC(CCOCC(OCCC(CCCC(CCCC(CCCC(CCC(CCCC(CCCC(CCCC(CCOC(COCCC(CCCC(CCCC(CCCC(CCC(CCC1)C)C)C)C)C)COP(=O)(O)OC2C(C(C(C(C2O)O)O)O)O)C)C)C)C)C)C)C)C)COC3C(C(C(C(O3)CO)O)O)O)C)C
OpenEye OEToolkits 2.0.7C[C@H]1CCC[C@H](CCC[C@H](CCOC[C@H](OCC[C@@H](CCC[C@@H](CCC[C@@H](CCC[C@@H](CC[C@H](CCC[C@H](CCC[C@H](CCC[C@H](CCO[C@@H](COCC[C@@H](CCC[C@@H](CCC[C@@H](CCC[C@@H](CC[C@H](CCC1)C)C)C)C)C)COP(=O)(O)OC2[C@@H]([C@H](C([C@H]([C@H]2O)O)O)O)O)C)C)C)C)C)C)C)C)CO[C@H]3[C@@H]([C@H]([C@@H]([C@H](O3)CO)O)O)O)C)C
CACTVS 3.385C[CH]1CCC[CH](C)CCC[CH](C)CC[CH](C)CCC[CH](C)CCC[CH](C)CCC[CH](C)CCOC[CH](CO[P](O)(=O)O[CH]2[CH](O)[CH](O)[CH](O)[CH](O)[CH]2O)OCC[CH](C)CCC[CH](C)CCC[CH](C)CCC[CH](C)CC[CH](C)CCC[CH](C)CCC[CH](C)CCC[CH](C)CCO[CH](COCC[CH](C)CCC1)CO[CH]3O[CH](CO)[CH](O)[CH](O)[CH]3O
FormulaC98 H193 O19 P
Name[(2~{S},7~{R},11~{R},15~{S},19~{S},22~{S},26~{S},30~{R},34~{R},39~{S},43~{R},47~{R},51~{S},55~{S},58~{S},62~{S},66~{R},70~{R})-39-[[(2~{R},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxymethyl]-7,11,15,19,22,26,30,34,43,47,51,55,58,62,66,70-hexadecamethyl-1,4,37,40-tetraoxacyclodoheptacont-2-yl]methyl [(2~{R},3~{S},5~{R},6~{R})-2,3,4,5,6-pentakis(oxidanyl)cyclohexyl] hydrogen phosphate
ChEMBL
DrugBank
ZINC
PDB chain8q3v Chain f Residue 100 [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]
PDB8q3v Structural and mechanistic basis of the central energy-converting methyltransferase complex of methanogenesis.
Resolution2.08 Å
Binding residue
(original residue number in PDB)
G149 Y152 L153 H229 K233
Binding residue
(residue number reindexed from 1)
G149 Y152 L153 H229 K233
Annotation score1
Gene Ontology
Molecular Function
GO:0008168 methyltransferase activity
GO:0030269 tetrahydromethanopterin S-methyltransferase activity
Biological Process
GO:0006730 one-carbon metabolic process
GO:0015948 methanogenesis
GO:0019386 methanogenesis, from carbon dioxide
GO:0032259 methylation
Cellular Component
GO:0005886 plasma membrane
GO:0034708 methyltransferase complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:8q3v, PDBe:8q3v, PDBj:8q3v
PDBsum8q3v
PubMed38530900
UniProtP80186|MTRE_METTM Tetrahydromethanopterin S-methyltransferase subunit E (Gene Name=mtrE)

[Back to BioLiP]