Structure of PDB 8om4 Chain W Binding Site BS02

Receptor Information
>8om4 Chain W (length=402) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KRVTPGSLYKNWTNTTHTAQLQQTAVPLALPIFNFDDISKTLNKVVSYSN
KQYKSLHHLGSFKKSQFNELFQKPVCLVREDATNSFLKKLVSHPVKKFII
TGEPGVGKTVLLSQAHAYAVDSKQIIINISYPELFLNGRNDFSYDDDLKL
FIQPMYLKKLIRKILKANDPALLKSIELSKDYKFSNANPKNASVKPFVTL
NKTKNTVLDLLSVMTHPHNRGKLMKAIIDELSVQSKVPIMFTVDNFSKVL
TTAYSAYRNTENKQIYSLDLQMGKLMMDIISGETKFANGESSTILAISGV
DRTNKTLPVALGKIPVDPYVTRYHYEPKFVELLQKGNVTEFEVPKLNKQE
VNELIDYYKQSNVLLDKDITGKKWENLIDEKYFLSGNGNPRELLKSLVLS
HR
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 chain8om4 Chain W Residue 501 [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]
PDB8om4 METTL17 is an Fe-S cluster checkpoint for mitochondrial translation.
Resolution2.32 Å
Binding residue
(original residue number in PDB)		Q114 C124 L125 G153 G155 K156 T157 V158 S346 G347 P438 R439
Binding residue
(residue number reindexed from 1)		Q66 C76 L77 G105 G107 K108 T109 V110 S298 G299 P390 R391
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0005524 ATP binding
GO:0005525 GTP binding
Biological Process
GO:0032543 mitochondrial translation
Cellular Component
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0005763 mitochondrial small ribosomal subunit
GO:0005840 ribosome
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8om4, PDBe:8om4, PDBj:8om4
PDBsum8om4
PubMed38199006
UniProtQ01163|RT23_YEAST Small ribosomal subunit protein mS29 (Gene Name=RSM23)

[Back to BioLiP]