Structure of PDB 6tmf Chain d Binding Site BS06

Receptor Information
>6tmf Chain d (length=582) Species: 2287 (Saccharolobus solfataricus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MRVAVINYDFCKPDKCNLECINFCPVDRSGGKAIELSEIVKGKPVIYEET
CIGCGICVKKCPYEAISIVNLPDELEGEVIHRYKVNGFKLFGLPTPKNNT
ILGVLGKNGVGKTTVLKILAGEIIPNFGDPNSKVGKDEVLKRFRGKEIYN
YFKELYSNELKIVHKIQYVEYASKFLKGTVNEILTKIDERGKKDEVKELL
NMTNLWNKDANILSGGGLQRLLVAASLLREADVYIFDAPSSYLDVRERMN
MAKAIRELLKNKYVIVVDHDLIVLDYLTDLIHIIYGESSVYGRVSKSYAA
RVGINNFLKGYLPAENMKIRPDEIKFMLKTKMKWTKIIKKLGDFQLVVDN
GEAKEGEIIGILGPNGIGKTTFARILVGEITADEGSVTPEKQILSYKPQR
IFPNYDGTVQQYLENASKDALSTSSWFFEEVTKRLNLHRLLESNVNDLSG
GELQKLYIAATLAKEADLYVLDAPSSYLDVEERYIVAKAIKRVTRERKAV
TFIIDHDLSIHDYIADRIIVFKGEPEKAGLATSPVTLKTGMNEFLRELEV
TFRRDAETGRPRVNKIGSYLDRVQKERGDYYS
Ligand information
Ligand IDANP
InChIInChI=1S/C10H17N6O12P3/c11-8-5-9(13-2-12-8)16(3-14-5)10-7(18)6(17)4(27-10)1-26-31(24,25)28-30(22,23)15-29(19,20)21/h2-4,6-7,10,17-18H,1H2,(H,24,25)(H2,11,12,13)(H4,15,19,20,21,22,23)/t4-,6-,7-,10-/m1/s1
InChIKeyPVKSNHVPLWYQGJ-KQYNXXCUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.0c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(NP(=O)(O)O)O)O)O)N
CACTVS 3.370Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)N[P](O)(O)=O)[CH](O)[CH]3O
CACTVS 3.370Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)N[P](O)(O)=O)[C@@H](O)[C@H]3O
ACDLabs 12.01O=P(O)(O)NP(=O)(O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O
OpenEye OEToolkits 1.7.0c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)O[P@@](=O)(NP(=O)(O)O)O)O)O)N
FormulaC10 H17 N6 O12 P3
NamePHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
ChEMBLCHEMBL1230989
DrugBank
ZINCZINC000008660410
PDB chain6tmf Chain d Residue 605 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6tmf Molecular analysis of the ribosome recycling factor ABCE1 bound to the 30S post-splitting complex.
Resolution2.8 Å
Binding residue
(original residue number in PDB)		K208 I212 S214 G215 G216 L353 F356 N377 G378 I379 G380 K381 T382 Q411 H518 E538
Binding residue
(residue number reindexed from 1)		K208 I212 S214 G215 G216 L341 F344 N365 G366 I367 G368 K369 T370 Q399 H506 E526
Annotation score3
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0005506 iron ion binding
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016491 oxidoreductase activity
GO:0016887 ATP hydrolysis activity
GO:0043024 ribosomal small subunit binding
GO:0046872 metal ion binding
Biological Process
GO:0006413 translational initiation
GO:0006415 translational termination

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:6tmf, PDBe:6tmf, PDBj:6tmf
PDBsum6tmf
PubMed32064661
UniProtQ980K5

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