Structure of PDB 6rxt Chain CI Binding Site BS03

Receptor Information
>6rxt Chain CI (length=822) Species: 209285 (Thermochaetoides thermophila) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ARQAARSHDIKEKRLHVPLVDRLPDEPPPRLVVIVGPPGVGKTTLLKSLV
RRYTKETMSDPVGPITVVTSKKQRLTFIECPNELEAMIDMAKVADIVLLM
IDGNYGFEMETMEFLNILANTGMPGNVFGILTHLDLFKKPSALKDAKKRL
KHRLWTELYQGAHLFYLSGVLNGRYPDREIHNLSRFLSVMKNPRPLVWRN
THPYTIIDNYRDITHPTKIEEDPLCDRTIELSGYLRGTNFAAQGQRVHIA
GVGDFTISKIEELPDPCPTPAMEKAPRRRLDEKDKKLWAPMADRSGMKIS
GDHIVITREKGFTFDKDANVERGEGEQLIVDLQGEKKLLGQTDKGVKLFA
GGEQLTQKPWRAIDLARLMYDTTLTPAQALRRWRGDYEELKTKWSNPENI
DALRRTRFQWYEMQKAMLQKQLDINKAEYAELDEHQRRQVEGYRAGKYAR
LVIEGVPAEFCKNFQPRMPILVGGLSATEDRFGFVQVRIKRHRWHKKILK
TGDPLIFSLGWRRFQTLPIYSIWDNRTRNRMLKYTPEHMHCFGTFWGPLI
APNTSFCCFQSFSASNPGFRIAATGTVLSVDESTEIVKKLKLVGTPWKIF
KNTAFIKDMFNSSLEIAKFEGAAIRTVSGIRGQIKRALSKPEGYFRATFE
DKILLSDIVILKAWYPVKPKQFYNPATNLIGWQSMRLTGEIRRAENIPTP
QNPNSTYRKIERPERHFNPLRVPKNLAAELPFKSQIVQTKPQKKETYMQK
RAVVVGREERKLRDLMQKLTTIRKEKIAKRKAKKEAQREKLKKELAEIEE
RRREKQKKEKKEFWEREGKKRK
Ligand information
Ligand IDGTP
InChIInChI=1S/C10H16N5O14P3/c11-10-13-7-4(8(18)14-10)12-2-15(7)9-6(17)5(16)3(27-9)1-26-31(22,23)29-32(24,25)28-30(19,20)21/h2-3,5-6,9,16-17H,1H2,(H,22,23)(H,24,25)(H2,19,20,21)(H3,11,13,14,18)/t3-,5-,6-,9-/m1/s1
InChIKeyXKMLYUALXHKNFT-UUOKFMHZSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6c1nc2c(n1[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=C(NC2=O)N
CACTVS 3.370NC1=Nc2n(cnc2C(=O)N1)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
CACTVS 3.370NC1=Nc2n(cnc2C(=O)N1)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O
OpenEye OEToolkits 1.7.6c1nc2c(n1C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N
ACDLabs 12.01O=P(O)(O)OP(=O)(O)OP(=O)(O)OCC3OC(n2cnc1c2N=C(N)NC1=O)C(O)C3O
FormulaC10 H16 N5 O14 P3
NameGUANOSINE-5'-TRIPHOSPHATE
ChEMBLCHEMBL1233147
DrugBankDB04137
ZINCZINC000060094177
PDB chain6rxt Chain CI Residue 1201 [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]
PDB6rxt Thermophile 90S Pre-ribosome Structures Reveal the Reverse Order of Co-transcriptional 18S rRNA Subdomain Integration.
Resolution7.0 Å
Binding residue
(original residue number in PDB)		G78 G80 K81 T82 T83 T171 H172 D174 L175 V209
Binding residue
(residue number reindexed from 1)		G39 G41 K42 T43 T44 T132 H133 D135 L136 V170
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003924 GTPase activity
GO:0005525 GTP binding
GO:0034511 U3 snoRNA binding
Biological Process
GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0000479 endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0042254 ribosome biogenesis
Cellular Component
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0030686 90S preribosome

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6rxt, PDBe:6rxt, PDBj:6rxt
PDBsum6rxt
PubMed31378463
UniProtG0S445

[Back to BioLiP]