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BioLiP

Structure of PDB 6q8y Chain z Binding Site BS05

Receptor Information
>6q8y Chain z (length=874) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
IPKFFRYISERWPMILQLIEGTQIPEFDNLYLDMNSILHNCTHGNDDDVT
KRLTEEEVFAKICTYIDHLFQTIKPKKIFYMAIDGVAPRAKMNQQRARRF
RTAMDAEKALKKAIENGDEIPKGEPFDSNSITPGTEFMAKLTKNLQYFIH
DKISNDSKWREVQIIFSGHEVPGEGEHKIMNFIRHLKSQKDFNQNTRHCI
YGLDADLIMLGLSTHGPHFALLREEVTFGRRNSEKKSLEHQNFYLLHLSL
LREYMELEFKEIADEMQFEYNFERILDDFILVMFVIGNDFLPNLPDLHLN
KGAFPVLLQTFKEALLHTDGYINEHGKINLKRLGVWLNYLSQFELLNFEK
DDIDVEWFNLVKQQKKLIGSIKPWLMEQLQEKLSPDLPDEEIPTLELPKD
LDMKDHLEFLKEFAFDLGLFITHSKSKGSYSLKMDLDSIEEEFQNRVNSI
RKTIKKYQNATEKTIYNERFERWKHEYYHDKLKFTTDSEEKVRDLAKDYV
EGLQWVLYYYYRGCPSWSWYYPHHYAPRISDLAKGLDQDIEFDLSKPFTP
FQQLMAVLPERSKNLIPPAFRPLMYDEQSPIHDFYPAEVQLDKNGKTADW
EAVVLISFVDEKRLIEAMQPYLRKLSPEEKTRNQFGKDLIYSFNPQVDNL
YKSPLGGIFSDIEHNHCVEKEYISEIRYGLLPNAKLGAEMLAGFPTLLSL
PFTSSLEYNETMVFQQPSKQQSMVLQITDIYKTNNVTLEDFSKRHLNKVI
YTRWPYLRESKLVSLTDGKTIYEYQESNDKKKFGFITKPAETQDKKLFNS
LKNSMLRMYAKQKAVKIGPMEAIATVFPVTGLVRDSDGGYIKTFSPTPDY
YPLQLVVESVVNEDERYKERGPIP
Ligand information
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain6q8y Chain l Residue 101 [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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PDB6q8y Structure of the 80S ribosome-Xrn1 nuclease complex.
Resolution3.1 Å
Binding residue
(original residue number in PDB)		D35 N37
Binding residue
(residue number reindexed from 1)		D33 N35
Annotation score4
Enzymatic activity
Enzyme Commision number 3.1.13.-
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0004527 exonuclease activity

View graph for
Molecular Function
External links
PDB RCSB:6q8y, PDBe:6q8y, PDBj:6q8y
PDBsum6q8y
PubMed30911188
UniProtP22147|XRN1_YEAST 5'-3' exoribonuclease 1 (Gene Name=XRN1)

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