Structure of PDB 6q8y Chain z

Receptor sequence
>6q8yz (length=874) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence]
IPKFFRYISERWPMILQLIEGTQIPEFDNLYLDMNSILHNCTHGNDDDVT
KRLTEEEVFAKICTYIDHLFQTIKPKKIFYMAIDGVAPRAKMNQQRARRF
RTAMDAEKALKKAIENGDEIPKGEPFDSNSITPGTEFMAKLTKNLQYFIH
DKISNDSKWREVQIIFSGHEVPGEGEHKIMNFIRHLKSQKDFNQNTRHCI
YGLDADLIMLGLSTHGPHFALLREEVTFGRRNSEKKSLEHQNFYLLHLSL
LREYMELEFKEIADEMQFEYNFERILDDFILVMFVIGNDFLPNLPDLHLN
KGAFPVLLQTFKEALLHTDGYINEHGKINLKRLGVWLNYLSQFELLNFEK
DDIDVEWFNLVKQQKKLIGSIKPWLMEQLQEKLSPDLPDEEIPTLELPKD
LDMKDHLEFLKEFAFDLGLFITHSKSKGSYSLKMDLDSIEEEFQNRVNSI
RKTIKKYQNATEKTIYNERFERWKHEYYHDKLKFTTDSEEKVRDLAKDYV
EGLQWVLYYYYRGCPSWSWYYPHHYAPRISDLAKGLDQDIEFDLSKPFTP
FQQLMAVLPERSKNLIPPAFRPLMYDEQSPIHDFYPAEVQLDKNGKTADW
EAVVLISFVDEKRLIEAMQPYLRKLSPEEKTRNQFGKDLIYSFNPQVDNL
YKSPLGGIFSDIEHNHCVEKEYISEIRYGLLPNAKLGAEMLAGFPTLLSL
PFTSSLEYNETMVFQQPSKQQSMVLQITDIYKTNNVTLEDFSKRHLNKVI
YTRWPYLRESKLVSLTDGKTIYEYQESNDKKKFGFITKPAETQDKKLFNS
LKNSMLRMYAKQKAVKIGPMEAIATVFPVTGLVRDSDGGYIKTFSPTPDY
YPLQLVVESVVNEDERYKERGPIP
3D structure
PDB6q8y Structure of the 80S ribosome-Xrn1 nuclease complex.
Chainz
Resolution3.1 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.1.13.-
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 rna z D50 E121 I122 K124 D48 E119 I120 K122
BS02 rna z I3 K5 H41 R100 E178 L205 D206 D208 R233 T635 W638 I1 K3 H39 R98 E176 L203 D204 D206 R231 T597 W600
BS03 rna z K395 R479 Q486 K372 R451 Q458
BS04 MG z E176 E178 D208 E174 E176 D206
BS05 MG z D35 N37 D33 N35
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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