Structure of PDB 8cdl Chain 8 Binding Site BS01

Receptor Information
>8cdl Chain 8 (length=36) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KHKKVKLAVLRECSNPTCGAGVFLANHKDRLYCGKC
Ligand information
>8cdl Chain c (length=1604) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauacagugaaacugcgaauggcucauuaa
aucaguuaucguuuauuugauaguucccuacaugguauaacugugguaau
ucuagagcuaauacaugcuuaaaaucucagauguauuuauuagauugaug
auucauaauaacuuuucgaaucgcauggccuugugcuggcgaugguucau
ucaaauuucugcccuaucaacuuucgaugguaggauaguggccuaccaug
guuucaacggguaacggggaauaaggguucgauuccggagagggagccug
agaaacggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaa
uccuaauucagggagguagugacaauaaauaacgauacauguaauuggaa
ugaguacaauguaaauaccuuaacgaggaacaauuggagggcaagucugg
ugccagcagccgcgguaauuccagcuccaauagcguauauuaaaguuguu
gcaguuaaaaagcucguaguugaacuuugggcccgguugcaacggggccu
uuccuuuacuuugaaaaaauuagaguguucaaagcaggcguauugcucga
auauauuagcauggaauaauagaauaggacguuuaucguaaugauuaaua
gggacggucgggggcaucaguauucaauugucagaggugaaauucuugga
uuuauugaagacuaacuacugcgaaagcauuugccaaggacguuuucauu
aaucaagaacgaaaguuaggggaucgaagaugaucagauaccgucguagu
cuuaaccauaaacuaugccgacuagggaucgggugguguuuuuuuaauga
cccacucggcaccuuacgagaaaucaaagucuuuggguucuggggggagu
auggucgcaaggcugaaacuuaaaggaauugacggaagggcaccaccagg
aguggagccugcggcuuaauuugacucaacacggggaaacucaccagguc
cagacacaauaaggauugacagauugagagcucuuucuugauuuuguggg
ugguggugcauggccguucuuaguugguggagugauuugucugcuuaauu
gcgauaacgaacgagaccuuaaccuacuaaauaguggugcuagcauuugc
ugguuauccacuucuuagagggacuaucgguuucaagccgauggaaguuu
gaggcaauaacaggucugugaugcccuuagacguucugggccgcacgcgc
gcuacacugacggagccagcgagucuaaccuuggccgagaggucuuggua
aucuugugaaacuccgucgugcuggggauagagcauuguaauuauugcuc
uucaacgaggaauuccuaguaagcgcaagucaucagcuugcguugauuac
gucccugcccuuuguacacaccgcccgucgcuaguaccgauugaauggcu
uagugaggccucaggaucugcggagaauuuggacaaacuuggucauuuag
aggaacuaaaagucguaacaagguuuccguaggugaaccugcggaaggau
cauu
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>>......>>>...<<<.<<<<....>>>>....>>>.>>.<<.<<<...
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.<<<.....>>>..>>>..>....>.>.....<<<<<<..>>>.>>>...
...<<.................>>.........<<<<<((......<<<<
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.<<<((.....<.<<...<<<.<<....<<<<<<.<<<..>>>.>>>>>>
.....<<<<<.<<.......<<...<.......>..<<<.....>>>...
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.>.>>>>>>..>>.......<<....>>...>>>>...>>>>>.>>>...
>>>...>>.>....<<<<<<<...<...<<<<.<.....>.>>>>...>>
>>>>>>..........<<<.<<.<<<..<<<<<<<<.<<<<.....>.>>
>>>>>>>>>..>>>...<<..))>>...>>.....>>>.>>>.<<<....
..<<<......>>>....>>>..)))).]<<<<<.<<<<<<<..<<.<<<
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....<<<<<........<<.<<<........>>>.>>......>>>>>..
.<<.<<<..<<.<<<<<<....<<<.<<<<<....>>>...<<<......
>>>...>>.>>>....<<<<<.<<..<<<<..<<<<<....<<<....>>
>......>>>>>..>>>>.>>....<<<<<<.....>>>>>>.......>
>>>>....>>>.>>>.....>>>>>>>.....>.>>>>>...>>.>>>>.
>>>.....<<<<<<<......<<.....<<..<<<<....>>>>..>>..
..>>.......>>>>>>>...........<<<<<<..........>>>>>
>..........>>>>>>....<<<<<<<<.......>>>>>>>>......
>>...>>>>>>>>>>.>>....<..<<.<..<<<<.<<....<<<<<<<<
.<<<..<.<<..<...<<<..>>>...>..>>.>..>>>.>>>>>>>>..
.>>.>>>>...>.>>...>.....<<<<<<<<<<..>>>>>>>>>>....
....
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8cdl mRNA reading frame maintenance during eukaryotic ribosome translocation
Resolution2.72 Å
Binding residue
(original residue number in PDB)		K94 H95 K97 L100 V102 G129 V130 F131 L132 A133 H135 R138 Y140 G142 K143
Binding residue
(residue number reindexed from 1)		K1 H2 K4 L7 V9 G21 V22 F23 L24 A25 H27 R30 Y32 G34 K35
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0008270 zinc ion binding
GO:0031386 protein tag activity
GO:0031625 ubiquitin protein ligase binding
GO:0046872 metal ion binding
Biological Process
GO:0000028 ribosomal small subunit assembly
GO:0002109 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S)
GO:0002181 cytoplasmic translation
GO:0006412 translation
GO:0016567 protein ubiquitination
GO:0019941 modification-dependent protein catabolic process
GO:0042254 ribosome biogenesis
GO:1990145 maintenance of translational fidelity
Cellular Component
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005840 ribosome
GO:0022627 cytosolic small ribosomal subunit
GO:0044391 ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8cdl, PDBe:8cdl, PDBj:8cdl
PDBsum8cdl
PubMed38030725
UniProtP05759|RS31_YEAST Ubiquitin-ribosomal protein eS31 fusion protein (Gene Name=RPS31)

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