Structure of PDB 8cbj Chain d Binding Site BS01

Receptor Information

>8cbj Chain d (length=37) Species: 580240 (Saccharomyces cerevisiae W303)

QCRVCSSHTGLIRKYGLNICRQCFREKANDIGFNKFR

Ligand information

>8cbj Chain 2 (length=1767)

aucugguugauccugccaguagucauaugcuugucucaaagauuaagcca
ugcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcucau
uaaaucaguuaucguuuauuugauaguuacaugguauaacugugguaauu
cuagagcuaauacaugcuuaaaaucucgacccuuuggaagagauguauuu
auuagauaaaaaaucaaugucuucggacucuuugaugauucauaauaacu
uuucgaaucgcauggccuugugcuggcgaugguucauucaaauuucugcc
cuaucaacuuucgaugguaggauaguggccuaccaugguuucaacgggua
acggggaauaaggguucgauuccggagagggagccugagaaacggcuacc
acauccaaggaaggcagcaggcgcgcaaauuacccaauccuaauucaggg
agguagugacaauaaauaacgauacagggcccauucgggucuuguaauug
gaaugaguacaauguaaauaccuuaacgaggaacaauuggagggcaaguc
uggugccagcagccgcgguaauuccagcuccaauagcguauauuaaaguu
guugcaguuaaaaagcucguaguugaacuuugggcccgguuggccggucg
gauuuccaacggggccuuuccuucuggcuaaccuugaguccuuguggcuc
uuggcgaaccaggacuuuuacuuugaaaaaauuagaguguucaaagcagg
cguauugcucgaauauauuagcauggaauaauagaauaggacguuugguu
cuauuuuguugguuucuaggaccaucguaaugauuaauagggacggucgg
gggcaucaguauucaauugucagaggugaaauucuuggauuuauugaaga
cuaacuacugcgaaagcauuugccaaggacguuuucauuaaucaagaacg
aaaguuaggggaucgaagaugaucagauaccgucguagucuuaaccauaa
acuaugccgacuagggaucgggugguguuuuuuuaaugacccacucggca
ccuuacgagaaaucaaagucuuuggguucuggggggaguauggucgcaag
gcugaaacuuaaaggaauugacggaagggcaccaccaggaguggagccug
cggcuuaauuugacggggaaacucaccagguccagacacaauaaggauug
acagauugagagcucuuucuugauuuugugggugguggugcauggccguu
cuuaguugguggagugauuugucugcuuaauugcgauaacgaacgagacc
uuaaccuacuaaauaguggugcuagcauuugcugguuauccacuucuuag
agggacuaucgguuucaagccgauggaaguuugaggcaauaacaggucug
ugaugcccuuagacguucugggccgcacgcgcgcuacacugacggagcca
gcgagucuaaccuuggccgagaggucuugguaaucuugugaaacuccguc
gugcuggggauagagcauuguaauuauugcucuucaacgaggaauuccua
guaagcgcaagucaucagcuugcguugauuacgucccugcccuuuguaca
caccgcccgucgcuaguaccgauugaauggcuuagugaggccucaggauc
ugcuuagagaagggggcaacuccaucucagagcggagaauuuggacaaac
uuggucauuuagaggaacuaaaagucguaacaagguuuccguaggugaac
cugcggaaggaucauua

..<<<<<...[[[[>>>>>[[[[.((((((................[[[.
[[[..<<....<<....<<..........>>...>>.>>......{{...
.....[[[..{{..{{....[[[..........<<....<<.<<<.....
>>>.>>.....>>.........<<<<<..<<....>>..>>>>>[...((
((((......<<<<<<<<<<<....>>>..............))))))..
...]...<<<<..<<<.....>>>.>>>>....]]]...}}}}..]]].<
<<....<<<....<<<<<<<<.......>>>>>>>>>>>......>>>..
.<<<.<<<<....>>>>....>>>.}}.<<.<<<..........>>>.>>
.<.<<....>>.>...]]]]]].........<<<....<<<.....>>>.
.>>>...............<<<<<<<<<<<<<....>>>>>>>>>>.>>>
......<<..<...........>..>>.........<<<<<((......<
<<<.........)).........>>>>.>>>>>..))))))]]]].....
....[[[{{.......{{...[[[.{{....<<<<<<.<<<<<....<..
>....>>>>>.>>>>>>.....<<<<<.<..<<..<<<<<.....>>>>>
..>>..>.>>>>>....<<<<<.<<.......<<...<.......>..<<
<.....>>>....>>......>>.>>..>>>.........[[[..(((((
(((....>>>>>>>>.)))))))).]]].....}}....<<<<<<.<<..
.<<<<..<<..<<<<<<.<...<<<......>>>......>.>>>>>>..
>>.......<<....>>...>>>>...>>>>>.>>>...]]]...}}...
...<<<<<<<...<...<<<<.........>>>>...>>>>>>>>.....
.....<<<.<<.<<<..<<<<<<<<.<<<........>>>>>>>>>>>..
>>>...<<..}}>>...>>.....>>>.]]].<<<......<<<<....>
>>>....>>>..]]]]....<<<.<<<<<<<..<<.<<<<<<..<<<.<<
<<<<......<<.>>..((......<<<<<.<....<<<<<........<
<.<<<........>>>.>>......>>>>>......<<<.<<<<<<<<<<
....<<<.<<<<<....>>>...<<<......>>>...>>.>>>....<<
<<..<<..<<<<..<<<<<.<<<<<<....>>>>>>...>>>>>..>>>>
.>>....<<<<<<.....>>>>>>........>>>>....>>>.>>>>.>
>>..>>>.......>.>>>>>...>>.>>>>.>>>.....<<<<<<<...
...<<.....<<..<<<<....>>>>..>>....>>.......>>>>>>>
......<....<<<<<<..........>>>>>>....>.....>>>>>>.
...<<<<<<<<...))..>>>>>>>>......>>...>>>>>>>>>>...
.<<<...<<.<..<<<<.<<..<<<<<<<<<<.<<<..<.<<..<...<<
<<<<<.<<<<.<<<<....>>>>.>>>>.>>>>>>>...>..>>.>..>>
>.>>>>>>>>>>.>>.>>>>...>.>>......>>><<<<<<<<<....>
>>>>>>>>.........

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8cbj Molecular basis for recognition and deubiquitination of 40S ribosomes by Otu2.
• Resolution: 3.8 Å
• Binding residue (original residue number in PDB): H27 T28 G29 L30 I31 R32 K33 F55 R56
• Binding residue (residue number reindexed from 1): H8 T9 G10 L11 I12 R13 K14 F36 R37

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0008270 zinc ion binding
• GO:0046872 metal ion binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8cbj, PDBe:8cbj, PDBj:8cbj
• PDBsum: 8cbj
• PubMed: 37169754
• UniProt: P41057|RS29A_YEAST Small ribosomal subunit protein uS14A (Gene Name=RPS29A)