Structure of PDB 6xiq Chain Z Binding Site BS01

Receptor Information

>6xiq Chain Z (length=135) Species: 4932 (Saccharomyces cerevisiae)

AKFLKAGKVAVVVRGRYAGKKVVIVKPHDEGSKSHPFGHALVAGIERYPL
KVTKKHGAKKVAKRTKIKPFIKVVNYNHLLPTRYTLDVEAFKSVVSTETF
EQPSQREEAKKVVKKAFEERHQAGKNQWFFSKLRF

Ligand information

>6xiq Chain 1 (length=3223)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaugguguuuugua
uuucacuggccagcaucaguuuugguggcaggauaaauccauaggaaugu
agcuugccucgguaaguauuauagccugugggaauacugccagcugggac
ugaggacugcgacguaagucaaggaugcuggcauaaugguuauaugccgc
ccgucuugaaacacggaccaaggagucuaacgucuaugcgaguguuuggg
uguaaaacccauacgcguaaugaaagugaacguagguuggggccucgcaa
gaggugcacaaucgaccgauccugaugucuucggauggauuugaguaaga
gcauagcuguugggacccgaaagauggugaacuaugccugaauaggguga
agccagaggaaacucugguggaggcucguagcgguucugacgugcaaauc
gaucgucgaauuuggguauaggggcgaaagacuaaucgaaccaucuagua
gcugguuccugccgaaguuucccucaggauagcagaagcucguaucaguu
uuaugagguaaagcgaaugauuagagguuccggggucgaaaugaccuuga
ccuauucucaaacuuuaaauauguaagaaguccuuguuacuuaauugaac
guggacauuugaaugaagagcuuuuagugggccauuuuugguaagcagaa
cuggcgaugcgggaugaaccgaacguagaguuaaggugccggaauacacg
cucaucagacaccacaaaagguguuaguucaucuagacagccggacggug
gccauggaagucggaauccgcuaaggaguguguaacaacucaccggccga
augaacuagcccugaaaauggauggcgcucaagcguguuaccuauacucu
accgucaggguugauaugaugcccugacgaguaggcaggcguggagguca
gugacgaagccuagaccguaaggucgggucgaacggccucuagugcagau
cuuggugguaguagcaaauauucaaaugagaacuuugaagacugaagugg
ggaaagguuccacgucaacagcaguuggacguggguuagucgauccuaag
agauggggaagcuccguuucaaaggccugauuuuaugcaggccaccaucg
aaagggaauccgguuaagauuccggaaccuggauauggauucuucacggu
aacguaacugaauguggagacgucggcgcgagcccugggaggaguuaucu
uuucuucuuaacagcuuaucaccccggaauugguuuauccggagaugggg
ucuuauggcuggaagaggccagcaccuuugcuggcuccggugcgcuugug
acggcccgugaaaauccacaggaaggaauaguuuucaugccaggucguac
ugauaaccgcagcaggucuccaaggugaacagccucuaguugauagaaua
auguagauaagggaagucggcaaaauagauccguaacuucgggauaagga
uuggcucuaagggucggguacgaucaacuuagaacugguacggacaaggg
gaaucugacugucuaauuaaaacauagcauugcgauggucagaaagugau
guugacgcaaugugauuucugcccagugcucugaaugucaaagugaagaa
auucaaccaagcgcggguaaacggcgggaguaacuaugacucucuuaagg
uagccaaaugccucgucaucuaauuagugacgcgcaugaauggauuaacg
agauucccacugucccuaucuacuaucuagcgaaaccacagccaagggaa
cgggcuuggcagaaucagcggggaaagaagacccuguugagcuugacucu
aguuugacauugugaagagacauagaggguguagaauaagugggagcuuc
ggcgccagugaaauaccacuaccuuuauaguuucuuuacuuauucaauga
agcggagcuggaauucauuuuccacguucuagcauucaaggucccauucg
gggcugauccggguugaagacauugucagguggggaguuuggcuggggcg
gcacaucuguuaaacgauaacgcagauguccuaaggggggcucauggaga
acagaaaucuccaguagaacaaaaggguaaaagcccccuugauuuugauu
uucagugugaauacaaaccaugaaaguguggccuaucgauccuuuagucc
cucggaauuugaggcuagaggugccagaaaaguuaccacagggauaacug
gcuuguggcagucaagcguucauagcgacauugcuuuuugauucuucgau
gucggcucuuccuaucauaccgaagcagaauucgguaagcguuggauugu
ucacccacuaauagggaacgugagcuggguuuagaccgucgugagacagg
uuaguuuuacccuacugaugaauguuaccgcaauaguaauugaacuuagu
acgagaggaacaguucauucggauaauugguuuuugcggcugucugauca
ggcauugccgcgaagcuaccauccgcuggauuauggcugaacgccucuaa
gucagaauccaugcuagaacgcggugauuucuuugcuccacacaauauag
auggauacgaauaaggcguccuuguggcgucgcugaaccauagcaggcua
gcaacggugcacuuggcggaaaggccuugggugcuugcuggcgaauugca
augucauuuugcguggggauaaaucauuuguauacgacuuagauguacaa
cgggguauuguaagcaguagaguagccuuguuguuacgaucugcugagau
uaagccuuuguugucugauuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6xiq Structural impact of K63 ubiquitin on yeast translocating ribosomes under oxidative stress.
• Resolution: 4.2 Å
• Binding residue (original residue number in PDB): R15 G16 R17 H36 P37 F38 R48 L51 T54 K55 K64 K67 K69 K73 N76 H79 R107 K111 K115 R135 F136
• Binding residue (residue number reindexed from 1): R14 G15 R16 H35 P36 F37 R47 L50 T53 K54 K63 K66 K68 K72 N75 H78 R106 K110 K114 R134 F135

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6xiq, PDBe:6xiq, PDBj:6xiq
• PDBsum: 6xiq
• PubMed: 32855298
• UniProt: P0C2H6|RL27A_YEAST Large ribosomal subunit protein eL27A (Gene Name=RPL27A)