Structure of PDB 6oig Chain p Binding Site BS01

Receptor Information

>6oig Chain p (length=91) Species: 4932 (Saccharomyces cerevisiae)

AKRTKKVGITGKYGVRYGSSLRRQVKKLEIQQHARYDCSFCGKKTVKRGA
AGIWTCSCCKKTVAGGAYTVSTAAAATVRSTIRRLREMVEA

Ligand information

>6oig Chain 5 (length=3243)

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
uuggcucuaagggucggguagugagggucgcuugcuacaacgaucaacuu
agaacugguacggacaaggggaaucugacugucuaauuaaaacauagcau
ugcgauggucagaaagugauguugacgcaaugugauuucugcccagugcu
cugaaugucaaagugaagaaauucaaccaagcgcggguaaacggcgggag
uaacuaugacucucuuaagguagccaaaugccucgucaucuaauuaguga
cgcgcaugaauggauuaacgagauucccacugucccuaucuacuaucuag
cgaaaccacagccaagggaacgggcuuggcagaaucagcggggaaagaag
acccuguugagcuugacucuaguuugacauugugaagagacauagagggu
guagaauaagugggagcuucggcgccagugaaauaccacuaccuuuauag
uuucuuuacuuauucaaugaagcggagcuggaauucauuuuccacguucu
agcauucaaggucccauucggggcugauccggguugaagacauugucagg
uggggaguuuggcuggggcggcacaucuguuaaacgauaacgcagauguc
cuaaggggggcucauggagaacagaaaucuccaguagaacaaaaggguaa
aagcccccuugauuuugauuuucagugugaauacaaaccaugaaagugug
gccuaucgauccuuuagucccucggaauuugaggcuagaggugccagaaa
aguuaccacagggauaacuggcuuguggcagucaagcguucauagcgaca
uugcuuuuugauucuucgaugucggcucuuccuaucauaccgaagcagaa
uucgguaagcguuggauuguucacccacuaauagggaacgugagcugggu
uuagaccgucgugagacagguuaguuuuacccuacugaugaauguuaccg
caauaguaauugaacuuaguacgagaggaacaguucauucggauaauugg
uuuuugcggcugucugaucaggcauugccgcgaagcuaccauccgcugga
uuauggcugaacgccucuaagucagaauccaugcuagaacgcggugauuu
cuuugcuccacacaauauagauggauacgaauaaggcguccuuguggcgu
cgcugaaccauagcaggcuagcaacggugcacuuggcggaaaggccuugg
gugcuugcuggcgaauugcaaugucauuuugcguggggauaaaucauuug
uauacgacuuagauguacaacgggguauuguaagcaguagaguagccuug
uuguuacgaucugcugagauuaagccuuuguugucugauuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6oig An open interface in the pre-80S ribosome coordinated by ribosome assembly factors Tsr1 and Dim1 enables temporal regulation of Fap7.
• Resolution: 3.8 Å
• Binding residue (original residue number in PDB): A2 R4 T5 K6 K7 V8 G9 I10 G12 K13 Y14 G15 V16 R17 S20 S21 R23 H34 F41 C42 R49
• Binding residue (residue number reindexed from 1): A1 R3 T4 K5 K6 V7 G8 I9 G11 K12 Y13 G14 V15 R16 S19 S20 R22 H33 F40 C41 R48

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0046872 metal ion binding
• GO:0070180 large ribosomal subunit rRNA binding

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:0044391 ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6oig, PDBe:6oig, PDBj:6oig
• PDBsum: 6oig
• PubMed: 33219089
• UniProt: P0CX25|RL43A_YEAST Large ribosomal subunit protein eL43A (Gene Name=RPL43A)