Structure of PDB 6oig Chain Y Binding Site BS01

Receptor Information

>6oig Chain Y (length=126) Species: 4932 (Saccharomyces cerevisiae)

AKQSLDVSSDRRKARKAYFTAPSSQRRVLLSAPLSKELRAQYGIKALPIR
RDDEVLVVRGSKKGQEGKISSVYRLKFAVQVDKVTKEKVNGASVPINLHP
SKLVITKLHLDKDRKALIQRKGGKLE

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 K3 Q4 D7 S9 S10 D11 Y19 S32 P34 K46 A47 R60 S62 K87 K89 V90 N91 V95 H100 S102 K103
• Binding residue (residue number reindexed from 1): A1 K2 Q3 D6 S8 S9 D10 Y18 S31 P33 K45 A46 R59 S61 K86 K88 V89 N90 V94 H99 S101 K102

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0042273 ribosomal large subunit biogenesis

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:0032991 protein-containing complex
• GO:0043232 intracellular non-membrane-bounded organelle
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6oig, PDBe:6oig, PDBj:6oig
• PDBsum: 6oig
• PubMed: 33219089
• UniProt: P05743|RL26A_YEAST Large ribosomal subunit protein uL24A (Gene Name=RPL26A)