Structure of PDB 6oig Chain d Binding Site BS01

Receptor Information

>6oig Chain d (length=109) Species: 4932 (Saccharomyces cerevisiae)

LKDVVTREYTINLHKRLHGVSFKKRAPRAVKEIKKFAKLHMGTDDVRLAP
ELNQAIWKRGVKGVEYRLRLRISRKRNEEEDAKNPLFSYVEPVLVASAKG
LQTVVVEED

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

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

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): T71 H75 K76 R77 H79 G80 F83 K84 K92 R108 L109 A110 P111 N114 Q115 W118 R120 G121 V122 K123 Y127 R128 K160 G161 L162 Q163 T164
• Binding residue (residue number reindexed from 1): T10 H14 K15 R16 H18 G19 F22 K23 K31 R47 L48 A49 P50 N53 Q54 W57 R59 G60 V61 K62 Y66 R67 K99 G100 L101 Q102 T103

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0006450 regulation of translational fidelity

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:6oig, PDBe:6oig, PDBj:6oig
• PDBsum: 6oig
• PubMed: 33219089
• UniProt: P0C2H8|RL31A_YEAST Large ribosomal subunit protein eL31A (Gene Name=RPL31A)