Structure of PDB 7n8b Chain Ah Binding Site BS01

Receptor Information

>7n8b Chain Ah (length=119) Species: 4932 (Saccharomyces cerevisiae)

AGVKAYELRTKSKEQLASQLVDLKKELAELKVQKLSRPSLPKIKTVRKSI
ACVLTVINEQQREAVRQLYKGKKYQPKDLRAKKTRALRRALTKFEASQVT
EKQRKKQIAFPQRKYAIKA

Ligand information

>7n8b Chain A1 (length=3156)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaugguguuuugua
uuucacuggccagcaucaguuuugguggcaggauaaauccauaggaaugu
agcuugccucgguaaguauuauagccugugggaauacugccagcugggac
ugaggacugcgacguaagucaaggaugcuggcauaaugguuauaugccgc
ccgucuugaaacacggaccaaggagucuaacgucuaugcgaguguuuggg
uguaaaacccauacgcguaaugaaagugaacguagguuggggccucgcaa
gaggugcacaaucgaccgauccugaugucuucggauggauuugaguaaga
gcauagcuguugggacccgaaagauggugaacuaugccugaauaggguga
agccagaggaaacucugguggaggcucguagcgguucugacgugcaaauc
gaucgucgaauuuggguauaggggcgaaagacuaaucgaaccaucuagua
gcugguuccugccgaaguuucccucaggauagcagaagcucguaucaguu
uuaugagguaaagcgaaugauuagagguuccggggucaccuugaccuauu
cucaaacuuuaaauauguaagaaguccuuguuacuuaauugaacguggac
auuugaaugaagagcuuuuagugggccauuuuugguaagcagaacuggcg
augcgggaugaaccgaacguagaguuaaggugccggaauacacgcucauc
agacaccacaaaagguguuaguucaucuagacagccggacgguggccaug
gaagucggaauaggaguguguaacaacucaccggccgaaugaacuagccc
ugaaaauggauggcgcucaagcguguuaccuauacucuaccgucaggguu
gauaugaugcccugacgaguaggcaggcguggaggucagugacgaagccu
agaccguaaggucgggucgaacggccucuagugcagaucuuggugguagu
agcaaauauucaaaugagaacuuugaagacugaaguggggaaagguucca
cgucaacagcaguuggacguggguuagucgauccuaagagauggggaagc
uccguuucaaaggccugauuuuaugcaggccaccaucgaaagggaauccg
guuaagauuccggaaccuggauauggauucuucacgguaacguaacugaa
uguggagacgucggcgcgagcccugggaggaguuaucuuuucuucuuaac
agcuuaucaccccggaauugguuuauccggagauggggucuuauggcugg
aagaggccagcaccuuugcuggcuccggugcgcuugugacggcccgugaa
aauccacaggaaggaauaguuuucaugccaggucguacugauaaccgcag
caggucuccaaggugaacagccucuaguugauagaauaauguagauaagg
gaagucggcaaaauagauccguaacuucgggauaaggauuggcucuaagg
gucggguacgaucaacuuagaacugguacggacaaggggaaucugacugu
cuaauuaaaacauagcauugcgauggucagaaagugauguugacgcaaug
ugauuucugcccagugcucugaaugucaaagugaagaaauucaaccaagc
gcggguaaacggcgggaguaacuaugacucucuuaagguagccaaaugcc
ucgucaucuaauuagugacgcgcaugaauggauuaacgagauucccacug
ucccuaucuacuaucuagcgaaaccacagccaagggaacgggcuuggcag
aaucagcggggaaagaagacccuguugagcuugacucuaguuugacauug
ugaagagacauaguuucuuuacuuauucaaugaagcggagcuggaauuca
uuuuccacguucuagcauucaaggucccauucggggcugauccggguuga
agacauugucagguggggaguuuggcuggggcggcacaucuguuaaacga
uaacgcagauguccuaaggggggcucauggagaacagaaaucuccaguag
aacaaaaggguaaaagcccccuugauuuugauuuucagugugaauacaaa
ccaugaaaguguggccuaucgauccuuuagucccucggaauuugaggcua
gaggugccagaaaaguuaccacagggauaacuggcuuguggcagucaagc
guucauagcgacauugcuuuuugauucuucgaugucggcucuuccuauca
uaccgaagcagaauucgguaagcguuggauuguucacccacuaauaggga
acgugagcuggguuuagaccgucgugagacagguuaguuuuacccuacug
augaauguuaccgcaauaguaauugaacuuaguacgagaggaacaguuca
uucggauaauugguuuuugcggcugucugaucaggcauugccgcgaagcu
accauccgcuggauuauggcugaacgccucuaagucagaauccaugcuag
aacgcggugauuucuuugcuccacacaauauagauggauacgaauaaggc
guccuuguggcgucgcugaaccauagcaggcuagcaacggugcacuuggc
ggaaaggccuugggugcuugcuggcgaauugcaaugucauuuugcguggg
gauaaaucauuuguauacgacuuagauguacaacgggguauuguaagcag
uagaguagccuuguuguuacgaucugcugagauuaagccuuuguugucug
auuugu

........................<<<<<<.....<......>......>
>>>>.>...<.....<<....>>..<<<<<......<<.....>>.....
>>>>>..<<<...........<<.<<<<<<...>>>>>>.>>........
.....<<<<<<.<<<<<.<<.<<<<<<<<<<<<<....<<<<......>>
>>.(.......<<<......)>>>..>.>>>>>>>>..>>>>>>......
>>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<<<
<..((((((>>>>>..>>>....>..........................
...<<....>>...............<<<<....>>>>............
......................<<<<<.<<<<<.<...............
........<<<<<<<.<<<<<<<<<<<<<<<.....<<<<<<<<<.....
.<<<<........>>>>.......>>>>>>>.>.>.>>>>>.>>>>>>>>
>>........<<<....>>>.....>>>>>>>....>>>>>>.>>>>>..
<<<<........>>>><<<<<<....<<<<<<.<<<<<<..<<<...<<<
<.....>>>>...>>>...<<....>>.......<<<<<..<<<<<....
>>>>>...>>>>>.<<<<<<<<...<<....>>...>>>.>>>.>>....
>>>>>>.>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<<<...
.<<<<<<<....>>>>>>>.....>>>...<<<..<<.<<........>>
>>.>>>....>>>>>>>>>...<<.......>>......>>>>>>...>.
.>.>>..<<<<<<....<.<<<....>>>.><<<<<<<<<<...<<<.<<
<<<<<.....<<<....<<<....<<<.................>>>...
.>>>..>.>>.....>>>>>...<<<<.<<<<.<......>>>>>.>>>>
.....>>>>>.>>>>>>>>.>>..<<<<.<<<<<.....>>>>>.>>>>.
...<<<......>>>...<<<<<<<..<<<<(((.....<<<<<<.....
<<..........<<<.<<<<<<<<<<.........<<<............
..............................>>>.....>>>>>>>>>>>>
>..........))).>>...>>>>>>.>>>>..>>>>>>><<<<<<<<<.
........>>>>>>>>>....>>>>>><.<<<<<<<<.<<......<<<<
.<<<<....>>>>>>>>...>>>>>>>>>>..>.....>>>>>><<....
.<<.....<<<<<<.......>>>>>><<<<.....<<<<<.<<...<<<
<<<...<<.....>>.>>>>>>....((<<<<<<...<<....<<<....
>>>........<<<<............>>>>....>>....>>...<<<<
<........>>>>>))<<<<.<<<<<<......<<<....>>>.......
<<<<<<...<<<<.<<<<<<<.<<<<<<<<<<..[[[..>>>>>><...<
<<<<....<<<<<<....<<<.....>>>....>>>>>>.....>>>>>.
...><<<<<<<......>>>>>>>>>>>...>>>>>>>.>>>>.......
..>>>>>>............>>.>>>>>>>>>>>>..>>.....<<....
..>>>>>>>.<<<<.....>>>>..>>>>..<<<<.....<<<<<<<.<<
.........<.....<<<<<...............>>>>><<.<<<<<<<
<<<<....>>>>>..>>>>>>.>>............<<<<<<<<<..<<<
.........>>>..<<<<<<<....<<<<.....>>>>......>>>>>>
>...<<..<<<..<<<<<<.<...<<.....<<<<....>>>>.....>>
.>>>>>..>>>>><<<<...........>>>>........<.........
..<<<<<.......>>>>>.....>.....>>....>>.>>>>>>>..>.
.>>.>>>>>>>..>>>>>>....>>....<<<<<........>>>>>...
.<<<<<..<<<.<<......<<<<.<<<<<<..<<<<<.<<<<<<<<..<
<<<<.............>>>>>...<<<<<.....<<<<..<<<......
....>>>...............<<<<<<....>>>>>>..>>>>..>>>>
>.....>>>>>>>>..>>>>>...<<<.....>>>..<<<<<<.......
....>>>>>>..<<...<<<<<<<...<<<<<<.......>>>>>>....
.<<...(((>>....>>>>>>>...<<<.<<<<<.......>>>>.>>>>
.<<<....>>>.>>)))......<<<<<<<..<<<<.))))))>>>>>>>
>>>>.........>>>>..>>>>>>.......<<.<...<<<<<<...<<
.......>>...>>>>>>....>.>.>.......<<<<<.<<<<<<..<.
<<<<<<<......>>>>>>>...>.<<<.........>>>.....>>>>>
..>...>>>.>>....<<<<<<<....>>>.>>>>....>>..>>>.>>>
>>....<<<<<<<<..<<<<...<<<<<<...............>>>>>>
..<<<<<...<<<<....<<<<<<<<<<]]].>>>>>..>>>>>...>>>
>..>>>>>.<<<<...<<<<<...........>>>>>...>>>>.>>>>.
...>>>>>>>>.......<<<<<<.<<<.<<....<<..........<<<
<<<.....>>>>>>......>>.......<<<<<<...<<<<<.<..<<<
......>>>..>.>>>>>.>>>>>>.............>>.>>>.>>>>>
>..<<<<<.<.............>.....<<<<<<<<<.<<<....<<<<
....<<<<<......>>>>>...>>>>...>>>....>>>>.>>>>>..>
>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7n8b CryoEM structures of pseudouridine-free ribosome suggest impacts of chemical modifications on ribosome conformations.
• Resolution: 3.05 Å
• Binding residue (original residue number in PDB): G72 Y75 R81 R86 R90 T93 K94 F95 E102 K103 K106 K107 I109
• Binding residue (residue number reindexed from 1): G71 Y74 R80 R85 R89 T92 K93 F94 E101 K102 K105 K106 I108

Gene Ontology

Molecular Function

• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• 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:0030687 preribosome, large subunit precursor
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7n8b, PDBe:7n8b, PDBj:7n8b
• PDBsum: 7n8b
• PubMed: 35489333
• UniProt: P0CX84|RL35A_YEAST Large ribosomal subunit protein uL29A (Gene Name=RPL35A)