Structure of PDB 8p09 Chain O Binding Site BS01

Receptor Information

>8p09 Chain O (length=124) Species: 9986 (Oryctolagus cuniculus)

GGVMDVNTALQEVLKTALIHDGLARGIREAAKALDKRQAHLCVLASNCDE
PMYVKLVEALCAEHQINLIKVDDNKKLGEWVGLCKIDREGKPRKVVGCSC
VVVKDYGKESQAKDVIEEYFKCKK

Ligand information

>8p09 Chain 2 (length=1741)

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcuacuuggauaacugugguaauuc
uagagcuaauacaugccgacggcgcugacucccuuugugugggaugcgug
cauuuaucagaucaaaaccaacccggucgcggcuuuggugacucuagaua
accucgggccgaucgcagcccuccguggcggcgacgacccauucgaacgu
cugcccuaucaacuuucgaugguagucgccgugccuaccauggugaccac
gggugacggggaaucaggguucgauuccggagagggagccugagaaacgg
cuaccacauccaaggaaggcagcaggcgcgcaaauuacccacucccgacc
cggggagguagugacgaaaaauaacaauacaggacucuuucgaggcccug
uaauuggaaugaguccacuuuaaauccuuuaacgaggauccauuggaggg
caagucuggucgcagcagccgcgguaauuccagcuccaauagcguauauu
aaaguugcugcaguuaaaaagcucguaguuggaucuuguggaggguuccc
cgccccuugccucucggcgccggcccgaagcguuuacuuugaaaaaauua
gaguguucaaagcaggcccgagccgccuggauaccgcagcuaggaauaau
ggaauaggaccgcgguucuauuuuguugguuuucggaacugaggccauga
uuaagagggacggccgggggcauucguauugcgccgcuagaggugaaauu
cuuggaccggcgcaagacggaccagagcgaaagcauuugccaagaauguu
uucauuaaucaagaacgaaagucggagguucgaagacgaucagauaccgu
cguaguuccgaccauaaacgaugccgacuggcgaugcggcggcguuauuc
ccaugacccgccgggcagcuuccgggaaaccaaagucuuuggguuccggg
gggaguaugguugcaaagcugaaacuuaaaggaauugacggaagggcacc
accaggaguggagccugcggcuuaauuugacucaacacgggaaaccucac
ccggcccggacacggacaggauugacagauugauagcucuuucucgauuc
ugugggugguggugcauggccguucuuaguugguggagcgauuugucugg
uuaauuccgauaacgaacgagacucuggcaugcuaacuaguuacgcgacc
cccgagcggucggcgucccccaacuucuuagagggacaaguggcguucag
ccacccgagauugagcaauaacaggucugugaugcccuuagaugucgggg
cugcacgcgcgcuacacugacuggcucagcgugugccuacccuacgccgg
caggcgcggguaacccguugaaccccauucgugauggggaucggggauug
caauuauuccccaugaacgaggaauucccaguaagugcgggucauaagcu
ugcguugauuaagucccugcccuuuguacacaccgcccgucgcuacuacc
gauuggaugguuuagugaggcccucggaucggcccgccggggucccuggc
ggagcgcugagaagacggucgaacuugacuaucuagaggaaguaaaaguc
guaacaagguuuccguaggugaaccugcggaaggaucauua

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8p09 N 6 -methyladenosine in 5' UTR does not promote translation initiation.
• Resolution: 3.3 Å
• Binding residue (original residue number in PDB): R33 G34 I35 R36 E37 K40 E58 Y61 C92 R101 K102 C106 S107
• Binding residue (residue number reindexed from 1): R25 G26 I27 R28 E29 K32 E50 Y53 C84 R93 K94 C98 S99

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation
• GO:0042274 ribosomal small subunit biogenesis
• GO:0090263 positive regulation of canonical Wnt signaling pathway

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005794 Golgi apparatus
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0032040 small-subunit processome
• GO:0043231 intracellular membrane-bounded organelle
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8p09, PDBe:8p09, PDBj:8p09
• PDBsum: 8p09
• PubMed: 38244546
• UniProt: G1SFR8|RS12_RABIT Small ribosomal subunit protein eS12 (Gene Name=RPS12)