Structure of PDB 7oya Chain m1 Binding Site BS01

Receptor Information

>7oya Chain m1 (length=50) Species: 7955 (Danio rerio)

IEPSLRQLAQKYNCEKMICRKCYARLHPRAVNCRKKKCGHTNNLRPKKKL

Ligand information

>7oya Chain 51 (length=3321)

cacgaccucagcucagacgagaagacccgcugaauuuaagcauauuacua
agcggaggaaaagaaaccaaccgggauucccccaguagcggcgagcgaag
agggaaaaguccagcgccgaauccccgccccagggcgagggaccuguggc
guacggagggccgccucucucggcgcgggggccaaaguccuucugaugga
ggcuuagcccgcggacggugugaggccggugucggcccccgccccgccgg
ggugcgguuccucccggagucggguuguuugggaaugcagcccaaagcgg
gugguaaacuccaucuaaggcuaaauaccggcacgagaccgauagcggac
aaguaccgugagggaaaguugaaaagaacuuugaagagagaguucaacag
ggcgugaaaccguuaagagguaaacggguggggaccgcaccguccgcccg
guggauucagcccggcggggcggggucggcccguccgguggcucccuucg
cucccgcgggggguugacgcccgggcgaaggcucggccgccgccgggugc
auuuccgccgcgguggagcgccgcgaccggcuccgguucggcuuggaagg
gucagggggcgaagguuuuacagcgcccucccgccccgacuucgccgcuu
gcucuccggggccgcgggcccucucugcccucccucugcggggacggggu
cccccgcccccggcguggcgcgacagggguggacuguccucaguccgcug
cgccgcgccgcccagggcgggggacccacguucgggcgcccgagguccgc
ggcgacgccggccucccacccgacccgucuugaaacacggaccaaggagu
ccaacgcgcgcgcgagucagaggguggcucgcgagccccugcggcgcaau
gaaggugagggugggauccccccgccccggcggggggcgcaccaccggcc
cgccucgcgacccuccggggggcagguggaguuggagcgcgcgcgauggc
acccgaaagauggugaacuaugccugggcagggcgaagccaggggaaacu
cugguggaggcccgccgcgguccugacgugcaaaucggucguccgaccug
ggcauaggggcgaaagacuaaucgaaccaucuaguagcugguucccuccg
aaguuucccucaggauagcuggcgcucgccgaucaagcaguuuuauccgg
uaaagccaaugacuagaggcaccuauucucaaacuuuaaauggguaagag
gcccggcucgcuggcgcuggagccgggcguggaaugcgacgcgccuagug
ggccauuuuugguaagcagaacuggugcugcgggaugaaccgaacgccgg
guuaaggcgcccgaugccgacgcucaucagaccccauaaaagguguuggu
ugauauagacagcccgaaucaacuagcccugaaaauggauggcgcuggag
cgucgggcccauacccggccgucgacggcagcugcaagccucgacgagua
ggagggccgccgcgguggcgccgaagcccagggcgcgggcccggguggag
ccgccgcgggcgcagaucuuggugguaguagcaaauauucaaacgagagc
uuugaaggccgaaguggagaaggguuccaugugaacagcaguugaacaug
ggugagccgguccuaagggacgggccuacgccguucggaggggagggccc
cgcucgaccgaaagggagucggguccagauccccgagcccggagcggcgg
agacgggcgccgcgaggcgcccagugcggugacgcaaacgaacccggaga
ugccggcgggugccccgggaaagaguucucuuuucuuugugaagggcagg
gcgcccuggaacggguucgccccgagagaggggcccgcgcccuggaaagc
gccgcgcuucuggcggcguccggugagcucucgucggcccuugaaaaucc
gggggagaagguguaaaucucgcgccgggccguacccauauccgcagcag
gucuccaaggugaacagccucuggcguguuggaacaaggcagaguaaggg
aagucggcaagucagauccguaacuucgggauaaggauuggcucuaaggg
cugauagcagccagcuuagaacugucgcggaccaggggaauccgacuguu
uaauuaaaacaaagcaucgcgaaggcccucggcggguguugacgcgaugu
gauuucugcccagugcucugaaugucaaagugaagaaauucaacgaagcg
cggguaaacggcgggaguaacuaugacucucuuaagguagccaaaugccu
cgucaucuaauuagugacgcgcaugaauggaugaacgagauucccacugu
cccuaccugcuaucuagcgaaaccacagccaagggaacgggcuuggcaga
aucagcggggaaagaagacccuguugagcuugacucuagucuggcccugu
gaagagacuuuccucacuuacccggugaggcgggcuucuggcgucaagcg
ccccgcggggcgcgacccgccccggggacagcgucagguggggaguuuga
cuggggcgguacaccugucaaacgguaacgcagguguccuaaggcgagcu
caggggggacagaaaccucccguagagcagaagggcaaaagcucgcuuga
ucuugauuuucaguaugaguacggaccgcgaaagcggggccucacgaucc
uuccggcuuuugggguuuuaagcgggaggugucagaaaaguuaccacagg
gauaacuggcuuguggcggccaagcguucauagcgacgucgcuuuuugau
ccuucgaugucggcucuuccuaucauugugaagcagaauucaccaagcgu
uggauuguucacccacuaacagggaacgugagcuggguuuagaccgucgu
gagacagguuaguuuuacccuacugaugugagccguuguugcaauaguaa
ucccgcucaguacgagaggaaccgcggguucagacauuugguucgugcgc
uuggcugaggagccacuggcgcgaagccaccaucugcgggauuaugacug
aacgccucuaagucagaaucccgccuaaaagcaacgauaagcgccgucgg
aucuccgauaggccccggguaaccgggaccccggcgcggagagccauucg
ugacaggagcggcuagaacgagcgccgcccccucuuccagugacgcaccg
cauguuuguggggaacccggugcuuaaaugacucguagacgaccugauuc
ugggucggggugucgugcguggcagagcagcgcugcgauccauugaaagu
cagcccucgauccaaguuuug

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7oya A molecular network of conserved factors keeps ribosomes dormant in the egg.
• Resolution: 3.2 Å
• Binding residue (original residue number in PDB): K93 I95 R97 Y100 R102 H104 R106 N109 R111 K112 K113 K114 G116 H117 N119 R122 K124 K125
• Binding residue (residue number reindexed from 1): K16 I18 R20 Y23 R25 H27 R29 N32 R34 K35 K36 K37 G39 H40 N42 R45 K47 K48

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0031386 protein tag activity
• GO:0031625 ubiquitin protein ligase binding

Biological Process

• GO:0006412 translation
• GO:0016567 protein ubiquitination
• GO:0019941 modification-dependent protein catabolic process

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7oya, PDBe:7oya, PDBj:7oya
• PDBsum: 7oya
• PubMed: 36653451
• UniProt: Q3B7P7