Structure of PDB 7oyb Chain j1 Binding Site BS01

Receptor Information

>7oyb Chain j1 (length=86) Species: 7955 (Danio rerio)

TKGTSSFGKRRNKTHTLCRRCGSKAYHLQKSTCGKCGYPAKRKRKYNWSA
KAKRRSTTGTGRMRHMKVVFRRFRNGFREGTVPKPR

Ligand information

>7oyb Chain 51 (length=3263)

cacgaccucagcucagacgagaagacccgcugaauuuaagcauauuacua
agcggaggaaaagaaaccaaccgggauucccccaguagcggcgagcgaag
agggaaaaguccagcgccgaauccccgccccagggcgagggaccuguggc
guacggagggccgccucucucggcgcgggggccaaaguccuucugaugga
ggcuuagcccgcggacggugugaggccggugucggcccccgccccgccgg
ggugcgguuccucccggagucggguuguuugggaaugcagcccaaagcgg
gugguaaacuccaucuaaggcuaaauaccggcacgagaccgauagcggac
aaguaccgugagggaaaguugaaaagaacuuugaagagagaguucaacag
ggcgugaaaccguuaagagguaaacggguggggaccgcccgcccggugga
uucagcccggcggggcggggucggcccguccgguggcucccuucgcgggg
uugacgcccgggcgaaggcucggccgccgccgggugcauuuccgccgcgg
uggagcgccgcgaccggcuccgguucggcuuggaagggucagggggcgaa
gguuuuacagcgcccucccgccccgacgccgcuugcucuccggggccgcg
ggcccucucugcccucccucugcggggacggggucccccgcccccggcgu
ggcgcgacagggguggacuguccucaguccgcugcgccgcgccgcgggcg
ggggacccacguucgggcgcccgagguccgcggcgacgccggccucccac
ccgacccgucuugaaacacggaccaaggaguccaacgcgcgcgcgaguca
gaggguggcucgcgagccccugcggcgcaaugaaggugagggugggaucc
ccccgccccggcggggggcgcaccaccggcccgccucgcgacccuccggg
gggcagguggaguuggagcgcgcgcgauggcacccgaaagauggugaacu
augccugggcagggcgaagccaggggaaacucugguggaggcccgccgcg
guccugacgugcaaaucggucguccgaccugggcauaggggcgaaagacu
aaucgaaccaucuaguagcugguucccuccgaaguuucccucaggauagc
uggcgcucgccgaucaagcaguuuuauccgguaaagccaaugacuagagg
caccuauucucaaacuuuaaauggguaagaggcccggcucgcuggcgcug
gagccgggcguggaaugcgacgcgccuagugggccauuuuugguaagcag
aacuggugcugcgggaugaaccgaacgccggguuaaggcgcccgaugccg
acgcucaucagaccccauaaaagguguugguugauauagacagcccgaau
caacuagcccugaaaauggauggcgcuggagcgucgggcccauacccggc
cgucgacggcagcugcaagccucgacgaguaggagggccgccgcgguggc
gccgaagcccagggcgcgggcccggguggagccgccgcgggcgcagaucu
uggugguaguagcaaauauucaaacgagagcuuugaaggccgaaguggag
aaggguuccaugugaacagcaguugaacaugggugagccgguccuaaggg
acgggccuacgccguucggaggggagggccccgcucgaccgaaagggagu
cggguccagauccccgagcccggagcggcggagacgggcggcccagugcg
gugacgcaaacgaacccggagaugccggcgggugccccgggaaagaguuc
ucuuuucuuugugaagggcagggcgcccuggaacggguucgccccgagag
aggggcccgcgcccuggaaagcgccgcgcugcggcguccggugagcucuc
gucggcccuugaaaauccgggggagaagguguaaaucucgcgccgggccg
uacccauauccgcagcaggucuccaaggugaacagccucuggcguguugg
aacaaggcagaguaagggaagucggcaagucagauccguaacuucgggau
aaggauuggcucuaagggcugagcagccagcuuagaacugucgcggacca
ggggaauccgacuguuuaauuaaaacaaagcaucgcgaaggcccucggcg
gguguugacgcgaugugauuucugcccagugcucugaaugucaaagugaa
gaaauucaacgaagcgcggguaaacggcggucuuaagguagccaaaugcc
ucgucaucuaauuagugacgcgcaugaauggaugaacgagauucccacug
ucccuaccugcuaucuagcgaaaccacagccaagggaacgggcuuggcag
aaucagcggggaaagaagacccuguugagcuugacucuagucuggcccug
ugaagccucacuuacccggugaggcggguucuggcgucaagcgccccgcg
gggcgcgacccgccccggggacagcgucagguggggaguuugacuggggc
gguacaccugucaaacgguaacgcagguguccuaaggcgagcucaggggg
gacagaaaccucccguagagcagaagggcaaaagcucgcuugaucuugau
uuucaguaugaguacggaccgcgaaagcggggccucacgauccuuccggc
uuuugggguuuuaagcgggaggugucagaaaaguuaccacagggauaacu
ggcuuguggcggccaagcguucauagcgacgucgcuuuuugauccuucga
ugucggcucuuccuaucauugugaagcagaauucaccaagcguuggauug
uucacccacuaacagggaacgugagcuggguuuagaccgucgugagacag
guuaguuuuacccuacugaugugagccguuguugcaauaguaaucccgcu
caguacgagaggaaccgcggguucagacauuugguucgugcgcuuggcug
aggagccacuggcgcgaagccaccaucugcgggauuaugacugaacgccu
cuaagucagaaucccgccuaaaagcaacgauagcgccgucggaucuccga
uaggccccggguaaccgggaccccggcgcggagagccauucgugacagga
gcggcuagaacgagcgccgcccccucuuccagugacgcaccgcauguuug
uggggaacccggugcuuaaaugacucguagacgaccugauucugggucgg
ggugucgugcguggcagagcagcgcugcgauccauugaaagucagcccuc
gauccaaguuuug

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7oyb A molecular network of conserved factors keeps ribosomes dormant in the egg.
• Resolution: 2.4 Å
• Binding residue (original residue number in PDB): T2 K3 G4 T5 S6 S7 F8 G9 K10 R11 R12 N13 K14 T15 H16 K25 A26 H28 Q30 G35 K42 R43 K44 R45 K46 Y47 N48 W49 S50 K52 A53 R55 R56 T59 F71 K85
• Binding residue (residue number reindexed from 1): T1 K2 G3 T4 S5 S6 F7 G8 K9 R10 R11 N12 K13 T14 H15 K24 A25 H27 Q29 G34 K41 R42 K43 R44 K45 Y46 N47 W48 S49 K51 A52 R54 R55 T58 F70 K84

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0046872 metal ion binding

Biological Process

• GO:0006412 translation
• GO:0032981 mitochondrial respiratory chain complex I assembly
• GO:0033617 mitochondrial cytochrome c oxidase assembly

Cellular Component

• GO:0005743 mitochondrial inner membrane
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7oyb, PDBe:7oyb, PDBj:7oyb
• PDBsum: 7oyb
• PubMed: 36653451
• UniProt: Q6IQJ7