Structure of PDB 7oyd Chain i Binding Site BS01

Receptor Information

>7oyd Chain i (length=101) Species: 9986 (Oryctolagus cuniculus)

ALRYPMAVGLNKGHKVTKNVSKPRHSRRRGRLTKHTKFVRDMIREVCGFA
PYERRAMELLKVSKDKRALKFIKKRVGTHIRAKRKREELSSVLAAMRKAA
A

Ligand information

>7oyd Chain 5 (length=3358)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggaaaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccgcggcggggcgcgggaaau
guggcguacggaagacccacccggcgccggggggcccaaguccuucugau
cgaggccgcccguggacggugugaggccgguagcggcccccggcgcgccg
ggcccgggucuucccggagucggguugcuugggaaugcagcccaaagcgg
gugguaaacuccaucuaaggcuaaauaccggcacgagaccgauagucaac
aaguaccguaagggaaaguugaaaagaacuuugaagagagaguucaagag
ggcgugaaaccguuaagagguaaacgggugggguccgcgcaguccgcccg
gaggaucaacccggcggcggccggccgugccggggggcggaucuggaccg
ccccccggccggcgaccggccgccgccgggcgcauuuccaccgggcggug
cgccgcgaccggcuccgggacggcugggaaggcccggcggggaagguggc
ccggccggguguuacagcccgcccccggcagcagcgacucgccgaauccc
ggggccgagggagcgagacccgugccgccgcgcucuccccccuggggggg
ccgggccaccccucccacggcgcgaccgcggggcggacuguccagugcgc
cccgggcgggucgcgccgucgggcccggggggccacgcgcgagcgcacgg
ggucggcggcgaugucggcuacccacccgacccgucuugaaacacggacc
aaggagucuaacacgugcgcgagucgggggcuacgaaagccgccguggcg
caaugaaggugaaggccgggccgaggugggaucccgaggccucuccaguc
cgccgagggcgcaccaccggcccgucucgcccgccgcgccggggaggugg
agcacgagcgcacguguuaggacccgaaagauggugaacuaugccugggc
agggcgaagccagaggaaacucugguggagguccguagcgguccugacgu
gcgaaucggucguccgaccuggguauaggggcgaaagacuaaucgaacca
ucuaguagcugguucccuccaaaguuucccucaggauagcuggcgcucuc
gcaguuuuauccgguaaagcgaaugauuagagguaccuauucucaaacuu
uaaauggguaagaagcccggcucgcugguguggagccgggcguggaaugc
gagugccuagugggccacuuuugguaagcagaacuggcgcugcgggauga
accgaacgccggguuaaggcgcccgaugccgacgcucaucagaccccaga
aaagguguugguugauauagacagcaggaugguggccauggaagucggaa
uccgcuaaggaguguguaacaacucaccugccgaaucaacuagcccugaa
aauggauggcgcuggagcgucgggcccauacccggccgucgcuggcaguc
ggcagagcgagaaagagagugggcggacgcuacgccgcgacgaguaggag
ggccgcugcggugagccuugaagccuagggcgcgggcccggguggagccg
ccgcaggugcagaucuuggugguaguagcaaauauucaaacgagaacuuu
gaaggccgaaguggagaaggguuccaugugaacagcaguugaacaugggu
cagucgguccugagagaugggcgagcgccguuccgaagggacgcucagcc
gaucgaaagggagucggguucagauccccgaauccggagcggagaugggc
guccagugcgguaacgcgaccgaucccggagaagccggcgggagccccgg
ggagaguucucuuuucuuugugaagggcagggcgcccuggaauggguucg
ccccgagagaggggcccgugccuuggaaagcgucgcggcguccggugagc
ucucgcuggcccuugaaaauccgggggagaggguguaaaucucgcgccgg
gccguacccauauccgcagcaggucuccaaggugaacagccucuggcaug
uuggaacaauguagguaagggaagucggcaagccggauccguaacuucgg
gauaaggauuggcucuaagggccgacuuagaacuggugcggaccagggga
auccgacuguuuaauuaaaacaaagcaucgcgaaggcccgcggcgggugu
ugacgcgaugugauuucugcccagugcucugagucaaagugaagaaauuc
aaugaagcgcggguaaacggcgggaguaaugacucucuuaagguagccaa
augccucgucaucuaauuagugacgcgcaugaauggaugaacgagauucc
cacugucccuaccuacuauccagcgaaaccacagccaagggaacgggcuu
ggcggaaucagcggggaaagaagacccuguugagcuugacucuagucugg
cacggugaauucacugacccggugaggcgggggggccucgcuucuggcgc
caagcgcccgcgggcgcgacccgcuccggggacagugccagguggggagu
uugacuggggcgguacaccugucaaacgguaacgcagguguccuaaggcg
agcucagggaggacagaaaccucccguggagcagaagggcaaaagcucgc
uugaucuugauuuucaguacgaauacagaccgugaaagcggggccucacg
auccuucugaccuuuuggguuuuaagcaggaggugucagaaaaguuacca
cagggauaacuggcuuguggcggccaagcguucauagcgacgucgcuuuu
ugauccuucgaugucggcucuuccuaucauugugaagcagaauucaccaa
gcguuggauuguucacccacuaauagggaacgugagcuggguuuagaccg
ucgugagacagguuaguuuuacccuacugaugauguguuguugccauggu
aauccugcucaguacgagaggaaccgcagguucagacauuugguguaugu
gcuuggcugaggagccaauggggcgaagcuaccaucugugggauuaugac
ugaacgccucuaagucagaaucccgcccaggcggaacgauagcgccggag
ccucgguuggccucggauagccggccggugcggagagcccuucgucccgg
gaaacgggccggaaaggggccgcgcccgucacgcaccgcacguucguggg
gaaccuggcgcuaaaccauucguagacgaccugcuucugggucgggguuu
cguacguagcagagcagcugcgaucuauugaaagucagcccucgacacaa
ggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7oyd A molecular network of conserved factors keeps ribosomes dormant in the egg.
• Resolution: 2.3 Å
• Binding residue (original residue number in PDB): R4 G14 H15 V17 R25 H26 S27 R28 R29 R30 G31 R32 L33 H36 R41 Y53 K67 R68 K74 K75 R76 G78 T79 H80 R82 K84 R85 K86
• Binding residue (residue number reindexed from 1): R3 G13 H14 V16 R24 H25 S26 R27 R28 R29 G30 R31 L32 H35 R40 Y52 K66 R67 K73 K74 R75 G77 T78 H79 R81 K83 R84 K85

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• 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:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7oyd, PDBe:7oyd, PDBj:7oyd
• PDBsum: 7oyd
• PubMed: 36653451
• UniProt: G1TTQ5|RL36_RABIT Large ribosomal subunit protein eL36 (Gene Name=RPL36)