Structure of PDB 7oyb Chain g1 Binding Site BS01

Receptor Information

>7oyb Chain g1 (length=104) Species: 7955 (Danio rerio)

VQRLTYRRRLSYNTASNKTRLSRTPGNRIVYLYTKKTGKSPKSACGICPG
RLRGIRAVRPQVLMRLSKTKKHVSRAYGGSMCAKCVRDRIKRAFLIEEQK
IVVK

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): V2 R4 L5 T6 Y7 R8 R9 R10 L11 S12 Y13 N14 T15 S17 R21 L22 R24 T25 P26 G27 N28 R29 Y32 L33 Y34 K36 K37 K40 P42 K43 A45 I48 R54 G55 I56 R57 R60 P61 Q62 L64 M65 R66 S68 K69 T70 K72 H73 S75 R76 A77 Y78 G79 G80 S81 A84 R90 R93 A94 L96 I97 E98 Q100 K101
• Binding residue (residue number reindexed from 1): V1 R3 L4 T5 Y6 R7 R8 R9 L10 S11 Y12 N13 T14 S16 R20 L21 R23 T24 P25 G26 N27 R28 Y31 L32 Y33 K35 K36 K39 P41 K42 A44 I47 R53 G54 I55 R56 R59 P60 Q61 L63 M64 R65 S67 K68 T69 K71 H72 S74 R75 A76 Y77 G78 G79 S80 A83 R89 R92 A93 L95 I96 E97 Q99 K100

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005829 cytosol
• 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: Q7ZWJ7|RL34_DANRE Large ribosomal subunit protein eL34 (Gene Name=rpl34)