Structure of PDB 7oyc Chain O1 Binding Site BS01

Receptor Information

>7oyc Chain O1 (length=199) Species: 8355 (Xenopus laevis)

QVLIIDGRGHLLGRLAAIVAKQVLLGRKVVVVRCEGINISGNFYRNKLKY
LAFLRKRMNTNPSRGPYHFRAPSRIFWRTVRGMLPHKTKRGQAALERLKV
FDGIPPPYDKRKRMVVPAALKIVRLKPTRKFAFLGRLAHEVGWKYQAVTA
TLEEKRKVKAKLHYNKKKIIVKLRKQAEKNVESKISKYTDVLKQYGILV

Ligand information

>7oyc Chain 51 (length=3245)

ucagaccucagaucagacgcggcgacccgcugaauuuaagcauauuacua
agcggaggaaaagaaacuaaccaggauucccccaguaacggcgagugaag
agggaagagcccagcgccgaauccccgcccgcgggcgcgggacguguggc
guacgggagaccggacccccccggcgcgcgggggcccaaguccuucugau
cgaggcccagcccgcggacgguguuaggccgguggcggcccccggcgcgg
cgggacccggucuccucggagucggguuguuugggaaugcagcccaaagc
gggugguaaacuccaucuaaggcuaaauaccggcacgagaccgauagcgg
acaaguaccguaagggaaaguugaaaagaacuuugaagagagaguucaag
agggcgugaaaccguuaagagguaaacgggugggguccgugcgguccgcc
cggaggauucaacccggcggguccgccggccggaccgggccacucggcgg
gacgcggcccgggcggccccggcgcccgcagggcgcauuuccuccgcggc
ggugcgccgcgaccggcuccgggccggcugggaaggcccagggguucagg
ggaguuacagcccccccccaggcagcaucgccgucgcccggggccgaggg
uccgcggccuccuccccaagggggaaggggccccccgcucccggcgcggc
gcggacugcccccagugcgcgccgcgccgccgaggcgggagggcccgcgg
gagccgccagggguccgcggcgaugucggugucccacccgacccgucuug
aaacacggaccaaggagucuaacgcgcgcgcgagucggagggacgcgaaa
cccuguggcgcaaugaaggugagggccggggcgccccggcugagguggga
ucccgccgcgccggcgggcgcaccaccggcccgucucgcccgccccgucg
gggagguggagcgugagcgcgcgcgauaggacccgaaagauggugaacua
ugccugggcagggcgaagccagaggaaacucugguggagguccguagcgg
uccugacgugcaaaucggucguccgaccuggguauaggggcgaaagacua
aucgaaccaucuaguagcugguucccuccgaaguuucccucaggauagcu
ggcgcucguccgucgcaguuuuauccgguaaagcgaaugauuagagguac
cuauucucaaacuuuaaauggguaagaagcccggcucgcuggcuuggagc
cgggcguggaaugcgagcacgccuagugggccacuuuugguaagcagaac
uggcgcugcgggaugaaccgaacgccggguuaaggcgcccgaugccgacg
cucaucagaccccagaaaagguguugguugauauagacagcgccgaauca
acuagcccugaaaauggauggcgcuggagcgucgggcccauacccggccg
ucgccggcgcugggcuaggccgcgacgaguaggagggccgccgcgguggg
cgcggaagccccgggcgagggcccggguggagccgccgcgggugcagauc
uuggugguaguagcaaauauucaaacgagaacuuugaaggccgaagugga
gaaggguuccaugugaacagcaguugaacaugggucagucgguccuaaga
gaugggcgagcgccguucggaagggcggccgaucgaaagggagucggguu
cagauccccgaacccggagcggagacgggcguccagugcggcgacgcgac
cgaucccggagaagccggcgggagccccggggagaguucucuuuucuuug
ugaagggcagggccgcccuggaauggguucgccccgagagaggggcccgc
gccuuggaaagcgucgcgggcggcguccggugagcucucgcuggcccuug
aaaauccgggggagaggguguaaaucucgcgccgggccguacccauaucc
gcagcaggucuccaaggugaacagccucuggcauguuagaacaauguagg
uaagggaagucggcaagucagauccguaacuucgggauaaggauuggcuc
uaagggcuggcagcugacuuagaacuggugcggaccaggggaauccgacu
guuuaauuaaaacaaagcaucgcgaaggcccgaggcggguguugacgcga
ugugauuucugcccagugcucugagucaaagugaagaaauucaaugaagc
gcggguaaacggcaagguagccaaaugccucgucaucuaauuagugacgc
gcaugaauggaugaacgagauucccacugucccuaccuacuaucuagcga
aaccacagccaagggaacgggcuuggcggaaucagcggggaaagaagacc
cuguugagcuugacucuagucugcaacugugaaguuucacuuacccggug
aggcggggggcuucuggacccaagcgcccggcgggcgcgacccgcuccga
ggacaguggcagguggggaguuugacuggggcgguacaccugucaaaccg
uaacgcagguguccuaaggcgagcucagggaggacagaaaccucccgugg
agcagaagggcaaaagcucgcuugaucuugauuuucaguaugaauacaga
ccgugaaagcggggccucacgauccuucugacuuuuuggguuuuaagcag
gaggugucagaaaaguuaccacagggauaacuggcuuguggcggccaagc
guucauagcgacgucgcuuuuugauccuucgaugucggcucuuccuauca
uugugaagcagaauucaccaagcguuggauuguucacccacuaauaggga
acgugagcuggguuuagaccgucgugagacagguuaguuuuacccuacug
augauguguugucgcaauaguaauccugcucaguacgagaggaaccgcag
guucagacauuugguguaugugcuuggcugaggagccaauggggcgaagc
uaccaucugugggauuaugacugaacgccucuaagucagaauccccccua
aacgugacgauaagcgccgcggagccucggucggccucggauagccggcg
cgccggcgggcagagccgcucgccucgggaccggagcgcggacgaaaggg
ggccgccucucucccggagcgcaccgcacguucguggggaaccuggugcu
aaaucauucguagacgaccugauucugggucaggguuucgugcguagcag
agcagcgcugcgaucuauugaaagucaucccuugagccauuuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7oyc A molecular network of conserved factors keeps ribosomes dormant in the egg.
• Resolution: 2.4 Å
• Binding residue (original residue number in PDB): R40 L44 G45 R46 A49 K53 L56 R65 S72 Y76 R77 L83 R87 K88 R89 M90 N91 N93 P94 R96 P98 Y99 H100 F101 R102 R110 T111 R113 G114 M115 P117 H118 K119 K121 R122 Q124 F133 I136 P138 P139 K142 R143 K144 R145 M146 I154 V155 R156 L157 K158 P159 R161 K162 E172 V173 G174 K176 Y177 E185 R188 K189 A192 H195 Y196 K199 K200 K204 K207 Y220 V231
• Binding residue (residue number reindexed from 1): R8 L12 G13 R14 A17 K21 L24 R33 S40 Y44 R45 L51 R55 K56 R57 M58 N59 N61 P62 R64 P66 Y67 H68 F69 R70 R78 T79 R81 G82 M83 P85 H86 K87 K89 R90 Q92 F101 I104 P106 P107 K110 R111 K112 R113 M114 I122 V123 R124 L125 K126 P127 R129 K130 E140 V141 G142 K144 Y145 E153 R156 K157 A160 H163 Y164 K167 K168 K172 K175 Y188 V199

Gene Ontology

Molecular Function

• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation
• GO:0017148 negative regulation of translation

Cellular Component

• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7oyc, PDBe:7oyc, PDBj:7oyc
• PDBsum: 7oyc
• PubMed: 36653451
• UniProt: A0A1L8ENM5