Structure of PDB 7qgg Chain d Binding Site BS02

Receptor Information

>7qgg Chain d (length=101) Species: 10116 (Rattus norvegicus)

KSLESINSRLQLVMKSGKYVLGYKQTLKMIRQGKAKLVILANNCPALRKS
EIEYYAMLAKTGVHHYSGNNIELGTACGKYYRVCTLAIIDPGDSDIIRSM
P

Ligand information

>7qgg Chain t (length=3679)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggaaaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccgcgcgcggcgcgggaaaugug
gcguacggaagacccacuccccggcgccgcucguggggggcccaaguccu
ucugaucgaggcccagcccguggacggugugaggccgguagcggcccccg
gcgcgcgcccgggucuucccggagucggguugcuugggaaugcagcccaa
agcgggugguaaacuccaucuaaggcuaaauaccggcacgagaccgauag
ccaacaaguaccguaagggaaaguugaaaagaacuuugaagagagaguuc
aagagggcgugaaaccguuaagagguaaacgggugggguccgcgcagucc
gcccggaggauucaacccggcggcgcgcguccggccgugccgguggccgg
cggaucuuucccgcucccggugucggcgggggaccgccccccggaucggc
gaccggccgccgccgggcgcacuuccaggcggugcgccgcgaccggcucc
gggacggcugggaaggcccggcggggaagguggcucggggccccgagugu
uacagccccccggcagcagcgcucgccgaaucccggggccgagggagccg
gauacccgucgccgcgcucuccccccggcgggggccgggccgccccuccc
acggcgcgaccgcucucccagggggcggggcggacuguccccagugcgcc
ccgggcgucgucgcgccgucgggcccgggcgcgcucucccuccccuucuc
ggggugggggggagcgagagcgcacggggucggcggcgaugucggcuacc
cacccgacccgucuugaaacacggaccaaggagucuaacgcgugcgcgag
ucaggggcucguccgaaagccgccguggcgcaaugaaggugaagggcccc
guucccgggggccgaggugggaucccgaggccucuccaguccgccgaggg
gcaccaccggcccgucucgcccgccgcgccggggagguggagcacgagcg
uacgcguuaggacccgaaagauggugaacuaugccugggcagggcgaagc
cagaggaaacucugguggagguccguagcgguccugacgugcaaaucggu
cguccgaccuggguauaggggcgaaagacuaaucgaaccaucuaguagcu
gguucccuccgaaguuucccucaggauagcuggcgcucucgcaacgcggu
cgacaacccgcaguuuuauccgguaaagcgaaugauuagaggucuugggg
ccgaaacgaucucaaccuauucucaaacuuuaaauggguaagaagcccgg
cucgcuggcguggagccgggcguggaaugcgagugccuagugggccacuu
uugguaagcagaacuggcgcugcgggaugaaccgaacgccggguuaaggc
gcccgaugccgacgcucaucagaccccagaaaagguguugguugauauag
acagcaggacgguggccauggaagucggaauccgcuaggaguguguaaca
acucaccugccgaaucaacuagcccugaaaauggauggcgcuggagcguc
gggcccauacccggccgucgccggcgucggaacgggacgggagcggccgc
ucgggccccgcggacgcuacgccgcgacgaguaggagggccgcugcggug
agccuugaagccuagggcgcgggcccggguggagccgccgcaggugcaga
ucuuggugguaguagcaaauauucaaacgagaacuuugaaggccgaagug
gagaaggguuccaugugaacagcaguugaacaugggucagucgguccuga
gagaugggcgagugccguuccgaagggacgggcgauggccuccguugccc
ucagccgaucgaaagggagucggguucagauccccgaauccggaguggcg
gagaugggcgccgcgaggcguccagugcgguaacgcgaccgaucccggag
aagccggcgggagccccggggagaguucucuuuucuuugugaagggcagg
gcgcccuggaauggguucgccccgagagaggggcccgugccuuggaaagc
gucgcaguuccggcggcguccggugagcucucgcuggcccuugaaaaucc
gggggagaggguguaaaucucgcgccgggccguacccauauccgcagcag
gucuccaaggugaacagccucuggcauguuggaacaauguagguaaggga
agucggcaagccggauccguaacuucgggauaaggauuggcucuaagggc
uggcagccgacuuagaacuggugcggaccaggggaauccgacuguuuaau
uaaaacaaagcaucgcgaaggcccgcggcggguguugacgcgaugugauu
ucugcccagugcucugaaugucaaagugaagaaauucaaugaagcgcggg
uaaacggcgggaguaacuaugacucucuuaagguagccaaaugccucguc
aucuaauuagugacgcgcaugaauggaugaacgagauucccacugucccu
accuacuauccagcgaaaccacagccaagggaacgggcuuggcggaauca
gcggggaaagaagacccuguugagcuugacucuagucuggcacggugaag
agacaugagagguguagaauaagugggaggcccgggccgccggugaaaua
ccacuacucucaucguuuuuucacugacccggugaggcgggggggcgagc
cccgaggggcucucgcuucuggcgccaagcgcccgucgggcgggcgcgac
ccgcuccggggacagugccagguggggaguuugacuggggcgguacaccu
gucaaacgguaacgcagguguccuaaggcgagcucagggaggacagaaac
cucccguggagcagaagggcaaaagcucgcuugaucuugauuuucaguac
gaauacagaccgugaaagcggggccucacgauccuucugaccuuuugggu
uuuaagcaggaggugucagaaaaguuaccacagggauaacuggcuugugg
cggccaagcguucauagcgacgucgcuuuuugauccuucgaugucggcuc
uuccuaucauugugaagcagaauucaccaagcguuggauuguucacccac
uaauagggaacgugagcuggguuuagaccgucgugagacagguuaguuuu
acccuacugaugauguguuguugccaugguaauccugcucaguacgagag
gaaccgcagguucagacauuugguguaugugcuuggcugaggagccaaug
gggcgaagcuaccaucugugggauuaugacugaacgccucuaagucagaa
ucccgcccaggcggaacgauacggcagcgccgaaggagccucgguuggcc
ccggauagccggcucccgggguccggugcggagagccauucgucccggga
aacggggugcggccggaaagggggccgcccucucgcccgucacgcuuaac
gcacguucguguggaaccuggcgcuaaaccauucguagacgaccugcuuc
ugggucgggguuucguacguagcagagcagcucccucgcugcgaucuauu
gaaagucagcccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7qgg Neuronal RNA granules are ribosome complexes stalled at the pre-translocation state.
• Resolution: 2.86 Å
• Binding residue (original residue number in PDB): G30 Y31 K32 Q33 K36 A54 R56 N78 Y88 Y89 R90 V91 C92
• Binding residue (residue number reindexed from 1): G22 Y23 K24 Q25 K28 A46 R48 N70 Y80 Y81 R82 V83 C84

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0035368 selenocysteine insertion sequence binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0061844 antimicrobial humoral immune response mediated by antimicrobial peptide
• GO:0097421 liver regeneration
• GO:1904571 positive regulation of selenocysteine incorporation

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0014069 postsynaptic density
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0045202 synapse
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7qgg, PDBe:7qgg, PDBj:7qgg
• PDBsum: 7qgg
• PubMed: 36038000
• UniProt: P62890|RL30_RAT Large ribosomal subunit protein eL30 (Gene Name=Rpl30)