Structure of PDB 8flf Chain LO Binding Site BS01

Receptor Information

>8flf Chain LO (length=95) Species: 9606 (Homo sapiens)

SINSRLQLVMKSGKYVLGYKQTLKMIRQGKAKLVILANNCPALRKSEIEY
YAMLAKTGVHHYSGNNIELGTACGKYYRVCTLAIIDPGDSDIIRS

Ligand information

>8flf Chain L3 (length=3325)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggagaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccggggcgcgggacauguggc
guacggaagacccgcuccccggcgccgcgggggcccaaguccuucugauc
gaggcccagcccguggacggugugaggccgguagcggcccccggcgcgcc
gggcccgggucuucccggagucggguugcuugggaaugcagcccaaagcg
ggugguaaacuccaucuaaggcuaaauaccggcacgagaccgauagucaa
caaguaccguaagggaaaguugaaaagaacuuugaagagagaguucaaga
gggcgugaaaccguuaagaggaacgggugggguccgcgcaguccgcccgg
aggauucaacccggcggcggccggccgugucggcggcccggcggaucugg
gaccgucccccgaccggcgaccggccgccgccgggcgcauuuccaccgcg
gcggugcgccgcgaccggcuccgggacggcugggaaggcccggcggggaa
gguggcucgggcccgaguguuacagcccccccggcagcagcacucgccga
aucccggggccgagggaggucgccgcgcucuccccccggggggccgggcc
accccucccacggcgcgaccgcucggggcggacuguccccagugcgcccc
gggcgggucgcgccgucgggcccggggggccacgcgcgcgucccccgaag
agggggacggcggagcgagcgcacggggucggcggcgacgucggcuaccc
acccgacccgucuugaaacacggaccaaggagucuaacacgugcgcgagu
cgggggcucgcacgaaagccgccguggcgcaaugaaggugaaggccgcgg
ccgaggugggaucccgaggccucuccaguccgccgagggcgcaccaccgg
cccgucucgcccgccgcgccggggagguggagcacgagcgcacguguuag
gacccgaaagauggugaacuaugccugggcagggcgaagccagaggaaac
ucugguggagguccguagcgguccugacgugcaaaucggucguccgaccu
ggguauaggggcgaaagacuaaucgaaccaucuaguagcugguucccucc
gaaguuucccucaggauagcuggcgcucuccgcaguuuuauccgguaaag
cgaaugauuagagguaccuauucucaaacuuuaaauggguaagaagcccg
gcucgcuggcguggagccgggcguggaaugcgagugccuagugggccacu
uuugcagaacuggcgcugcgggaugaaccgaacgccggguuaaggcgccc
gaugccgacgcucaucagaccccaaaagguguugguugauauagacagca
ggacgguccgcuaagaccugccgaaucaacuagcccugaaaauggauggc
gcuggagcgucgggcccauacccggccgucgccggcagucgagaguggac
gggagcggcgcgcggacgcuacgccgcgacgaguaggagggccgcugcgg
ugagccuugaagccuagggcgcgggcccggguggagccgccgcaggugca
gaucuuggugguaguagcaaauauucaaacgagaacuuugaaggccgaag
uggagaaggguuccaugugaacagcaguugaacaugggucagucgguccu
gagagaugggcgagcgccguuccgaagggacgggcgagcccucgaucgaa
agggagucggguucagauccccgaauccggaguggcggagaugggcgccg
cgaggcguccagugcgguaacgcgaccgaucccggagaagccggcgggag
ccccggggagaguucucuuuucuuugugaagggcagggcgcccuggaaug
gguucgccccgagagaggggcccgugccuuggaaagcgucgcgguuccgg
cggcguccggugagcucucgcuggcccuugaaaauccgggggagagggug
uaaaucucgcgccgggccguacccauauccgcagcaggucuccaagguga
acagccucuggcauguuggaacaauguagguaagggaagucggcaagccg
gauccguaacuucgggauaaggauuggcucuaagggcugggucggucgcg
gccggcgccuagcagccgacuuagaacuggugcggaccaggggaauccga
cuguuuaauuaaaacaaagcaucgcgaaggcccgcggcggguguugacgc
gaugugauuucugcccagugcucugaaugucaaagugaagaaauucaaug
aagcgcggguaaacggcaagugaacgagauucccacugucccuaccuacu
auccagcgaaaccacagccaaggcgggcuuggcggaaucagcggggaaag
aagacccuguugagcuugacucuagucuggcacggugaaguuuuuucacu
gacccggugaggcggggggcuucuggcgccaagcgcccggccgcgcgccg
gccgggcgcgacccgcuccggggacagugccagguggggaguuugacugu
acaccugucaaacgguaacgcagguguccuaaggcgagcucagggaggac
agaaaccucccguggagcagaagggcaaaagcucgcuugaucuugauuuu
caguacgaauacagaccgugaaagcggggccucacgauccuucugaccuu
uuggguuuuaagcaggaggugucagaaaaguuaccacagggaugaugucg
gcucuuccuaucauugugaagcagaauucaccaagcguuggauuguucac
ccacuaauagggaacgugagcuggguuuagaccgucgugagacagguuag
uuuuacccuacugaugauguguuguugccaugguaauccugcucaguacg
agaggaaccgcagguucagacauuugguguaugugcuuggcugaggagcc
aauggggcgaagcuaccaucugugggauuaugacugaacgccucuaaguc
agaaucccgcccaggcggaacgauagcgccgcggagccucgguuggccuc
ggauagccgguccccgggguccggugcggagugcccuucguccugggaaa
cggggcgcggccggagaggcggccgcccccucgcccgucacgcaccgcac
guucguggggaaccuggcgcuaaaccauucguagacgaccugcuucuggg
ucgggguuucguacguagcagagcagcucccucgcugcgaucuauugaaa
gucagcccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8flf Principles of human pre-60S biogenesis
• Resolution: 2.65 Å
• Binding residue (original residue number in PDB): L29 G30 Y31 K32 Q33 P53 R56 S58 Y88 Y89 R90 C92
• Binding residue (residue number reindexed from 1): L17 G18 Y19 K20 Q21 P41 R44 S46 Y76 Y77 R78 C80

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0031640 killing of cells of another organism
• GO:0050829 defense response to Gram-negative bacterium
• GO:0061844 antimicrobial humoral immune response mediated by antimicrobial peptide

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005925 focal adhesion
• GO:0014069 postsynaptic density
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0045202 synapse
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8flf, PDBe:8flf, PDBj:8flf
• PDBsum: 8flf
• PubMed: 37410842
• UniProt: P62888|RL30_HUMAN Large ribosomal subunit protein eL30 (Gene Name=RPL30)