Structure of PDB 8flf Chain LX Binding Site BS01

Receptor Information

>8flf Chain LX (length=91) Species: 9606 (Homo sapiens)

AKRTKKVGIVGKYGTRYGASLRKMVKKIEISQHAKYTCSFCGKTKMKRRA
VGIWHCGSCMKTVAGGAWTYNTTSAVTVKSAIRRLKELKDQ

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): A2 K3 R4 T5 K6 K7 V8 G9 I10 K13 Y14 G15 T16 R17 Y18 G19 A20 S21 H34 C42 K44 K46 A51 G58 S59 K62 W69
• Binding residue (residue number reindexed from 1): A1 K2 R3 T4 K5 K6 V7 G8 I9 K12 Y13 G14 T15 R16 Y17 G18 A19 S20 H33 C41 K43 K45 A50 G57 S58 K61 W68

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0046872 metal ion binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005925 focal adhesion
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8flf, PDBe:8flf, PDBj:8flf
• PDBsum: 8flf
• PubMed: 37410842
• UniProt: P61513|RL37A_HUMAN Large ribosomal subunit protein eL43 (Gene Name=RPL37A)