Structure of PDB 8fl9 Chain LX Binding Site BS01

Receptor Information

>8fl9 Chain LX (length=91) Species: 9606 (Homo sapiens)

AKRTKKVGIVGKYGTRYGASLRKMVKKIEISQHAKYTCSFCGKTKMKRRA
VGIWHCGSCMKTVAGGAWTYNTTSAVTVKSAIRRLKELKDQ

Ligand information

>8fl9 Chain L3 (length=3361)

gcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguca
gcggaggagaagaaacuaaccaggauucccucaguaacggcgagugaaca
gggaagagcccagcgccgaauccccgccccggggcgcgggacauguggcg
uacggaagacccgcuccccggcgccgcgggggcccaaguccuucugaucg
aggcccagcccguggacggugugaggccgguagcggcccccggcgcgccg
ggcccgggucuucccggagucggguugcuugggaaugcagcccaaagcgg
gugguaaacuccaucuaaggcuaaauaccggcacgagaccgauagucaac
aaguaccguaagggaaaguugaaaagaacuuugaagagagaguucaagag
ggcgugaaaccguuaagaggaacgggugggguccgcgcaguccgcccgga
ggauucaacccggcggcggccggccgugucggcggcccggcggaucuggg
accgucccccgaccggcgaccggccgccgccgggcgcauuuccaccgcgg
cggugcgccgcgaccggcuccgggacggcugggaaggcccggcggggaag
guggcucgggcccgaguguuacagcccccccggcagcagcacucgccgaa
ucccggggccgagggaggucgccgcgcucuccccccggggggccgggcca
ccccucccacggcgcgaccgcucggggcggacuguccccagugcgccccg
ggcgggucgcgccgucgggcccggggggccacgcgcgcgucccccgaaga
gggggacggcggagcgagcgcacggggucggcggcgacgucggcuaccca
cccgacccgucuuacacggaccaaggagucuaacacgugcgcgagucggg
ggcucgcacgaaagccgccguggcgcaaugaaggugaaggccgcggccga
ggugggaucccgaggccucuccaguccgccgagggcgcaccaccggcccg
ucucgcccgccgcgccggggagguggagcacgagcgcacguguuaggacc
cgaaagauggugaacuaugccugggcagggcgaagccagaggaaacucug
guggagguccguagcgguccugacgugcaaaucggucguccgaccugggu
auaggggcgaaagacuaaucgaaccaucuaguagcugguucccuccgaag
uuucccucaggauagcuggcgcucuccgcaguuuuauccgguaaagcuuu
aaauggguaagaagcccggcucgcuggcguggagccgggcguggaaugcg
agugccuagugggccacuuuugcagaacuggcgcugcgggaugaaccgaa
cgccggguuaaggcgcccgaugccgacgcucaucagaccccaaaaggugu
ugguugauauagacagcaggacgguggccauggaagucggaauccgcuaa
ggaguguguaacaacucaccugccgaaucaacuagcccugaaaauggaug
gcgcuggagcgucgggcccauacccggccgucgccggcagucgagagugg
acgggagcggcgcgcggacgcuacgccgcgacgaguaggagggccgcugc
ggugagccuugaagccuagggcgcgggcccggguggagccgccgcaggug
cagaucuuggugguaguagcaaauauucaaacgagaacuuugaaggccga
aguggagaaggguuccaugugaacagcaguugaacaugggucagucgguc
cugagagaugggcgagcgccguuccgaagggacgggcgagcccugaucga
aagggagucggguucagauccccgaauccggaguggcggagaugggcgcc
gcgaggcguccagugcgguaacgcgaccgaucccggagaagccggcggga
gccccggggagaguucucuuuucuuugugaagggcagggcgcccuggaau
ggguucgccccgagagaggggcccgugccuuggaaagcgucgcgguuccg
gcggcguccggugagcucucgcuggcccuugaaaauccgggggagagggu
guaaaucucgcgccgggccguacccauauccgcagcaggucuccaaggug
aacagccucuggcauguuggaacaauguagguaagggaagucggcaagcc
ggauccguaacuucgggauaaggauuggcucuaagggcugggucggucgc
ggccggcgccuagcagccgacuuagaacuggugcggaccaggggaauccg
acuguuuaauuaaaacaaagcaucgcgaaggcccgcggcggguguugacg
cgaugugauuucugcccagugcucugaaugucaaagugaagaaauucaau
gaagcgcggguaaacggcaagugaacgagauucccacugucccuaccuac
uauccagcgaaaccacagccaagggcgggcuuggcggaaucagcggggaa
agaagacccuguugagcuugacucuagucuggcacggugaaguuuuuuca
cugacccggugaggcggggggcuucuggcgccaagcgcccggccgcgcgc
cggccgggcgcgacccgcuccggggacagugccagguggggaguuugacu
guacaccugucaaacgguaacgcagguguccuaaggcgagcucagggagg
acagaaaccucccguggagcagaagggcaaaagcucgcuugaucuugauu
uucaguacgaauacagaccgugaaagcggggccucacgauccuucugacc
uuuuggguuuuaagcaggaggugucagaaaaguuaccacagggaucuugu
ggcggccaagcgagcgacgucgcuuuuuggaugucggcucuuccuaucau
ugugaagcagaauucaccaagcguuggauuguucacccacuaauagggaa
cgugagcuggguuuagaccgucgugagacagguuaguuuuacccuacuga
ugauguguuguugccaugguaauccugcucaguacgagaggaaccgcagg
uucagacauuugguguaugugcuuggcugaggagccaauggggcgaagcu
accaucugugggauuaugacugaacgccucuaagucagaaucccgcccag
gcggaacgauagcgccgcggagccucgguuggccucggauagccgguccc
cgggguccggugcggagugcccuucguccugggaaacggggcgcggccgg
agaggcggccgcccccucgcccgucacgcaccgcacguucguggggaacc
uggcgcuaaaccauucguagacgaccugcuucugggucgggguuucguac
guagcagagcagcucccucgcugcgaucuauugaaagucagcccucgaca
caaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8fl9 Principles of human pre-60 S biogenesis.
• Resolution: 2.75 Å
• Binding residue (original residue number in PDB): A2 K3 R4 T5 K6 V8 G9 I10 K13 Y14 G15 T16 R17 Y18 G19 A20 S21 H34 F41 C42 K44 K46 K48 A51 V52 G58 M61 K62 W69
• Binding residue (residue number reindexed from 1): A1 K2 R3 T4 K5 V7 G8 I9 K12 Y13 G14 T15 R16 Y17 G18 A19 S20 H33 F40 C41 K43 K45 K47 A50 V51 G57 M60 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:8fl9, PDBe:8fl9, PDBj:8fl9
• PDBsum: 8fl9
• PubMed: 37410842
• UniProt: P61513|RL37A_HUMAN Large ribosomal subunit protein eL43 (Gene Name=RPL37A)