Structure of PDB 8fl6 Chain LA Binding Site BS02

Receptor Information

>8fl6 Chain LA (length=153) Species: 9606 (Homo sapiens)

VRYSLDPENPTKSCKSRGSNLRVHFKNTRETAQAIKGMHIRKATKYLKDV
TLQKQCVPFRRYNGGVGRCAQAKQWGWTQGRWPKKSAEFLLHMLKNAESN
AELKGLDVDSLVIEHIQVNKAPKMRRRTYRAHGRINPYMSSPCHIEMILT
EKE

Ligand information

>8fl6 Chain L3 (length=3405)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggagaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccggggcgcgggacauguggc
guacggaagacccgcuccccggcgccgcgggggcccaaguccuucugauc
gaggcccagcccguggacggugugaggccgguagcggcccccggcgcgcc
gggcccgggucuucccggagucggguugcuugggaaugcagcccaaagcg
ggugguaaacuccaucuaaggcuaaauaccggcacgagaccgauagucaa
caaguaccguaagggaaaguugaaaagaacuuugaagagagaguucaaga
gggcgugaaaccguuaagaggaacgggugggguccgcgcaguccgcccgg
aggauucaacccggcggcggccggccgugucggcggcccggcggaucugg
gaccgucccccgaccggcgaccggccgccgccgggcgcauuuccaccgcg
gcggugcgccgcgaccggcuccgggacggcugggaaggcccggcggggaa
gguggcucgggcccgaguguuacagcccccccggcagcagcacucgccga
aucccggggccgagggaggucgccgcgcucuccccccggggggccgggcc
accccucccacggcgcgaccgcucggggcggacuguccccagugcgcccc
gggcgggucgcgccgucgggcccggggggccacgcgcgcgucccccgaag
agggggacggcggagcgagcgcacggggucggcggcgacgucggcuaccc
acccgacccgucuuacacggaccaaggagucuaacacgugcgcgagucgg
gggcucgcacgaaagccgccguggcgcaaugaaggugaaggccgcggccg
aggugggaucccgaggccucuccaguccgccgagggcgcaccaccggccc
gucucgcccgccgcgccggggagguggagcacgagcgcacguguuaggac
ccgaaagauggugaacuaugccugggcagggcgaagccagaggaaacucu
gguggagguccguagcgguccugacgugcaaaucggucguccgaccuggg
uauaggggcgaaagacuaaucgaaccaucuaguagcugguucccuccgaa
guuucccucaggauagcuggcgcucuccgcaguuuuauccgguaaagcuu
uaaauggguaagaagcccggcucgcuggcguggagccgggcguggaaugc
gagugccuagugggccacuuuugcagaacuggcgcugcgggaugaaccga
acgccggguuaaggcgcccgaugccgacgcucaucagaccccaaaaggug
uugguugauauagacagcaggacgguggccauggaagucggaauccgcua
aggaguguguaacaacucaccugccgaaucaacuagcccugaaaauggau
ggcgcuggagcgucgggcccauacccggccgucgccggcagucgagagug
gacgggagcggcgcgcggacgcuacgccgcgacgaguaggagggccgcug
cggugagccuugaagccuagggcgcgggcccggguggagccgccgcaggu
gcagaucuuggugguaguagcaaauauucaaacgagaacuuugaaggccg
aaguggagaaggguuccaugugaacagcaguugaacaugggucagucggu
ccugagagaugggcgagcgccguuccgaagggacgggcgauggccuccgg
cccugaucgaaagggagucggguucagauccccgaauccggaguggcgga
gaugggcgccgcgaggcguccagugcgguaacgcgaccgaucccggagaa
gccggcgggagccccggggagaguucucuuuucuuugugaagggcagggc
gcccuggaauggguucgccccgagagaggggcccgugccuuggaaagcgu
cgcgguuccggcggcguccggugagcucucgcuggcccuugaaaauccgg
gggagaggguguaaaucucgcgccgggccguacccauauccgcagcaggu
cuccaaggugaacagccucuggcauguuggaacaauguagguaagggaag
ucggcaagccggauccguaacuucgggauaaggauuggcucuaagggcug
ggucggucgggcuggggcgcgaagcggggucccguggaucgccccagccg
gccggcgccuagcagccgacuuagaacuggugcggaccaggggaauccga
cuguuuaauuaaaacaaagcaucgcgaaggcccgcggcggguguugacgc
gaugugauuucugcccagugcucugaaugucaaagugaagaaauucaaug
aagcgcggguaaacggcaagugaacgagauucccacugucccuaccuacu
auccagcgaaaccacagccaagggcgggcuuggcggaaucagcggggaaa
gaagacccuguugagcuugacucuagucuggcacggugaaguuuuuucac
ugacccggugaggcggggggcuucuggcgccaagcgcccggccgcgcgcc
ggccgggcgcgacccgcuccggggacagugccagguggggaguuugacug
uacaccugucaaacgguaacgcagguguccuaaggcgagcucagggagga
cagaaaccucccguggagcagaagggcaaaagcucgcuugaucuugauuu
ucaguacgaauacagaccgugaaagcggggccucacgauccuucugaccu
uuuggguuuuaagcaggaggugucagaaaaguuaccacagggaucuugug
gcggccaagcgagcgacgucgcugaugucggcucuuccuaucauugugaa
gcagaauucaccaagcguuggauuguucacccacuaauagggaacgugag
cuggguuuagaccgucgugagacagguuaguuuuacccuacugaugaugu
guuguugccaugguaauccugcucaguacgagaggaaccgcagguucaga
cauuugguguaugugcuuggcugaggagccaauggggcgaagcuaccauc
ugugggauuaugacugaacgccucuaagucagaaucccgcccaggcggaa
cgauagcgccgcggagccucgguuggccucggauagccgguccccggggu
ccggugcggagugcccuucguccugggaaacggggcgcggccggagaggc
ggccgcccccucgcccgucacgcaccgcacguucguggggaaccuggcgc
uaaaccauucguagacgaccugcuucugggucgggguuucguacguagca
gagcagcucccucgcugcgaucuauugaaagucagcccucgacacaaggg
uuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8fl6 Principles of human pre-60 S biogenesis.
• Resolution: 2.62 Å
• Binding residue (original residue number in PDB): R3 L6 K16 R18 G19 S20 R23 H25 K27 R30 Q34 K37 K43 R62 Y63 N64 G65 G66 G68 R69 A71 Q72 K74 Q75 T79 Q80 R82 W83 K85 K86 N97 N101 Q118 V119 R127 T129 Y130 R131 A132 H133 G134 I136 N137 P138 Y139 M140 S141
• Binding residue (residue number reindexed from 1): R2 L5 K15 R17 G18 S19 R22 H24 K26 R29 Q33 K36 K42 R61 Y62 N63 G64 G65 G67 R68 A70 Q71 K73 Q74 T78 Q79 R81 W82 K84 K85 N96 N100 Q117 V118 R126 T128 Y129 R130 A131 H132 G133 I135 N136 P137 Y138 M139 S140

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

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8fl6, PDBe:8fl6, PDBj:8fl6
• PDBsum: 8fl6
• PubMed: 37410842
• UniProt: P18621|RL17_HUMAN Large ribosomal subunit protein uL22 (Gene Name=RPL17)