Structure of PDB 8flc Chain LK Binding Site BS01

Receptor Information

>8flc Chain LK (length=147) Species: 9606 (Homo sapiens)

PSRLRKTRKLRGHVSHGHGRIGKHRKHPGGRGNAGGLHHHRINFDKYHPG
YFGKVGMKHYHLKRNQSFCPTVNLDKLWTLVSEQTRVNAAKNKTGAAPII
DVVRSGYYKVLGKGKLPKQPVIVKAKFFSRRAEEKIKSVGGACVLVA

Ligand information

>8flc Chain L3 (length=3373)

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
uuuaaauggguaagaagcccggcucgcuggcguggagccgggcguggaau
gcgagugccuagugggccacuuuugguaagcagaacuggcgcugcgggau
gaaccgaacgccggguuaaggcgcccgaugccgacgcucaucagaccccg
aaaagguguugguugauauagacagcaggacgguggccauggaagucgga
auccgcuaaggaguguguaacaacucaccugccgaaucaacuagcccuga
aaauggauggcgcuggagcgucgggcccauacccggccgucgccggcagu
cgagaguggacgggagcggcgcgcggacgcuacgccgcgacgaguaggag
ggccgcugcggugagccuugaagccuagggcgcgggcccggguggagccg
ccgcaggugcagaucuuggugguaguagcaaauauucaaacgagaacuuu
gaaggccgaaguggagaaggguuccaugugaacagcaguugaacaugggu
cagucgguccugagagaugggcgagcgccguuccgaagggacgggcgagc
ccucgaucgaaagggagucggguucagauccccgaauccggaguggcgga
gaugggcgccgcgaggcguccagugcgguaacgcgaccgaucccggagaa
gccggcgggagccccggggagaguucucuuuucuuugugaagggcagggc
gcccuggaauggguucgccccgagagaggggcccgugccuuggaaagcgu
cgcgguuccggcggcguccggugagcucucgcuggcccuugaaaauccgg
gggagaggguguaaaucucgcgccgggccguacccauauccgcagcaggu
cuccaaggugaacagccucuggcauguuggaacaauguagguaagggaag
ucggcaagccggauccguaacuucgggauaaggauuggcucuaagggcug
ggucggucgcggccggcgccuagcagccgacuuagaacuggugcggacca
ggggaauccgacuguuuaauuaaaacaaagcaucgcgaaggcccgcggcg
gguguugacgcgaugugauuucugcccagugcucugaaugucaaagugaa
gaaauucaaugaagcgcggguaaacggcaagugaacgagauucccacugu
cccuaccuacuauccagcgaaaccacagccaagggaacgggcuuggcgga
aucagcggggaaagaagacccuguugagcuugacucuagucuggcacggu
gaaguuuuuucacugacccggugaggcggggggcuucuggcgccaagcgc
ccggccgcgcgccggccgggcgcgacccgcuccggggacagugccaggug
gggaguuugacuguacaccugucaaacgguaacgcagguguccuaaggcg
agcucagggaggacagaaaccucccguggagcagaagggcaaaagcucgc
uugaucuugauuuucaguacgaauacagaccgugaaagcggggccucacg
auccuucugaccuuuuggguuuuaagcaggaggugucagaaaaguuacca
cagggaucuuguggcggccaagcgagcgacgucgcuuuuuggaugucggc
ucuuccuaucauugugaagcagaauucaccaagcguuggauuguucaccc
acuaauagggaacgugagcuggguuuagaccgucgugagacagguuaguu
uuacccuacugaugauguguuguugccaugguaauccugcucaguacgag
aggaaccgcagguucagacauuugguguaugugcuuggcugaggagccaa
uggggcgaagcuaccaucugugggauuaugacugaacgccucuaagucag
aaucccgcccaggcggaacgauagcgccgcggagccucgguuggccucgg
auagccgguccccgggguccggugcggagugcccuucguccugggaaacg
gggcgcggccggagaggcggccgcccccucgcccgucacgcaccgcacgu
ucguggggaaccuggcgcuaaaccauucguagacgaccugcuucuggguc
gggguuucguacguagcagagcagcucccucgcugcgaucuauugaaagu
cagcccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8flc Principles of human pre-60 S biogenesis.
• Resolution: 2.76 Å
• Binding residue (original residue number in PDB): P2 S3 R4 R6 K7 T8 R9 K10 R12 G13 H14 V15 S16 H17 G18 G20 R21 I22 R26 K27 G31 R32 G33 N34 G36 H39 H40 H41 R42 I43 N44 Y52 F53 G54 K55 V56 G57 M58 K59 H60 Y61 H62 L63 R65 N66 T72 N74 K77 S83 Q85 T86 D102 R105 K110 L112 G113 K114 G115 K116 S130 R131 R132
• Binding residue (residue number reindexed from 1): P1 S2 R3 R5 K6 T7 R8 K9 R11 G12 H13 V14 S15 H16 G17 G19 R20 I21 R25 K26 G30 R31 G32 N33 G35 H38 H39 H40 R41 I42 N43 Y51 F52 G53 K54 V55 G56 M57 K58 H59 Y60 H61 L62 R64 N65 T71 N73 K76 S82 Q84 T85 D101 R104 K109 L111 G112 K113 G114 K115 S129 R130 R131

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:0005654 nucleoplasm
• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8flc, PDBe:8flc, PDBj:8flc
• PDBsum: 8flc
• PubMed: 37410842
• UniProt: P46776|RL27A_HUMAN Large ribosomal subunit protein uL15 (Gene Name=RPL27A)