Structure of PDB 8fla Chain LE Binding Site BS01

Receptor Information

>8fla Chain LE (length=154) Species: 9606 (Homo sapiens)

TNTKGKRRGTRYMFSRPFRKHGVVPLATYMRIYKKGDIVDIKGMGTVQKG
MPHKCYHGKTGRVYNVTQHAVGIVVNKQVKGKILAKRINVRIEHIKHSKS
RDSFLKRVKENDQKKKEAKEWVQLKRQPAPPREAHFVRTNGKEPELLEPI
PYEF

Ligand information

>8fla Chain L3 (length=3420)

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
cagucgguccugagagaugggcgagcgccguuccgaagggacgggcgaug
gccuccggcccugaucgaaagggagucggguucagauccccgaauccgga
guggcggagaugggcgccgcgaggcguccagugcgguaacgcgaccgauc
ccggagaagccggcgggagccccggggagaguucucuuuucuuugugaag
ggcagggcgcccuggaauggguucgccccgagagaggggcccgugccuug
gaaagcgucgcgguuccggcggcguccggugagcucucgcuggcccuuga
aaauccgggggagaggguguaaaucucgcgccgggccguacccauauccg
cagcaggucuccaaggugaacagccucuggcauguuggaacaauguaggu
aagggaagucggcaagccggauccguaacuucgggauaaggauuggcucu
aagggcugggucggucgggcuggggcgcgaagcggggucccguggaucgc
cccagccggccggcgccuagcagccgacuuagaacuggugcggaccaggg
gaauccgacuguuuaauuaaaacaaagcaucgcgaaggcccgcggcgggu
guugacgcgaugugauuucugcccagugcucugaaugucaaagugaagaa
auucaaugaagcgcggguaaacggcaagugaacgagauucccacuguccc
uaccuacuauccagcgaaaccacagccaagggaacgggcuuggcggaauc
agcggggaaagaagacccuguugagcuugacucuagucuggcacggugaa
guuuuuucacugacccggugaggcggggggcuucuggcgccaagcgcccg
gccgcgcgccggccgggcgcgacccgcuccggggacagugccaggugggg
aguuugacuguacaccugucaaacgguaacgcagguguccuaaggcgagc
ucagggaggacagaaaccucccguggagcagaagggcaaaagcucgcuug
aucuugauuuucaguacgaauacagaccgugaaagcggggccucacgauc
cuucugaccuuuuggguuuuaagcaggaggugucagaaaaguuaccacag
ggaucuuguggcggccaagcgagcgacgucgcuuuuuggaugucggcucu
uccuaucauugugaagcagaauucaccaagcguuggauuguucacccacu
aauagggaacgugagcuggguuuagaccgucgugagacagguuaguuuua
cccuacugaugauguguuguugccaugguaauccugcucaguacgagagg
aaccgcagguucagacauuugguguaugugcuuggcugaggagccaaugg
ggcgaagcuaccaucugugggauuaugacugaacgccucuaagucagaau
cccgcccaggcggaacgauagcgccgcggagccucgguuggccucggaua
gccgguccccgggguccggugcggagugcccuucguccugggaaacgggg
cgcggccggagaggcggccgcccccucgcccgucacgcaccgcacguucg
uggggaaccuggcgcuaaaccauucguagacgaccugcuucugggucggg
guuucguacguagcagagcagcucccucgcugcgaucuauugaaagucag
cccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8fla Principles of human pre-60 S biogenesis.
• Resolution: 2.63 Å
• Binding residue (original residue number in PDB): T2 N3 T4 K5 G6 K7 R8 R9 G10 R12 Y13 S16 H22 G23 K35 K43 G46 T47 Q49 G51 H54 K55 Y57 H58 G59 T61 T68 Q69 H70 N77 K78 V80 K81 L85 K87 R88 K100 S101 R102 F105 V109 N112 K116 V126 L128 K129 R130 F140 R142
• Binding residue (residue number reindexed from 1): T1 N2 T3 K4 G5 K6 R7 R8 G9 R11 Y12 S15 H21 G22 K34 K42 G45 T46 Q48 G50 H53 K54 Y56 H57 G58 T60 T67 Q68 H69 N76 K77 V79 K80 L84 K86 R87 K99 S100 R101 F104 V108 N111 K115 V122 L124 K125 R126 F136 R138

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:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0045202 synapse
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8fla, PDBe:8fla, PDBj:8fla
• PDBsum: 8fla
• PubMed: 37410842
• UniProt: P46778|RL21_HUMAN Large ribosomal subunit protein eL21 (Gene Name=RPL21)