Structure of PDB 8fl2 Chain LT Binding Site BS01

Receptor Information

>8fl2 Chain LT (length=109) Species: 9606 (Homo sapiens)

SGRLWSKAIFAGYKRGLRNQREHTALLKIEGVYARDETEFYLGKRCAYVY
KAKNNTVTPGGKPNKTRVIWGKVTRAHGNSGMVRAKFRSNLPAKAIGHRI
RVMLYPSRI

Ligand information

>8fl2 Chain L3 (length=3495)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggagaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccggggcgcgggacauguggc
guacggaagacccgcuccccggcgccgcgggggcccaaguccuucugauc
gaggcccagcccguggacggugugaggccgguagcggcccccggcgcgcc
gggcccgggucuucccggagucggguugcuugggaaugcagcccaaagcg
ggugguaaacuccaucuaaggcuaaauaccggcacgagaccgauagucaa
caaguaccguaagggaaaguugaaaagaacuuugaagagagaguucaaga
gggcgugaaaccguuaagagguaaacgggugggguccgcgcaguccgccc
ggaggauucaacccggcggcggccggccgugucggcggcccggcggaucu
gggaccgucccccgaccggcgaccggccgccgccgggcgcauuuccaccg
cggcggugcgccgcgaccggcuccgggacggcugggaaggcccggcgggg
aagguggcucgggcccgaguguuacagcccccccggcagcagcacucgcc
gaaucccggggccgagggagucgccgcgcucuccccccggggggccgggc
caccccucccacggcgcgcgccgucgggcccggggggccacgcgcgcguc
ccccgaagagggggacggcggagcgagcgcacggggucggcggcgacguc
ggcuacccacccgacccgucuugaaacacggaccaaggagucuaacacgu
gcgcgagucgggggcucgcacgaaagccgccguggcgcaaugaaggugaa
ggccgcggccgaggugggaucccgaggcccgccgagggcgcaccaccggc
ccgucucgcccgccgcgccggggagguggagcacgagcgcacguguuagg
acccgaaagauggugaacuaugccugggcagggcgaagccagaggaaacu
cugguggagguccguagcgguccugacgugcaaaucggucguccgaccug
gguauaggggcgaaagacuaaucgaaccaucuaguagcugguucccuccg
aaguuucccucaggauagcuggcgcucuccgcaguuuuauccgguaaagc
gaaugauuagaggucuuggggccggaucucaaccuauucucggguaagaa
gcccggcucgcuggcguggagccgggcguggaaugcgagugccuaguggg
ccacuuuugguaagcagaacuggcgcugcgggaugaaccgaacgccgggu
uaaggcgcccgaugccgacgcucaucagaccccagaaaagguguugguug
auauagacagcaggacgguggccauggaagucggaauccgcuaaggagug
uguaacaacucaccugccgaaucaacuagcccugaaaauggauggcgcug
gagcgucgggcccauacccggccgucgccggcagugacgcuacgccgcga
cgaguaggagggccgcugcggugagccuugaagccuagggcgcgggcccg
gguggagccgccgcaggugcagaucuuggugguaguagcaaauauucaaa
cgagaacuuugaaggccgaaguggagaaggguuccaugugaacagcaguu
gaacaugggucagucgguccugagagaugggcgagcgccguuccgaaggg
acgggcgauggccuccggcccucgaucgaaagggagucggguucagaucc
ccgaauccggaguggcggagaugggcgccgcgaggcguccagugcgguaa
cgcgaccgaucccggagaagccggcgggagccccggggagaguucucuuu
ucuuugugaagggcagggcgcccuggaauggguucgccccgagagagggg
cccgugccuuggaaagcgucgcgguuccggcggcguccggugagcucucg
cuggcccuugaaaauccgggggagaggguguaaaucucgcgccgggccgu
acccauauccgcagcaggucuccaaggugaacagccucuggcauguugga
acaauguagguaagggaagucggcaagccggauccguaacuucgggauaa
ggauuggcucuaagggcugggucggucgggcuggggcgcgaagcgggguc
ccguggaucgccccagccggccggcgccuagcagccgacuuagaacuggu
gcggaccaggggaauccgacuguuuaauuaaaacaaagcaucgcgaaggc
ccgggguguugacgcgaugugauuucugcccagugcucugaaugucaaag
ugaagaaauucaaugaagcgcggguaaacggcgggaguaacuaugacucu
cuuaagguagccaaaugccucgucaugugacgcgcaugaauggaugaacg
agauucccacugucccuaccuacuauccagcgaaaccacagccaagggaa
cgggcuuggcggaaucagcggggaaagaagacccuguugagcuugacucu
agucuggcacggugaagagacaugagagguguagaauaagugggaggcgg
ccgccggugaaauaccacuacucugaucguuuuuucacugacccggugag
gcggggggcuucuggcgccaagcgcccggccgcgcgccggccgggcgcga
cccgcuccggggacagugccagguggggaguuugguacaccugucaaacg
guaacgcagguguccuaaggcgagcucagggaggacagaaaccucccgug
gagcagaagggcaaaagcucgcuugaucuugauuuuguacgaauacagac
cgugaaagcggggccucacccuucugaccuuuuggguuuuaagcaggagg
aaguuaccacagggauaacuggcuuguggcggccaagcgagcgacgucgc
uuuuugauccuucgaugucggcucuuccuaucauugugaagcagaauuca
ccaagcguuggauuguucacccacuaauagggaacgugagcuggguuuag
accgucgugagacagguuaguuuuacccuacugaugauguguuguugcca
ugguaauccugcucaguacgagaggaaccgcagguucagacauuuggugu
augugcuuggcugaggagccaauggggcgaagcuaccaucugugggauua
ugacugaacgccucuaagucagaaucccgcccaggcggaacgauagcgcc
gcggagccucgguuggccucggauagccgguccccgggguccggugcgga
gugcccuucguccugggaaacggggcgcggccggagaggcggccgccccc
ucgcccgucacgcaccgcacguucguggggaaccuggcgcuaaaccauuc
guagacgaccugcuucugggucgggguuucguacguagcagagcagcucc
cucgcugcgaucuauugaaagucagcccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8fl2 Principles of human pre-60 S biogenesis.
• Resolution: 2.67 Å
• Binding residue (original residue number in PDB): S2 G3 R4 W6 K8 R16 L18 R19 Q21 E23 H24 Y34 R36 G44 Y51 K52 K54 N55 V58 P60 R68 V69 W71 K73 R76 H78 G79 N80 S81 R85 K87 R89 S90 N91 L92 P93 A94 R100 R102 R109
• Binding residue (residue number reindexed from 1): S1 G2 R3 W5 K7 R15 L17 R18 Q20 E22 H23 Y33 R35 G43 Y50 K51 K53 N54 V57 P59 R67 V68 W70 K72 R75 H77 G78 N79 S80 R84 K86 R88 S89 N90 L91 P92 A93 R99 R101 R108

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006364 rRNA processing
• GO:0006412 translation
• GO:0042273 ribosomal large subunit biogenesis

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8fl2, PDBe:8fl2, PDBj:8fl2
• PDBsum: 8fl2
• PubMed: 37410842
• UniProt: P18077|RL35A_HUMAN Large ribosomal subunit protein eL33 (Gene Name=RPL35A)