Structure of PDB 8fle Chain LV Binding Site BS01

Receptor Information

>8fle Chain LV (length=104) Species: 9606 (Homo sapiens)

VNVPKTRRTFCKKCGKHQPHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQ
TKPIFRKKAKTTKKIVLRLECVEPNCRSKRMLAIKRCKHFELGGDKKRKG
QVIQ

Ligand information

>8fle Chain L3 (length=3372)

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
cgaaugauuagagguaccuauucucaaacuuuaaauggguaagaagcccg
gcucgcuggcguggagccgggcguggaaugcgagugccuagugggccacu
uuugcagaacuggcgcugcgggaugaaccgaacgccggguuaaggcgccc
gaugccgacgcucaucagaccccaaaagguguugguugauauagacagca
ggacgguccgcuaagaccugccgaaucaacuagcccugaaaauggauggc
gcuggagcgucgggcccauacccggccgucgccggcagucgagaguggac
gggagcggcgcgcggacgcuacgccgcgacgaguaggagggccgcugcgg
ugagccuugaagccuagggcgcgggcccggguggagccgccgcaggugca
gaucuuggugguaguagcaaauauucaaacgagaacuuugaaggccgaag
uggagaaggguuccaugugaacagcaguugaacaugggucagucgguccu
gagagaugggcgagcgccguuccgaagggacgggcgauggccuccggccc
ugaucgaaagggagucggguucagauccccgaauccggaguggcggagau
gggcgccgcgaggcguccagugcgguaacgcgaccgaucccggagaagcc
ggcgggagccccggggagaguucucuuuucuuugugaagggcagggcgcc
cuggaauggguucgccccgagagaggggcccgugccuuggaaagcgucgc
gguuccggcggcguccggugagcucucgcuggcccuugaaaauccggggg
agaggguguaaaucucgcgccgggccguacccauauccgcagcaggucuc
caaggugaacagccucuggcauguuggaacaauguagguaagggaagucg
gcaagccggauccguaacuucgggauaaggauuggcucuaagggcugggu
cggucgggcuggggcgcgaagcggggucccguggaucgccccagccggcc
ggcgccuagcagccgacuuagaacuggugcggaccaggggaauccgacug
uuuaauuaaaacaaagcaucgcgaaggcccgcggcggguguugacgcgau
gugauuucugcccagugcucugaaugucaaagugaagaaauucaaugaag
cgcggguaaacggcaagugaacgagauucccacugucccuaccuacuauc
cagcgaaaccacagccaaggcgggcuuggcggaaucagcggggaaagaag
acccuguugagcuugacucuagucuggcacggugaaguuuuuucacugac
ccggugaggcggggggcuucuggcgccaagcgcccggccgcgcgccggcc
gggcgcgacccgcuccggggacagugccagguggggaguuugacuguaca
ccugucaaacgguaacgcagguguccuaaggcgagcucagggaggacaga
aaccucccguggagcagaagggcaaaagcucgcuugaucuugauuuucag
uacgaauacagaccgugaaagcggggccucacgauccuucugaccuuuug
gguuuuaagcaggaggugucagaaaaguuaccacagggaugaugucggcu
cuuccuaucauugugaagcagaauucaccaagcguuggauuguucaccca
cuaauagggaacgugagcuggguuuagaccgucgugagacagguuaguuu
uacccuacugaugauguguuguugccaugguaauccugcucaguacgaga
ggaaccgcagguucagacauuugguguaugugcuuggcugaggagccaau
ggggcgaagcuaccaucugugggauuaugacugaacgccucuaagucaga
aucccgcccaggcggaacgauagcgccgcggagccucgguuggccucgga
uagccgguccccgggguccggugcggagugcccuucguccugggaaacgg
ggcgcggccggagaggcggccgcccccucgcccgucacgcaccgcacguu
cguggggaaccuggcgcuaaaccauucguagacgaccugcuucugggucg
ggguuucguacguagcagagcagcucccucgcugcgaucuauugaaaguc
agcccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8fle Principles of human pre-60S biogenesis
• Resolution: 2.48 Å
• Binding residue (original residue number in PDB): V2 N3 P5 R9 F11 K13 K14 G16 K17 H18 Y26 K28 G29 K30 D31 S32 Y34 A35 Q36 G37 R39 R40 R43 K44 G47 Y48 G50 Q51 K53 P54 I55 F56 K58 A60 K61 T63 K64 K65 K80 R81 M82 K86 R87 C88 K89 K97 K98
• Binding residue (residue number reindexed from 1): V1 N2 P4 R8 F10 K12 K13 G15 K16 H17 Y25 K27 G28 K29 D30 S31 Y33 A34 Q35 G36 R38 R39 R42 K43 G46 Y47 G49 Q50 K52 P53 I54 F55 K57 A59 K60 T62 K63 K64 K79 R80 M81 K85 R86 C87 K88 K96 K97

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:0005886 plasma membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8fle, PDBe:8fle, PDBj:8fle
• PDBsum: 8fle
• PubMed: 37410842
• UniProt: P83881|RL36A_HUMAN Large ribosomal subunit protein eL42 (Gene Name=RPL36A)