Structure of PDB 8fla Chain LR Binding Site BS01

Receptor Information

>8fla Chain LR (length=112) Species: 9606 (Homo sapiens)

VQRLTYRRRLSYNTASNKTRLSRTPGNRIVYLYTKKVGKAPKSACGVCPG
RLRGVRAVRPKVLMRLSKTKKHVSRAYGGSMCAKCVRDRIKRAFLIEEQK
IVVKVLKAQAQS

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): R4 L5 T6 Y7 R8 R9 R10 L11 S12 Y13 N14 T15 S17 R24 T25 P26 G27 N28 Y34 K36 K37 K40 P42 A45 V48 R52 R54 G55 A58 R60 P61 K62 M65 R66 K69 T70 K72 H73 V74 S75 R76 Y78 G79 G80 R90 R93 A94 I97 Q100
• Binding residue (residue number reindexed from 1): R3 L4 T5 Y6 R7 R8 R9 L10 S11 Y12 N13 T14 S16 R23 T24 P25 G26 N27 Y33 K35 K36 K39 P41 A44 V47 R51 R53 G54 A57 R59 P60 K61 M64 R65 K68 T69 K71 H72 V73 S74 R75 Y77 G78 G79 R89 R92 A93 I96 Q99

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0045296 cadherin binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0045202 synapse
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8fla, PDBe:8fla, PDBj:8fla
• PDBsum: 8fla
• PubMed: 37410842
• UniProt: P49207|RL34_HUMAN Large ribosomal subunit protein eL34 (Gene Name=RPL34)