Structure of PDB 8fkv Chain LA Binding Site BS02

Receptor Information

>8fkv Chain LA (length=160) Species: 9606 (Homo sapiens)

VRYSLDPENPTKSCKSRGSNLRVHFKNTRETAQAIKGMHIRKATKYLKDV
TLQKQCVPFRRYNGGVGRCAQAKQWGWTQGRWPKKSAEFLLHMLKNAESN
AELKGLDVDSLVIEHIQVNKAPKMSSPCHIEMILTEKEQIVPKPEEEVAQ
KKKISQKKLK

Ligand information

>8fkv Chain L3 (length=2213)

gcgaccucagaucagacguggcgacccgcugaaagcauauuagucagcgg
aggagaagaaacuaaccaggauucccucaguaacggcgagugaacaggga
agagcccagcgccgaauccccgccccgggggcgcgggacauguggcguac
ggaagacccgcuccccggcgccgcucguggggggcccaaguccuucugau
cgaggcccagcccguggacggugugaggccgguagcggcccccggcgcgc
cgggcccgggucuucccggagucggguugcuugggaaugcagcccaaagc
gggugguccaucuaaggcuaaauaccggcacgagaccgauagucaacaag
uaccguaagggaaaguugaaaagaacuuugaagagagaguucaagagggc
gugaaaccguuaagaggaacgggugggguccgcgcaguccgcccggagga
uucaacccggcggcgccgggcgcauuuccaccgcggcggugcgccgcgac
cggcuccgggacggcugggaaggcccggcggggaagguggcucgggcccg
aguguuacagcccccccggcagcagcacucgccgaaucccggggccgguc
ggcggcgacgucggcuacccacccgacccgucuugaaacacggaccaagg
agucuaacacgugcgcgagucgggggcucgcacgaaagccgccguggcgc
aaggugggaucccgaggcccaguccgccgagggcgcaccaccggccgcac
gagcgcacguguuaggacccgaaagauggugaaaccaucuaguagcuggu
ucccuccgaaguuucccggauagcuggcgcucuccgcaguuuuauccggu
ggguaagaagccggcguggaaugcgagugccuagugggccacuuuuggua
agcagaacuggcgcugcgggaugaaccgaacgccggguuaaggcgcccga
ugccgacgcucaucagaccccagaaaagguguugguugauauagacagca
ggacgguggccauggaagucggaauccgcuaaggaguguguaacaacuca
ccugccgaaucaacuagcccugaaaauggauggcgcuggagcgucgggcc
cauacccggccgucgccggcagucgagaguggacggccgcggacgcuacg
ccgcgacgaguaggagggccgcugcggugagccuugaagccuagggcgcg
ggcccggguggagccgccgcaggugcagaucuuggugguaguagcauuca
aacgagaacuuugaaggccgaaguggagaaggggcgauggccuccggccc
ucgcggagaugggcgccgcgaggcguccagugaaucucgcccgcagcagg
ucuccggugaacagccucuggcaauguagguaagggaagucgggaauccg
auucccacugucccuaccuacuauccagcgaaaccacagccaagggaacg
ggcuuggcggaaucagcggggagaagacccuguugagcuugacucuaguc
uggcacggugaagagacaugagagguguagaauaagugggaggcggccgc
cggugaaauaccacuacucugaucguuuuuuccagugccagguggggagu
uauccuucugaccuuuuggguuuuaagcaggaggugucagaaaaguuacc
acagggauaacuggcuuguggcggccaagcgcgacgucgcuuuuugauga
ugucggcucuuccuaucauugugaagcagaauucaccaagcguuggauug
uucacccacuaauagggaacgugagcuggggaccgucgugagacagguuc
ccuacugaugguuguugccaugguaauccugcucaguacgagaggaaccg
cagguucagacauuugguggugcuuggcugaggagccaauggggcgaagc
uaccaucugugggauuaugacugaacgccucuaagucagaaucccgccca
ggcggaacgauaagcgccgcggagccucgguuggccucggauagccgguc
cccgggguccggugcggagugcccuucguccugggaaacggggcgcggcc
ggagaggcggccgcccccucgcccgucacgcaccgcacguucguggggaa
ccuggcgcuaaaccauucguagacgaccugcuucugggucgggguuucgu
acguagcagagcagcucccucgcugcgaucuauugaaagucagcccucga
cacaaggguuugu

........................<<<<<<...............>>>>>
.>.........<<....>>..<<<<<<.....<<.....>>....>>>>>
>..<<<..<<<<<...<<<<<<<<<<.>>>>>>.>>>>.....>>>>>..
<<<<<<<<<<...<<<<<<<<.<<.....<<<<<<<<....<<<<.....
.>>>>.....((......<<<.....))>>>...>.>>>>>>>.>>>>>>
>>>>..>>>>>>>>>>.......<<<<<<<........>>>>>>>.....
<<<<<<.>>>>>>..>>>................................
..<<....>>...............<<<<....>>>>.............
...................<<<<<<<<..<<<......<<<<<<<<.<<<
.....<<<<<<<.>>>>>>>......>>>.>>>.>>>>>..<<<<<<<<<
<<<<<<<<<<<<<<<...<<..<<<.<<.<<<<......<<<<<<..>>>
>>>.......>>>>>>.>>>........>>>>>>..>>>>>>>>>>>>>>
.>>>>>>....>>>...>>>>>>>>..<<<<.<....>.>>>><<<<<<.
...<<<<<<<<<<<<<..<<<...<<<<........>>>>.....>>>..
..<<<<<...<<<..<<.........>>..>>>....>>>>>.<<.>>..
..>>>>>>>>>>>>>..<<.<...<<<<<<...>>>>>>......>.>>.
.<<<<<<......<<<.>>>..<<.<<<<<<<...<<<.<<<<<<<<...
>>>>>>...<<..>>....>>>>>>>>>>>>..>>..<<<<.<<<<<...
..>>>>>.>>>>....<<<......>>>...<<<<<<<...<<<(((...
....<<<<<.....<<..........<<<.<<<<<<<<<<.....<.<<<
<<.<<....<<.........>>....>>.........<<......>>...
>>>>>.>.>>>>>>>>>>>>>..........))).>>...>>>>>..>>>
...>>>>>>><<<<<<.<<<.............<<..>>..........>
>>>>>>>>....>>>>>>...<<<<<<<<.<<......<<<<.<<<<...
.>>>>>>>>...>>>>>>>>>>........>>>>>><<.....<<.<<<<
<<.......>>>>>>.<<<<....<<<<...<<<<...........>>>>
..<<<<<...<<<<<<<....>>>>>>>......>>.>>><<......>>
.>>>><<<.....>>>..>>>>...<<<<<<.<<<<<<<<..<<<<<<.>
>>>>>.>>>.>>>>>>>>>>>......>>....>>...<<<<<<......
..>>>>>>....<<<<.<<<<......<<<<<<.<<<<<<.<<<<<.<<<
<<<<<<...<<<<<<<<<<.<<<<..........<<<<<..<<<.>>>..
..........>>>>>.>>>>.>>.>>>>>>>>..>>>>>>>>>..>>>>>
...<<<<<<<..<<<.........>>>>>>>>>>........>>>>>.>.
>>>>>>.............<<<<<<...<..>...>>>>>>.......((
...<<<<<<<<<<<..<.<.<<<<<......>>>>>...>.>.<<<....
.))..>>>.....>>>>>....>>>>>>..<<<<<<<....>>>.>>>>>
>>>.>>>>..<<<<<<.<..<<<..<.<<<<<.................>
>>>>.><<<<....<<<<.<<.<<<<<<<....>>>>>..>>.>>...>>
>>...>>>><<<<<...<<<<<...........>>>>>...>>>>>.>>>
...>.>>>>>>.<<<<<<<.<<..<<<<....<<<........<<<<<.<
<<<>>>>.>>>>>.......>>>...<<<..<<<<....<<<<.<<<<<<
<......>>>>>>>>>>>...>>>>..>>>..............>>>>..
>>>>>>>>><<<<<.<.............>....<<.<<<<<<<.<<...
..<<<<....<<<<<......>>>>>...>>>>....>>....>>>>.>>
>.>>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8fkv Principles of human pre-60 S biogenesis.
• Resolution: 2.47 Å
• Binding residue (original residue number in PDB): R3 Y4 R18 S20 H25 K27 R30 Q34 K37 K43 Q54 R62 Y63 G65 G66 R69 A71 K74 Q75 T79 Q80 R82 W83 K85 K86 H93 N97 S100 N101 Q118 V119 M140 S141 E162 K173
• Binding residue (residue number reindexed from 1): R2 Y3 R17 S19 H24 K26 R29 Q33 K36 K42 Q53 R61 Y62 G64 G65 R68 A70 K73 Q74 T78 Q79 R81 W82 K84 K85 H92 N96 S99 N100 Q117 V118 M124 S125 E146 K157

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:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8fkv, PDBe:8fkv, PDBj:8fkv
• PDBsum: 8fkv
• PubMed: 37410842
• UniProt: P18621|RL17_HUMAN Large ribosomal subunit protein uL22 (Gene Name=RPL17)