Structure of PDB 8fks Chain SA Binding Site BS02

Receptor Information
>8fks Chain SA (length=329) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ARPLISVYSEKGESSGKNVTLPAVFKAPIRPDIVNFVHTNLRKNNRQPYA
VSELAGHQAFGNMCRGGRMFAPTKTWRRWHRRVNTTQKRYAICSALAASA
LPALVMSKGHRIEEVPELPLVVEDKVEGYKKTKEAVLLLKKLKAWNDIKK
VYASQRMRAGKGKMRNRRRIQRRGPCIIYNEDNGIIKAFRNIPGITLLNV
SKLNILKLAPGGHVGRFCIWTESAFRKLDELYGTWRKAASLKSNYNLPMH
KMINTDLSRILKSPEIQRALRAPRKKIHRRVLKKNPLKNLRIMLKLNPYA
KTMRRNTILRQARNHKLRVDKAAAAAAAL
Ligand information
>8fks Chain L3 (length=1824) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gcgaccucagaucagacguggcgacccgcugaaagcauauuagucagcgg
aggagaagaaacuaaccaggauucccucaguaacggcgagugaacaggga
agagcccagcgccgaauccccgccccgggggcgcgggacauguggcguac
ggaagacccgcuccccggcgccgcucguggggggcccaaguccuucugau
cgaggcccagcccguggacggugugaggccgguagcggcccccggcgcgc
cgggcccgggucuucccggagucggguugcuugggaaugcagcccaaagc
gggugguccaucuaaggcuaaauaccggcacgagaccgauagucaacaag
uaccguaagggaaaguugaaaagaacuuugaagagagaguucaagagggc
gugaaaccguuaagaggacgggugggguccgcgcaguccgcccggaggau
ucaacccggcggcggccgccgccgggcgcauuuccaccgcggcggugcgc
cgcgaccggcuccgggacggcugggaaggcccggcggggaagguggcucg
ggcccgaguguuacagcccccccggcagcagcacucgccgaaucccgggg
ccgagggagcgccgcgcucuccggccgggccaggccacgcgagcgcacgg
ggucggcggcgacgucggcuacccacccgacccgucuacacggaccaagg
agucuaacacgugcgcgagucgggggcucgcacgaaagccgccguggcgc
aaggugggaucccgaggcgccgagggcgcaccaccggcccgucucgcccg
gggagguggagcacgagcgcacguguuaggacccgaaagauggugaacca
ucuaguagcugguucccuccgaaguuucccucaggauagcuggcgcucuc
cgcaguuuuauccgggguaagaagcccggcucgagccgggcguggaaugc
gagugccuagugggccacuuuugguaagcagaacuggcgcugcgggauga
accgaacgccggguuaaggcgcccgaugccgacgcucacccagaaaaggu
guugguugauauagacagcaggacgguggccauggaagucggaauccgcu
aaggaguguguaacaacucaccugccgaaucaacuagcccugaaaaugga
uggcgcuggagcgucgggcccauacccggccgucgccggcagucacgcua
cgccgcgacgaguaggagggccgcugcggugagccuugaagccuagggcg
cgggcccggguggagccgccgcaggugcagaucuuggugguaguagcaau
guuggaacaauguaggaccuacuauccagcgaaaccagccaagcuuggcu
cagcggggcuggcuuguggcggccaagcgcgacgucgcuuuuugauugug
aagcagaauucaccaacccuacugaugguuguugccaugguaauccugcu
caguacgagaggaaccgcagguucagacauuugguguaugugcuuggcug
aggagccaauggggcgaagcuaccaucugugggauuaugacugaacgccu
cuaagucagaaucccgcccaggcggaacgauagcgccgcggagccucggu
uggccucggauagccgguccccgggguccggugcggagugcccuucgucc
ugggaaacggggcgcggccggagaggcggccgcccccucgcccgucacgc
accgcacguucguggggaaccuggcgcuaaaccauucguagacgaccugc
ugggucgggguuucguacguagcagagcagcucccucgcugcgaucuauu
gaaagagcccucgacacgguuugu
........................<<<<<<...............>>>>>
.>.........<<....>>..<<<<<<.....<<.....>>....>>>>>
>..<<<...<<<<...<<<<<<<<<<.>>>>>>.>>>>.....>>>>...
<<<<<<<<<<...<<<<<<<<.<<.....<<<<<<<<....<<<<.....
.>>>>.....((......<<<.....))>>>...>.>>>>>>>.>>>>>>
>>>>..>>>>>>>>>>.......<<<<<<<........>>>>>>>.....
<<<<<<.>>>>>>..>>>................................
..<<....>>...............<<<<....>>>>.............
..................<<<<<<<<..<<<.<<...<<<<<<<<.<<<.
....<<<<<<<<<<..>>>>>>>>>>......>>>.>>>.>>>>>...<<
<<<<<.<<<<<<<<<<<<<<<...<<..<<<.<<.<<<<......<<<<<
<..>>>>>>.......>>>>>>.>>>........>>>>>>..>>>>>>>>
>>>..........<<<<<<.<..>.<<<<<<.>>>>.>>.>>>>>>....
..>>.>>>>>...>>>>>...>>>>>>>>..<<<<....>>>><<<<<<.
...<<<<<<<<<<<<<..<<<...<<<<........>>>>.....>>>..
..<<<<<...<<<..<<<>>>..>>>....>>>>>.<<<<<<<<<.<<..
>>>>>>>>>.>>....>>>>>>>>>>>>>..<<.<...<<<<<<..>>>>
>>......>.>>..<<<<<<......<<<....>>>..<<.<<<<<<<..
.<<<.<<<<<<<<.>>>>>>...<<<<<<<<..>>>>>>>>....>>>>>
>>>>>>>..>>..<<<<.<<<<<...[[>>>>>.>>>>....<<<.....
.>>>...<<<<<<<...<<<(((.......<<<<<....<<<....<<<.
<<<<<<<<<<.......<<<<<.<<<...<<.........>>...>>>..
.......<<......>>...>>>>>...>>>>>>>>>>>>>.....>>>.
.)))......>>>>>..>>>...>>>>>>><<<<<<.<<<..........
.>>>>>>>>>....>>>>>>.<.<<<<<<<<.<<......<<<<.<<<<.
...>>>>>>>>...>>>>>>>>>>..>.....>>>>>><<.....<....
..<<<<.....<<<<<.>>>>>..>>>>.>....>>.<<<<<<>>>>>><
<<<.<<<<]].......<<<<<<...<..>...>>>>>>........<<<
<<......>>>>>...>>>>.>>>>..<<<<<<.<..<<<..<.<<<<<.
................>>>>>.><<<<....<<<<...<.<..<<<<<<.
...>>>>>>....>...>>>>>...>>>><<<<<...<<<<<........
...>>>>>...>>>>>.>>>...>.>>>>>>.<<<<<<.<<..<<<<...
.<<<........<<<<<.<<<<>>>>.>>>>>.......>>>...<<<..
<<<<....<<<<.<<<<<<<......>>>>>>>>>>>...>>>>..>>>.
.............>>>>..>>>>>>>>.<<<<<.<.............>.
...<<<<<<<<<<.....<<<<....<<<<<......>>>>>...>>>>.
...>>.>>>>>.>>>..>>>>>..
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8fks Principles of human pre-60 S biogenesis.
Resolution2.88 Å
Binding residue
(original residue number in PDB)
R33 N38 F39 T42 R45 K46 N47 R49 Q50 Y52 S55 A58 N94 M95 R97 G98 R100 M101 F102 A103 K106 W108 R109 R110 R114 N116 T118 Q119 K120 R121 K140 K163 T164 K165 K182 Y184 R188 R190 A191 G192 K193 K195 R197 R199 R201 R204 R205 K219 R222 N223 N236 P242 G243 H245 K274 S275 L293 K294 R303 P305 R306 K307 H310 R311 R312 V313 L314 K316 K320 N321 R323 L326 R336 T339 Q343 N346 H347 R350
Binding residue
(residue number reindexed from 1)
R30 N35 F36 T39 R42 K43 N44 R46 Q47 Y49 S52 A55 N62 M63 R65 G66 R68 M69 F70 A71 K74 W76 R77 R78 R82 N84 T86 Q87 K88 R89 K108 K131 T132 K133 K150 Y152 R156 R158 A159 G160 K161 K163 R165 R167 R169 R172 R173 K187 R190 N191 N204 P210 G211 H213 K242 S243 L261 K262 R271 P273 R274 K275 H278 R279 R280 V281 L282 K284 K288 N289 R291 L294 R304 T307 Q311 N314 H315 R318
Enzymatic activity
Enzyme Commision number ?
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:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005791 rough endoplasmic reticulum
GO:0005829 cytosol
GO:0005840 ribosome
GO:0005925 focal adhesion
GO:0016020 membrane
GO:0022625 cytosolic large ribosomal subunit
GO:0022626 cytosolic ribosome
GO:0070062 extracellular exosome
GO:1990904 ribonucleoprotein complex

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Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:8fks, PDBe:8fks, PDBj:8fks
PDBsum8fks
PubMed37410842
UniProtP36578|RL4_HUMAN Large ribosomal subunit protein uL4 (Gene Name=RPL4)

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