Structure of PDB 8fks Chain L9 Binding Site BS02

Receptor Information

>8fks Chain L9 (length=183) Species: 9606 (Homo sapiens)

GAYKYIQELWRKKQSDVMRFLLRVRCWQYRQLSALHRAPRPTRPDKARRL
GYKAKQGYVIYRIRVRRGGQLKFARSLQSVAEERAGRHCGALRVLNSYWV
GEDSTYKFFEVILIDPFHKAIRRNPDTQWITKPVHKHREMRGLTSAGRKS
RGLGKGHKFHHTIGGSRRAAWRRRNTLQLHRYR

Ligand information

>8fks Chain L3 (length=1824)

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

Structure summary

• PDB: 8fks Principles of human pre-60 S biogenesis.
• Resolution: 2.88 Å
• Binding residue (original residue number in PDB): G2 Y4 Q8 R12 K14 Q15 P40 R41 R44 K47 R49 R50 K54 A55 K56 R68 K93 F94 A95 S97 A112 W120 F138 R144 W150 V155 H156 K157 H158 R162 L164 S166 S171 R172 K176 G177 H178 K179 H181 H182 I184 S187 R189 W192 R193 R194 R195 H201 R202 R204
• Binding residue (residue number reindexed from 1): G1 Y3 Q7 R11 K13 Q14 P39 R40 R43 K46 R48 R49 K53 A54 K55 R67 K72 F73 A74 S76 A91 W99 F117 R123 W129 V134 H135 K136 H137 R141 L143 S145 S150 R151 K155 G156 H157 K158 H160 H161 I163 S166 R168 W171 R172 R173 R174 H180 R181 R183

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
• GO:0045471 response to ethanol

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0031672 A band
• GO:0044391 ribosomal subunit
• GO:0045202 synapse
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8fks, PDBe:8fks, PDBj:8fks
• PDBsum: 8fks
• PubMed: 37410842
• UniProt: P61313|RL15_HUMAN Large ribosomal subunit protein eL15 (Gene Name=RPL15)