Structure of PDB 6lsr Chain b Binding Site BS01

Receptor Information

>6lsr Chain b (length=175) Species: 9606 (Homo sapiens)

KASGTLREYKVVGRCLPTPKCHTPPLYRMRIFAPNHVVAKSRFWYFVSQL
KKMKKSSGEIVYCGQVFEKSPLRVKNFGIWLRYDSRSGTHNMYREYRDLT
TAGAVTQCYRDMGARHRARAHSIQIMKVEEIAASKCRRPAVKQFHDSKIK
FPLPHRVLRRQHKPRFTTKRPNTFF

Ligand information

>6lsr Chain 2 (length=3482)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggagaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccgcggcggggcgcgggacau
guggcguacggaagacccgcuccccggcgccgcucguggggggcccaagu
ccuucugaucgaggcccagcccguggacggugugaggccgguagcggccc
ccggcgcgccgggcccgggucuucccggagucggguugcuugggaaugca
gcccaaagcgggugguaaacuccaucuaaggcuaaauaccggcacgagac
cgauagucaacaaguaccguaagggaaaguugaaaagaacuuugaagaga
gaguucaagagggcgugaaaccguuaagagguaaacgggugggguccgcg
caguccgcccggaggauucaacccggcggcggguccggccgugucggcgg
cccggcggaucuuucccgcgcgggggaccgucccccgaccggcgaccggc
cgccgccgggcgcauuuccaccgcggcggugcgccgcgaccggcuccggg
acggcugggaaggcccggcggggaagguggcucgggggcccccgaguguu
acagcccccccggcagcagcacucgccgaaucccggggccgagggagcga
gacccgucgccgcgcucuccccccucccggcgcgccggggggggccgggc
caccccucccacggcgcgaccgcucggggcggacuguccccagugcgccc
cgggcgggucgcgccgucgggcccgggggaggccacgcgcgcgucccccg
aagagggggacggcggagcgagcgcacggggucggcggcgacgucggcua
cccacccgacccgucuugaaacacggaccaaggagucuaacacgugcgcg
agucgggggcucgcacgaaagccgccguggcgcaaugaaggugaaggccg
gcgcgcucgccggccgaggugggaucccgaggccucuccaguccgccgag
ggcgcaccaccggcccgucucgcccgccgcgccggggagguggagcacga
gcgcacguguuaggacccgaaagauggugaacuaugccugggcagggcga
agccagaggaaacucugguggagguccguagcgguccugacgugcaaauc
ggucguccgaccuggguauaggggcgaaagacuaaucgaaccaucuagua
gcugguucccuccgaaguuucccucaggauagcuggcgcucucgcagacc
cgacgcccgccacgcaguuuuauccgguaaagcgggccgaaacgaucucc
uuuaaauggguaagaagcccggcucgcuggcguggagccgggcguggaau
gcgagugccuagugggccacuuuugguaagcagaacuggcgcugcgggau
gaaccgaacgccggguuaaggcgcccgaugccgacgcucaucagacccca
gaaaagguguugguugauauagacagcgccgaaucaacuagcccugaaaa
uggauggcgcuggagcgucgggcccauacccggccgucgccggcagucga
gaguggacgggagcggcggcccggagccccgcggacgcuacgccgcgacg
aguaggagggccgcugcggugagccuugaagccuagggcgcgggcccggg
uggagccgccgcaggugcagaucuuggugguaguagcaaauauucaaacg
agaacuuugaaggccgaaguggagaaggguuccaugugaacagcaguuga
acaugggucagucgguccugagagaugggcgagcgccguuccgaagggac
gggcgauggccuccguugcccucggccgaucgaaagggagucggguucag
auccccgaauccggaguggcggagaugggcgccgcgaggcguccagugcg
guaacgcgaccgaucccggagaagccggcgggagccccggggagaguucu
cuuuucuuugugaagggcagggcgcccuggaauggguucgccccgagaga
ggggcccgugccuuggaaagcgucgcgggcggcguccggugagcucucgc
uggcccuugaaaauccgggggagaggguguaaaucucgcgccgggccgua
cccauauccgcagcaggucuccaaggugaacagccucuggcauguuggaa
caauguagguaagggaagucggcaagccggauccguaacuucgggauaag
gauuggcucuaagggcugcagccgacuuagaacuggugcggaccagggga
auccgacuguuuaauuaaaacaaagcaucgcgaaggcccgcggcgggugu
ugacgcgaugugauuucugcccagugcucugaaugucaaagugaagaaau
ucaaugaagcgcggguaaacggcgaagguagccaaaugccucgucaucua
auuagugacgcgcaugaauggaugaacgagauucccacugucccuaccua
cuauccagcgaaaccacagccaagggaacgggcuuggcggaaucagcggg
gaaagaagacccuguugagcuugacucuagucuggcacggugaagaguuu
ucacugacccggugaggcgggggggcgagccccgaggggcucucgcuucu
ggcgccaagcgcccggccgcgcgccggccgggcgcgacccgcuccgggga
cagugccagguggggaguuugacuggggcgguacaccugucaaacgguaa
cgcagguguccuaaggcgagcucagggaggacagaaaccucccguggagc
agaagggcaaaagcucgcuugaucuugauuuucaguacgaauacagaccg
ugaaagcggggccucacgauccuucugaccuuuuggguuuuaagcaggag
gugucagaaaaguuaccacagggauaacuggcugauccuucgaugucggc
ucuuccuaucauugugaagcagaauucaccaagcguuggauuguucaccc
acuaauagggaacgugagcuggguuuagaccgucgugagacagguuaguu
uuacccuacugaugauguguuguugccaugguaauccugcucaguacgag
aggaaccgcagguucagacauuugguguaugugcuuggcugaggagccaa
uggggcgaagcuaccaucugugggauuaugacugaacgccucuaagucag
aaucccgcccaggcggaacgauacggcagcgccgcggagccucgguuggc
cucggauagccggucccccgccgggguccggugcggagugcccuucgucc
ugggaaacggggcgcggccggagaggcggccgcccccucgcccgucacgc
accgcacguucguggggaaccuggcgcuaaaccauucguagacgaccugc
uucugggucgggguuucguacguagcagagcagcucccucgcugcgaucu
auugaaagucagcccucgacacaaggguuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6lsr Structural snapshots of human pre-60S ribosomal particles before and after nuclear export.
• Resolution: 3.13 Å
• Binding residue (original residue number in PDB): R8 Y63 Q66 F68 P72 R87 S88 H91 N92 M93 Y94 R98 R111 G114 A115 R116 H117 R118 R120 R139 F145 H146 D147 H156 R160 R161 H163 R166 T168 T169 K170 T174 F175 F176
• Binding residue (residue number reindexed from 1): R7 Y62 Q65 F67 P71 R86 S87 H90 N91 M92 Y93 R97 R110 G113 A114 R115 H116 R117 R119 R138 F144 H145 D146 H155 R159 R160 H162 R165 T167 T168 K169 T173 F174 F175

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:0005829 cytosol
• GO:0005840 ribosome
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6lsr, PDBe:6lsr, PDBj:6lsr
• PDBsum: 6lsr
• PubMed: 32669547
• UniProt: Q02543|RL18A_HUMAN Large ribosomal subunit protein eL20 (Gene Name=RPL18A)