Structure of PDB 6lu8 Chain a Binding Site BS01

Receptor Information

>6lu8 Chain a (length=148) Species: 9606 (Homo sapiens)

SMLRLQKRLASSVLRCGKKKVWLDPNETNEIANANSRQQIRKLIKDGLII
RKPVTVHSRARCRKNTLARRKGRHMGIGKRKGTANARMPEKVTWMRRMRI
LRRLLRRYRESKKIDRHMYHSLYLKVKGNVFKNKRILMEHIHKLKADK

Ligand information

>6lu8 Chain 2 (length=3477)

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
cgacgcccgccacgcaguuuuauccgguaaagcuuaaauggguaagaagc
ccggcucgcuggcguggagccgggcguggaaugcgagugccuagugggcc
acuuuugguaacagaacuggcgcugcgggaugaaccgaacgccggguuaa
ggcgcccgaugccgacgcucaucagaccccagaaaagguguugguugaua
uagacagcaggaucaccugccgaaucaacuagcccugaaaauggauggcg
cuggagcgucgggcccauacccggccgucgccggcagucgagaguggacg
ggagcggcggcccggagccccgcggacgcuacgccgcgacgaguaggagg
gccgcugcggugagccuugaagccuagggcgcgggcccggguggagccgc
cgcaggugcagaucuuggugguaguagcaaauauucaaacgagaacuuug
aaggccgaaguggagaaggguuccaugugaacagcaguugaacauggguc
agucgguccugagagaugggcgagcgccguuccgaagggacgggcgaugg
ccuccguugcccucggccgaucgaaagggagucggguucagauccccgaa
uccggaguggcggagaugggcgccgcgaggcguccagugcgguaacgcga
ccgaucccggagaagccggcgggagccccggggagaguucucuuuucuuu
gugaagggcagggcgcccuggaauggguucgccccgagagaggggcccgu
gccuuggaaagcgucgcgguuccggcggcguccggugagcucucgcuggc
ccuugaaaauccgggggagaggguguaaaucucgcgccgggccguaccca
uauccgcagcaggucuccaaggugaacagccucuggcauguuggaacaau
guagguaagggaagucggcaagccggauccguaacuucgggauaaggauu
ggcucuaagggcugggucggucgcggccggcgccuagcagccgacuuaga
acuggugcggaccaggggaauccgacuguuuaauuaaaacaaagcaucgc
gaaggcccgcggcggguguugacgcgaugugauuucugcccagugcucug
aaugucaaagugaagaaauucaaugaagcgcggguaaacggcaagguagc
augaacgagauucccacugucccuaccuacuauccagcgaaaccacagcc
aagggaacgggcuuggcggaaucagcggggaaagaagacccuguugagcu
ugacucuagucuggcacggugaaguuuucacugacccggugaggcggggg
ggcgagccccgaggggcucucgcuucuggcgccaagcgcccggccgcgcg
ccggccgggcgcgacccgcuccggggacagugccagguggggaguuugac
uggggcgguacaccugucaaacgguaacgcagguguccuaaggcgagcuc
agggaggacagaaaccucccguggagcagaagggcaaaagcucgcuugau
cuugauuuucaguacgaauacagaccgugaaagcggggccucacgauccu
ucugaccuuuuggguuuuaagcaggaggugucagaaaaguuaccacaggg
auauuguggcggccaagcguucauagcgacgucgcugaugucggcucuuc
cuaucauugugaagcagaauucaccaagcguuggauuguucacccacuaa
uagggaacgugagcuggguuuagaccgucgugagacagguuaguuuuacc
cuacugaugauguguuguugccaugguaauccugcucaguacgagaggaa
ccgcagguucagacauuugguguaugugcuuggcugaggagccaaugggg
cgaagcuaccaucugugggauuaugacugaacgccucuaagucagaaucc
cgcccaggcggaacgauacggcagcgccgcggagccucgguuggccucgg
auagccggucccccgccgggguccggugcggagugcccuucguccuggga
aacggggcgcggccggagaggcggccgcccccucgcccgucacgcaccgc
acguucguggggaaccuggcgcuaaaccauucguagacgaccugcuucug
ggucgggguuucguacguagcagagcagcucccucgcugcgaucuauuga
aagucagcccucgacacaaggguuugu

.........................<<<<<<.....<......>......
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>>>>>>..<<<..<<<<<...<<<<<<<<<<.....>>>>>>.>>>>...
..>>>>>..<<<<<<<<<<...<<.<<<<<........<<<<<<<<....
<<<<......>>>>.....((......<<<.....))>>>...>.>>>>>
>>...>>>>>.>>..>>>>>>>>>>.......<<<<<<<........>>>
>>>>.....<<<<<..((((((>>>>>..>>>..................
................<<....>>...............<<<......>>
>..................................<<<<<<<<..<<<.<
....<<<<<<<<.<<<.....<<<<<<<<<<<..<<<<<<<...<...<<
....<<<<.<<<..<<.<..>.>>>>>>>>>>>...>..>>>>...>>>>
>>>>>>>>>>......>>>.>>>.>>>>>...<<<<<<<<<<<<<<<<<<
<<<<<...<<..<<<.<<.<<<<......<<<<<<<<..>>>>>>>>...
....>>>>.>>>>>........>>>>>>..>>>>>>>>>>>.........
...........<<<<<<.<<<<<<<............>>>>>>>.<<<<<
<.<<<<.<<<<<<<<<<.<<<<<<.<<<<<.<...........>..>>>>
>.>>>>>.>.>>>>>>>.>>>...>>>>..>>>>.>>..<<<<<<<<<..
.....>>>>>>>.>>....>>>>>>.....>>>.>>>>>....>>>>...
>>>>>>>>..<<<<........>>>><<<<<<....<<<<<<<<<<<<<.
.<<<...<<<<........>>>>.....>>>...<<....>>...<<<<<
<<......>>>>>>>..<<<<<...<<<..<<<..((((.((((>>>..>
>>....>>>>>.<<<<<<<<<.<<<<......>>>>>>>>>>>.>>....
>>>>>>>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<<<...
.<<<<<<<....>>>>>>>.....>>>...<<<..<<.<<........>>
>>.>>>....>>>>>>>>>...<<.......>>......>>>>>>...>.
.>.>>..<<<<<<....<.<<<....>>>.><<.<<<<<<<.........
.............<<<.<<<<<<<<....<<..>>....>>>>>>...<<
<<<<<<<.........>>>>>>>>>....>>>>>>>>>>>>..>>..<<<
<.<<<<<....>>>>>.>>>>....<<<......>>>...<<<<<<<...
<<<(((.......<<<<<.....<<..........<<<.<<<<<<<<<<.
......<<<<<....>>>>>...>>>>>>>>>>>>>..{.......))).
>>...>>>>>..>>>...>>>>>>><<<<<<.<<<..........)))).
))))............................>>>>>>>>>....>>>>>
>.<.<<<<<<<<.<<......<<<<.<<<<....>>>>>>>>...>>>>>
>>>>>..>.....>>>>>><<.....<<.....<<<<<<.......>>>>
>>.<<<.....<<<<<.<<...<<<<<....<<.....>>..>>>>>...
.((<<<<<<...<<....<<<....>>>..........<<.<<<<...<<
...>>...>>>>>>......>>....>>>..<<<<<........>>>>>)
)<<<<....<<<<<...<<<<.<<....>>.>>>>...<<<....>>>..
.<..<<<<<<<...<<<<<<<<<<<<.<<<<<<<<<<..[[[..>>>>>>
....<<<<<.<<<<.<<<<.....<<<.....>>>.....>>>>>>>>..
>>>>>.....<<<<<<<.......>>>>>>>>>>>...>>>>>>>>>>>>
.........>>>>>>>..>..........>>.>>>.>>>>.>>>..>>..
...<<......>>>>>>>.<<<<.....>>>>..>>>....<<<<.....
<<<<<<<.<<.........<.....<<<<<....<<..>>.....>>>>>
<<.<<<<<<<<<<<...<..........>........>>>>>..>>>>>>
.>>............<<<<<<<<<..<<<.........>>>..<<<<<<<
....<<<<.....>>>>......>>>>>>>...<...<<<..<<<<<<..
..<<<.....<<<<....>>>>.....>>>.>>>>..>>>>>........
>....>>.>>>>>>>..>..>>.>>>>>>>..>>>>>>....>>....<<
<<<........>>>>>....<<<<<..<<<........<<<<<.<<<<<<
..<<<<<.<<<<<<<<<.<<<<<...>>>>>...<<<<<.....<<<<..
<.....<<....>>.....>...............<<<<<<<<<<.....
..>>>>>>>>>>..>>>>..>>>>>....>>>>>>>>>..>>>>>...<<
<.....>>>..<<<<<<...........>>>>>>..<<...<<<<<<<..
.<<<<<<.......>>>>>>.....<<.[.(((>>....>>>>>>>...<
<<.<<<<<.......>>>>.>>>><<<<....>>>>>>)))].....<<<
<<<<..<<<..)))))).>>>>>>>>>>.........>>>>..>>>>>>>
....}..<<<<<<...<<.......>>...>>>>>>((...<<<<.<<<<
<<..<.<.<<<<<......>>>>>...>.>.<<<.....))..>>>....
.>>>>>..>...>>>>......<<<<<<<....>>>.>>>>........>
>>.>>>>>.....<<<<<<.<..<<<..<.<<<<<...............
..>>>>>.><<<<....<<<<....<<.<<<<<<.]]]..>>>>..>>.>
>...>>>>...>>>><<<<<...<<<<<...........>>>>>...>>>
>>.>>>...>.>>>>>>.....<<<<<<<.<<..<<<<....<<<.....
...<<<<<.<<<<....>>>>.>>>>>.......>>>...<<<..<<<<.
...<<<<.<<<<<<<......>>>>>>>>>>>...>>>>..>>>......
........>>>>..>>>>>>>>><<<<<.<.............>....<<
.<<<<<<<.<<.....<<<<.<..<<<<<......>>>>>..>>>>>...
.>>....>>>>.>>>.>>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6lu8 Structural snapshots of human pre-60S ribosomal particles before and after nuclear export.
• Resolution: 3.13 Å
• Binding residue (original residue number in PDB): M3 R5 K8 R9 G18 K19 K20 K21 W23 L24 P26 S37 R38 Q39 R42 K46 T56 H58 S59 R60 R62 C63 R64 R71 R74 H75 M76 I78 G79 K80 R81 K82 G83 T84 N86 A87 R88 K92 W95 M96 R97 R100 I101 R103 R104 R107 R108 R110 K114 R117 H118 Y120 H121 Y124 L125 K128 G129 N134 K135 E140 H143
• Binding residue (residue number reindexed from 1): M2 R4 K7 R8 G17 K18 K19 K20 W22 L23 P25 S36 R37 Q38 R41 K45 T55 H57 S58 R59 R61 C62 R63 R70 R73 H74 M75 I77 G78 K79 R80 K81 G82 T83 N85 A86 R87 K91 W94 M95 R96 R99 I100 R102 R103 R106 R107 R109 K113 R116 H117 Y119 H120 Y123 L124 K127 G128 N133 K134 E139 H142

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:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005925 focal adhesion
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0045202 synapse
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6lu8, PDBe:6lu8, PDBj:6lu8
• PDBsum: 6lu8
• PubMed: 32669547
• UniProt: P84098|RL19_HUMAN Large ribosomal subunit protein eL19 (Gene Name=RPL19)