Structure of PDB 6olz Chain Ap Binding Site BS01

Receptor Information

>6olz Chain Ap (length=91) Species: 9606 (Homo sapiens)

AKRTKKVGIVGKYGTRYGASLRKMVKKIEISQHAKYTCSFCGKTKMKRRA
VGIWHCGSCMKTVAGGAWTYNTTSAVTVKSAIRRLKELKDQ

Ligand information

>6olz Chain A2 (length=3643)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggaaaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccgcggggcgcgggacaugug
gcguacggaagacccgcuccccggcgccgcucguggggggcccaaguccu
ucugaucgaggcccagcccguggacggugugaggccgguagcggcccccg
gcgcgcgcccgggucuucccggagucggguugcuugggaaugcagcccaa
agcgggugguaaacuccaucuaaggcuaaauaccggcacgagaccgauag
ucaacaaguaccguaagggaaaguugaaaagaacuuugaagagagaguuc
aagagggcgugaaaccguuaagagguaaacgggugggguccgcgcagucc
gcccggaggauucaacccggcggcggguccggccgugucggcggcccggc
ggaucuuucccgcccccggggucggcgggggaccgucccccggaccggcg
accggccgccgccgggcgcauuuccaggcggugcgccgcgaccggcuccg
ggacggcugggaaggcccggcggggaagguggcucggggcccccgagugu
uacagcccccccggcagcagcacucgccgaaucccggggccgagggaagc
gagacgucgccgcgcucuccccccugggggggccgggccaccccucccac
ggcgcgaccgcucucccagggggcggggcggacuguccccagugcgcccc
gggcgggucgcgccgucgggcccggggggccacgcgcgcgucccgggacg
gcggagcgagcgcacggggucggcggcgacgucggcuacccacccgaccc
gucuugaaacacggaccaaggagucuaacacgugcgcgagucgggggcuc
gcacgaaagccgccguggcgcaaugaaggugaaggccggcgcgcucgccg
gccgaggugggaucccgaggccucuccaguccgccgaggggcaccaccgg
cccgucucgcccgccgcgccggggagguggagcacgagcgcacguguuag
gacccgaaagauggugaacuaugccugggcagggcgaagccagaggaaac
ucugguggagguccguagcgguccugacgugcaaaucggucguccgaccu
ggguauaggggcgaaagacuaaucgaaccaucuaguagcugguucccucc
gaaguuucccucaggauagcuggcgcucucgcccacgcaguuuuauccgg
uaaagcgaaugauuagaggucuuggggccgaaacgaucucaaccuauucu
caaacuuuaaauggguaagaagcccggcucgcuggcguggagccggggug
gaaugcgagugccuagugggccacuuuugguaagcagaacuggcgcugcg
ggaugaaccgaacgccggguuaaggcgcccgaugccgacgcucaucagac
cccagaaaagguguugguugauauagacagcaggacgguggccauggaag
ucggaauccgcuaaggaguguguaacaacucaccugccgaaucaacuagc
ccugaaaauggauggcgcuggagcgucgggcccauacccggccgucgccg
gcgucgagaguggacgggagcggcggcccgcccgcggacgcuacgccgcg
acgaguaggagggccgcugcggugagccuugaagccuagggcgcgggccc
ggguggagccgccgcaggugcagaucuuggugguaguagcaaauauucaa
acgagaacuuugaaggccgaaguggagaaggguuccaugugaacagcagu
ugaacaugggucagucgguccugagagaugggcgagcgccguuccgaagg
gacgggcgauggccuccguugcccucggccgaucgaaagggagucggguu
cagauccccgaauccggaguggcggagaugggcgccgcgaggcguccagu
gcgguaacgcgaccgaucccggagaagccggcgggagccccggggagagu
ucucuuuucuuugugaagggcagggcgcccuggaauggguucgccccgag
agaggggcccgugccuuggaaagcgucgcgguuccggcggcguccgguga
gcucucgcuggcccuugaaaauccgggggagaggguguaaaucucgcgcc
gggccguacccauauccgcagcaggucuccaaggugaacagccucuggca
uguuggaacaauguagguaagggaagucggcaagccggauccguaacuuc
gggauaaggauuggcucuaagggcuggcagccgacuuagaacuggugcgg
accaggggaauccgacuguuuaauuaaaacaaagcaucgcgaaggcccgc
ggcggguguugacgcgaugugauuucugcccagugcucugaaugucaaag
ugaagaaauucaaugaagcgcggguaaacggcgggaguaacuaugacucu
cuuaagguagccaaaugccucgucaucuaauuagugacgcgcaugaaugg
augaacgagauucccacugucccuaccuacuauccagcgaaaccacagcc
aagggaacgggcuuggcggaaucagcggggaaagaagacccuguugagcu
ugacucuagucuggcacggugaagagacaugauagaauaagugggaggcc
cgggccgccggugaaauaccacuacucugaucguuuuuucacugacccgg
ugaggcgggggggcgagcccgaggggcucucgcuucuggcgccaagcgcc
cgcccggccgggcgcgacccgcuccggggacagugccagguggggaguuu
gacuggggcgguacaccugucaaacgguaacgcagguguccuaaggcgag
cucagggaggacagaaaccucccguggagcagaagggcaaaagcucgcuu
gaucuugauuuucaguacgaauacagaccgugaaagcggggccucacgau
ccuucugaccuuuuggguuuuaagcaggaggugucagaaaaguuaccaca
gggauaacuggcuuguggcggccaagcguucauagcgacgucgcuuuuug
auccuucgaugucggcucuuccuaucauugugaagcagaauucgccaagc
guuggauuguucacccacuaauagggaacgugagcuggguuuagaccguc
gugagacagguuaguuuuacccuacugaugauguguuguugccaugguaa
uccugcucaguacgagaggaaccgcagguucagacauuugguguaugugc
uuggcugaggagccaauggggcgaagcuaccaucugugggauuaugacug
aacgccucuaagucagaaucccgcccaggcggaacgauacggcagcgccg
cggagccucgguuggccucggauagccgguccgggguccggugcggagug
cccuucguccugggaaacggggcgcggccggaaaggcggccgcccccucg
cccgucacgcaccgcacguucguggggaaccuggcgcuaaaccauucgua
gacgaccugcuucugggucgggguuucguacguagcagagcagcucccuc
gcugcgaucuauugaaagucagcccucgacacaaggguuuguc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6olz Structural basis for selective stalling of human ribosome nascent chain complexes by a drug-like molecule.
• Resolution: 3.9 Å
• Binding residue (original residue number in PDB): K3 R4 T5 K6 K7 V8 G9 I10 G12 K13 Y14 G15 T16 R17 Y18 G19 A20 S21 R23 H34 F41 K46 K48 A51 V52 K62 W69
• Binding residue (residue number reindexed from 1): K2 R3 T4 K5 K6 V7 G8 I9 G11 K12 Y13 G14 T15 R16 Y17 G18 A19 S20 R22 H33 F40 K45 K47 A50 V51 K61 W68

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0046872 metal ion 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:0005925 focal adhesion
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0070062 extracellular exosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6olz, PDBe:6olz, PDBj:6olz
• PDBsum: 6olz
• PubMed: 31160784
• UniProt: P61513|RL37A_HUMAN Large ribosomal subunit protein eL43 (Gene Name=RPL37A)