Structure of PDB 6olz Chain Ao Binding Site BS01

Receptor Information

>6olz Chain Ao (length=105) Species: 9606 (Homo sapiens)

VNVPKTRRTFCKKCGKHQPHKVTQYKKGKDSLYAQGKRRYDRKQSGYGGQ
TKPIFRKKAKTTKKIVLRLECVEPNCRSKRMLAIKRCKHFELGGDKKRKG
QVIQF

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): V2 N3 P5 R8 R9 T10 F11 K13 G16 H18 Y26 K28 D31 S32 Y34 Q36 G37 R39 R40 R43 K44 Y48 Q51 T52 K53 P54 I55 F56 R57 K58 A60 K61 T63 K80 R81 L83 K86 R87 C88 K89 K97 K98 K100
• Binding residue (residue number reindexed from 1): V1 N2 P4 R7 R8 T9 F10 K12 G15 H17 Y25 K27 D30 S31 Y33 Q35 G36 R38 R39 R42 K43 Y47 Q50 T51 K52 P53 I54 F55 R56 K57 A59 K60 T62 K79 R80 L82 K85 R86 C87 K88 K96 K97 K99

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:0005783 endoplasmic reticulum
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005886 plasma membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6olz, PDBe:6olz, PDBj:6olz
• PDBsum: 6olz
• PubMed: 31160784
• UniProt: P83881|RL36A_HUMAN Large ribosomal subunit protein eL42 (Gene Name=RPL36A)