Structure of PDB 6n8n Chain f Binding Site BS01

Receptor Information

>6n8n Chain f (length=170) Species: 559292 (Saccharomyces cerevisiae S288C)

HFKEYQVIGRRLPTESVPEPKLFRMRIFASNEVIAKSRYWYFLQKLHKVK
KASGEIVSINQINEAHPTKVKNFGVWVRYDSRSGTHNMYKEIRDVSRVAA
VETLYQDMAARHRARFRSIHILKVAEIEKTADVKRQYVKQFLTKDLKFPL
PHRVQKSTKTFSYKRPSTFY

Ligand information

>6n8n Chain A (length=3203)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacggccagcaucagu
uuugguggcaggauaaauccauaggaauguagcuugccucgguaaguauu
auagccugugggaauacugccagcugggacugaggacugcgacguaaguc
aaggaugcuggcauaaugguuauaugccgcccgucuugaaacacggacca
aggagucuaacgucuaugcgaguguuuggguguaaaacccauacgcguaa
ugaaagugaacguagguuggggccucgcaagaggugcacaaucgaccgau
ccugaugucuucggauggauuugaguaagagcauagcuguugggacccga
aagauggugaacuaugccugaauagggugaagccagaggaaacucuggug
gaggcucguagcgguucugacgugcaaaucgaucgucgaauuuggguaua
ggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaaguuu
cccucaggauagcagaagcucguaucaguuuuaugagguaaagcgaauga
uuagagguuccggggucgaaaugaccuugaccuauucucaaacuuuaaau
auguaagaaguccuuguuacuuaauugaacguggacauuugaaugaagag
cuuuuagugggccauuuuugguaagcagaacuggcgaugcgggaugaacc
gaacguagaguuaaggugccggaauacacgcucaucagacaccacaaaag
guguuaguucaucuagacagccggacgguggccauggaagucggaauccg
cuaaggaguguguaacaacucaccggccgaaugaacuagcccugaaaaug
gauggcgcucaagcguguuaccuauacucuaccgucaggguugauaugau
gcccugacgaguaggcaggcguggaggucagugacgaagccuagaccgua
aggucgggucgaacggccucuagugcagaucuuggugguaguagcaaaua
uucaaaugagaacuuugaagacugaaguggggaaagguuccacgucaaca
gcaguuggacguggguuagucgauccuaagagauggggaagcuccguuuc
aaaggccugauuuuaugcaggccaccaucgaaagggaauccgguuaagau
uccggaaccuggauauggauucuucacgguaacguaacugaauguggaga
cgucggcgcgagcccugggaggaguuaucuuuucuucuuaacagcuuauc
accccggaauugguuuauccggagauggggucuuauggcuggaagaggcc
agcaccuuugcuggcuccggugcgcuugugacggcccgugaaaauccaca
ggaaggaauaguuuucaugccaggucguacugauaaccgcagcaggucuc
caaggugaacagccucuaguugauagaauaauguagauaagggaagucgg
caaaauagauccguaacuucgggauaaggauuggcucuaagggucgggua
cgaucaacuuagaacugguacggacaaggggaaucugacugucuaauuaa
aacauagcauugcgauggucagaaagugauguugacgcaaugugauuucu
gcccagugcucugaaugucaaagugaagaaauucaaccaagcgcggguaa
acggcgggaguaacuaugacucucuuaagguagccaaaugccucgucauc
uaauuagugacgcgcaugaauggauuaacgagauucccacugucccuauc
uacuaucuagcgaaaccacagccaagggaacgggcuuggcagaaucagcg
gggaaagaagacccuguugagcuugacucuaguuugacauugugaagaga
cauagaggguguagaauaagugggagcuucggcgccagugaaauaccacu
accuuuauaguuucuuuacuuauucaaugaagcggagcuggaauucauuu
uccacguucuagcauucaaggucccauucggggcugauccggguugaaga
cauugucagguggggaguuuggcuggggcggcacaucuguuaaacgauaa
cgcagauguccuaaggggggcucauggagaacagaaaucuccaguagaac
aaaaggguaaaagcccccuugauuuugauuuucagugugaauacaaacca
ugaaaguguggccuaucgauccuuuagucccucggaauuugaggcuagag
gugccagaaaaguuaccacagggauaacuggcuuguggcagucaagcguu
cauagcgacauugcuuuuugauucuucgaugucggcucuuccuaucauac
cgaagcagaauucgguaagcguuggauuguucacccacuaauagggaacg
ugagcuggguuuagaccgucgugagacagguuaguuuuacccuacugaug
aauguuaccgcaauaguaauugaacuuaguacgagaggaacaguucauuc
ggauaauugguuuuugcggcugucugaucaggcauugccgcgaagcuacc
auccgcuggauuauggcugaacgccucuaagucagaauccaugcuagaac
gcggugauuucuuugcuccacacaauauagauggauacgaauaaggcguc
cuuguggcgucgcugaaccauagcaggcuagcaacggugcacuuggcgga
aaggccuugggugcuugcuggcgaauugcaaugucauuuugcguggggau
aaaucauuuguauacgacuuagauguacaacgggguauuguaagcaguag
aguagccuuguuguuacgaucugcugagauuaagccuuuguugucugauu
ugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6n8n Tightly-orchestrated rearrangements govern catalytic center assembly of the ribosome.
• Resolution: 3.8 Å
• Binding residue (original residue number in PDB): N65 E66 H68 P69 K71 R84 S85 H88 M90 Y91 K92 Q108 A111 A112 R113 H114 R115 R117 T132 Y139 L144 K146 H154 R155 K161 Y165 S169 T170 F171
• Binding residue (residue number reindexed from 1): N63 E64 H66 P67 K69 R82 S83 H86 M88 Y89 K90 Q106 A109 A110 R111 H112 R113 R115 T130 Y137 L142 K144 H152 R153 K159 Y163 S167 T168 F169

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6n8n, PDBe:6n8n, PDBj:6n8n
• PDBsum: 6n8n
• PubMed: 30814529
• UniProt: P0CX23|RL20A_YEAST Large ribosomal subunit protein eL20A (Gene Name=RPL20A)