Structure of PDB 8p8m Chain QV Binding Site BS01

Receptor Information

>8p8m Chain QV (length=136) Species: 4932 (Saccharomyces cerevisiae)

SGNGAQGTKFRISLGLPVGAIMNCADNSGARNLYIIAVKGSGSRLNRLPA
ASLGDMVMATVKKGKPELRKKVMPAIVVRQAKSWRRRDGVFLYFEDNAGV
IANPKGEMKGSAITGPVGKECADLWPRVASNSGVVV

Ligand information

>8p8m Chain A (length=3035)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaggccagcaucag
uuuugguggcaggauaaauccauaggaauguagcuugccucgguaaguau
uauagccugugggaauacugccagcugggacugaggacugcgacguaagu
caaggaugcuggcauaaugguuauaugccgcccgucuugaaacacggacc
aaggagucuaacgucuaugcgaguguuuggguguaaaacccauacgcgua
augaaagugaacguagguuggggccucgcaagaggugcacaaucgaccga
uccugaugucuucggauggauuugaguaagagcauagcuguugggacccg
aaagauggugaacuaugccugaauagggugaagccagaggaaacucuggu
ggaggcucguagcgguucugacgugcaaaucgaucgucgaauuuggguau
aggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaaguu
ucccucaggauagcagaagcucguaucaguuuuaugagguaaagcgaaug
auuagagguuccggggucuugaccuauucucaaacuuuaaauauguaaga
aguccuuguuacuuaauugaacguggacauuugaaugaagagcuuuuagu
gggccauuuuugguaagcagaacuggcgaugcgggaugaaccgaacguag
aguuaaggugccggaauacacgcucaucagacaccacaaaagguguuagu
ucaucuagacaggaaugaacuagcccugaaaauggauggcgcucaagcgu
guuaccuauacucuaccgucaggguugauaugaugcccugacgaguaggc
aggcguggaggucagugacgaagccuagaccguaaggucgggucgaacgg
ccucuagugcagaucuuggugguaguagcaaauauucaaaugagaacuuu
gaagacugaaguggggaaagguuccacgucaacagcaguuggacgugggu
uagucgauccuaagagauggggaagcuccguuucaaaggccugauuuuau
gcaggccaccaucgaaagggaauccgguuaagauuccggaaccuggauau
ggauucuucacgguaacguaacugaauguggagacgucggcgcgagcccu
gggaggaguuaucuuuucuucuuaacagcuuaucaccccggaauugguuu
auccggagauggggucuuauggcuggaagaggccagcaccuuugcuggcu
ccggugcgcuugugacggcccgugaaaauccacaggaaggaauaguuuuc
augccaggucguacugauaaccgcagcaggucuccaaggugaacagccuc
uaguugauagaauaauguagauaagggaagucggcaaaauagauccguaa
cuucgggauaaggauuggcucuaagggucgguacgaucaacuuagaacug
guacggacaaggggaaucugacugucuaauuaaaacauagcauugcgaug
gucagaaagugauguugacgcaaugugauuucugcccagugcucugaaug
ucaaagugaagaaauucaaccaagcgcggguaaacggcggaagguagcca
aaugccucgucaucuaauuagugacgcgcaugaauggauuaacgagauuc
ccacugucccuaucuacuaucuagcgaaaccacagccaagggaacgggcu
uggcagaaucagcggggaaagaagacccuguugagcuugacucuaguuug
acauugugaaguacuuauucaaugaagcggagcucacguucuagcauuca
aggucccauucggggcugauccggguugaagacauugucagguggggagu
uuggcuggggcggcacaucuguuaaacgauaacgcagauguccuaagggg
ggcucauggagaacagaaaucuccaguagaacaaaaggguaaaagccccc
uugauuuugauuuucagugugaauacaaaccaugaaaguguggccuaucg
auccuuuagucccucggaauuugaggcuagaggugccagaaaaguuacca
cagggauaacuggcuuguggcagucaagcguucauagcgacauugcuuuu
ugauucuucgaugucggcucuuccuaucauaccgaagcagaauucgguaa
gcguuggauuguucacccacuaauagggaacgugagcuggguuuagaccg
ucgugagacagguuaguuuuacccuacugaugaauguuaccgcaauagua
auugaacuuaguacgagaggaacaguucauucggauaauugguuuuugcg
gcugucugaucaggcauugccgcgaagcuaccauccgcuggauuauggcu
gaacgccucuaagucagaauccaugcuagaacgcggugauuucuuugcuc
cacacaauauagauggauacgaauaaggcguccuuguggcgucgcugaac
cauagcaggcuagcaacggugcacuuggcggaaaggccuugggugcuugc
uggcgaauugcaaugucauuuugcguggggauaaaucauuuguauacgac
uuagauguacaacgggguauuguaagcaguagaguagccuuguuguuacg
aucugcugagauuaagccuuuguugucugauuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8p8m Yeast 60S ribosomal subunit, RPL39 deletion
• Resolution: 2.66 Å
• Binding residue (original residue number in PDB): G8 T9 K10 R12 S14 G16 P18 A21 I22 I37 K40 G43 S44 R45 L46 N47 R48 L49 T61 K63 K71 V73 K83 R86 F92
• Binding residue (residue number reindexed from 1): G7 T8 K9 R11 S13 G15 P17 A20 I21 I36 K39 G42 S43 R44 L45 N46 R47 L48 T60 K62 K70 V72 K82 R85 F91

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0070180 large ribosomal subunit rRNA binding

Biological Process

• GO:0002181 cytoplasmic 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:8p8m, PDBe:8p8m, PDBj:8p8m
• PDBsum: 8p8m
• UniProt: P0CX41|RL23A_YEAST Large ribosomal subunit protein uL14A (Gene Name=RPL23A)