Structure of PDB 6r86 Chain a Binding Site BS02

Receptor Information

>6r86 Chain a (length=126) Species: 4932 (Saccharomyces cerevisiae)

AKQSLDVSSDRRKARKAYFTAPSSQRRVLLSAPLSKELRAQYGIKALPIR
RDDEVLVVRGSKKGQEGKISSVYRLKFAVQVDKVTKEKVNGASVPINLHP
SKLVITKLHLDKDRKALIQRKGGKLE

Ligand information

>6r86 Chain 1 (length=3260)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaggccagcaucag
uuuugguggcaggauaaauccauaggaauguagcuugccucgguaaguau
uauagccugugggaauacugccagcugggacugaggacugcgacguaagu
caaggaugcuggcauaaugguuauaugccgcccgucuugaaacacggacc
aaggagucuaacgucuaugcgaguguuuggguguaaaacccauacgcgua
augaaagugaacguagguuggggccucgcaagaggugcacaaucgaccga
uccugaugucuucggauggauuugaguaagagcauagcuguugggacccg
aaagauggugaacuaugccugaauagggugaagccagaggaaacucuggu
ggaggcucguagcgguucugacgugcaaaucgaucgucgaauuuggguau
aggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaaguu
ucccucaggauagcagaagcucguaucaguuuuaugagguaaagcgaaug
auuagagguuccggggucgaaaugaccuugaccuauucucaaacuuuaaa
uauguaagaaguccuuguuacuuaauugaacguggacauuugaaugaaga
gcuuuuagugggccauuuuugguaagcagaacuggcgaugcgggaugaac
cgaacguagaguuaaggugccggaauacacgcucaucagacaccacaaaa
gguguuaguucaucuagacagccggacgguggccauggaagucggaaucc
gcuaaggaguguguaacaacucaccggccgaaugaacuagcccugaaaau
ggauggcgcucaagcguguuaccuauacucuaccgucaggguugauauga
ugcccugacgaguaggcaggcguggaggucagugacgaagccuagaccgu
aaggucgggucgaacggccucuagugcagaucuuggugguaguagcaaau
auucaaaugagaacuuugaagacugaaguggggaaagguuccacgucaac
agcaguuggacguggguuagucgauccuaagagauggggaagcuccguuu
caaaggccugauuuuaugcaggccaccaucgaaagggaauccgguuaaga
uuccggaaccuggauauggauucuucacgguaacguaacugaauguggag
acgucggcgcgagcccugggaggaguuaucuuuucuucuuaacagcuuau
caccccggaauugguuuauccggagauggggucuuauggcuggaagaggc
cagcaccuuugcuggcuccggugcgcuugugacggcccgugaaaauccac
aggaaggaauaguuuucaugccaggucguacugauaaccgcagcaggucu
ccaaggugaacagccucuaguugauagaauaauguagauaagggaagucg
gcaaaauagauccguaacuucgggauaaggauuggcucuaagggucgggu
agugagagccuuggucagacgcagcguuguagacggccuuggucuugcua
caauuaacgaucaacuuagaacugguacggacaaggggaaucugacuguc
uaauuaaaacauagcauugcgauggucagaaagugauguugacgcaaugu
gauuucugcccagugcucugaaugucaaagugaagaaauucaaccaagcg
cggguaaacggcgggaguaacuaugacucucuuaagguagccaaaugccu
cgucaucuaauuagugacgcgcaugaauggauuaacgagauucccacugu
cccuaucuacuaucuagcgaaaccacagccaagggaacgggcuuggcaga
aucagcggggaaagaagacccuguugagcuugacucuaguuugacauugu
gaagagacauagaggguguagaauaagugggagcuucggcgccagugaaa
uaccacuaccuuuauaguuucuuuacuuauucaaugaagcggagcuggaa
uucauuuuccacguucuagcauucaaggucccauucggggcugauccggg
uugaagacauugucagguggggaguuuggcuggggcggcacaucuguuaa
acgauaacgcagauguccuaaggggggcucauggagaacagaaaucucca
guagaacaaaaggguaaaagcccccuugauuuugauuuucagugugaaua
caaaccaugaaaguguggccuaucgauccuuuagucccucggaauuugag
gcuagaggugccagaaaaguuaccacagggauaacuggcuuguggcaguc
aagcguucauagcgacauugcuuuuugauucuucgaugucggcucuuccu
aucauaccgaagcagaauucgguaagcguuggauuguucacccacuaaua
gggaacgugagcuggguuuagaccgucgugagacagguuaguuuuacccu
acugaugaauguuaccgcaauaguaauugaacuuaguacgagaggaacag
uucauucggauaauugguuuuugcggcugucugaucaggcauugccgcga
agcuaccauccgcuggauuauggcugaacgccucuaagucagaauccaug
cuagaacgcggugauuucuuugcuccacacaauauagauggauacgaaua
aggcguccuuguggcgucgcugaaccauagcaggcuagcaacggugcacu
uggcggaaaggccuugggugcuugcuggcgaauugcaaugucauuuugcg
uggggauaaaucauuuguauacgacuuagauguacaacgggguauuguaa
gcaguagaguagccuuguuguuacgaucugcugagauuaagccuuuguug
ucugauuugu

........................<<<<<<.....<......>......>
>>>>.>...<.....<<....>>..<<<<<......<<.....>>.....
>>>>>..<<<..<<.......<<.<<<<<<...>>>>>>.>>.......>
>....<<<<<<.<<<<<<<<<<<<<<<<<<<<<<....<<<<......>>
>>.(.......<<<......)>>>..>.>>>>>>>>..>>>>>>>>....
>>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<<<
<..((((((>>>>>..>>>....>..........................
...<<....>>...............<<<<....>>>>............
......................<<<<<.<<<<<<.....<<<<<<<<<<<
<<<<<<<<<<<<.....<<<<<<<<<......<<<<<<<..>>>>>>>..
.....>>>>>>>.>.>.>>>>>.>>>>>>>>>>........<<<....>>
>....>>>>>>>>....>>>>>>.>>>>>..<<<<........>>>><<<
<<<....<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>>>...
<<....>>.......<<<<<..<<<<<....>>>>>...>>>>>.<<<<<
<<<...<<....>>...>>>.>>>.>>....>>>>>>.>>>>>>..<<.<
..<<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>>>>
.....>>>...<<<..<<.<<........>>>>.>>>....>>>>>>>>>
...<<.......>>......>>>>>>...>..>.>>..<<<<<<....<.
<<<....>>>.><<<<<<<<<<...<<<.<<<<<<<.....<<<....<<
<....<<<<<..<<<<<<.....>>>>>>>>>>>....>>>..>.>>...
..>>>>>...<<<<.<<<<.<......>>>>>.>>>>.....>>>>>.>>
>>>>>>.>>..<<<<.<<<<<.....>>>>>.>>>>....<<<......>
>>...<<<<<<<..<<<<(((.....<<<<<<.....<<..........<
<<.<<<<<<<<<<.......<<<<<.<<<...<<.........>>...>>
>.........<<......>>...>>>>>...>>>>>>>>>>>>>......
....))).>>...>>>>>>.>>>>..>>>>>>><<<<<<<<<........
.>>>>>>>>>....>>>>>><.<<<<<<<..<<......<<<<.<<<<..
..>>>>>>>>...>>.>>>>>>>..>.....>>>>>><<<....<<....
.<<<<<<.......>>>>>><<<<.....<<<<<.<<...<<<<<<...<
<.....>>.>>>>>>....((<<<<<<...<<....<<<....>>>....
....<<.<<...........>>>>....>>....>>...<<<<<......
..>>>>>))<<<<.<<<<<<<.....<<<....>>>...<...<<<<<<.
..<<<<.<<<<<<<<<<<<<<<<<<..[[[..>>>>>><...<<<<<...
.<<<<<<....<<<.....>>>....>>>>>>.....>>>>>....><<<
<<<<......>>>>>>>>>>>.>.>>>>>>>.>>>>.........>>>>>
>...>......>>>..>>>>>>>>>>>>..>>.....<<......>>>>>
>>.<<<<.....>>>>..>>>>..<<<<.....<<<<<<<.<<<......
..<.....<<<<<.....<..>......>>>>><<.<<<<<<<<<<<.<<
<<<<......<.<<<.....<<......>>.....>>>..>....>>>>>
>......>>>>>..>>>>>>.>>............<<<<<<<<<..<<<.
........>>>..<<<<<<<....<<<<.....>>>>......>>>>>>>
...<<..<<<..<<<<<<.<...<<....<<<<<....>>>>.>...>>.
>>>>>..>>>>><<<<<<.......>>>>>>........<..........
.<<<<<.......>>>>>.....>.....>>....>>.>>>>>>>..>.>
>>.>>>>>>>..>>>>>>...>>>....<<<<<........>>>>>....
<<<<<..<<<.<<......<<<<.<<<<<<..<<<<<.<<<<<<<<..<<
<<.<<<.<<<.<<<...........<<<<<..<<....>>..........
..>>>>>..>>>.>>.>>>>.>.>>>...<<<<<.....<<<<..<<<<<
......>>>>>...............<<<<<<....>>>>>>..>>>>..
>>>>>.....>>>>>>>>..>>>>>...<<<.....>>>..<<<<<<...
........>>>>>>..<<...<<<<<<<...<<<<<<.......>>>>>>
.....<<...(((>>....>>>>>>>...<<<.<<<<<.......>>>>.
>>>>.<<<....>>>.>>)))......<<<<<<<..<<<<.))))))>>>
>>>>>>>>.........>>>>..>>>>>>.......<<.<.<.<<<<<<.
..<<.......>>...>>>>>>...>>..>>.......<<<<<.<<<<<<
..<.<<<<<<<......>>>>>>>...>.<<<.........>>>.....>
>>>>..>...>>>.>>....<<<<<<<....>>>.>>>>....>>..>>>
.>>>>>....<<<<<<<<..<<<<.<.<<<<<<...............>>
>>>>.><<<<<...<<<<<...<<<<<<<<<<]]].>>>>>..>>>>>..
>>>>>..>>>>>.<<<<...<<<<<...........>>>>>...>>>>.>
>>>....>>>>>>>>......<<<<<<<.<<<.<<....<<.........
.<<<<<<.....>>>>>>......>>.......<<<<<<...<<<<<.<.
.<<<......>>>..>.>>>>>.>>>>>>.............>>.>>>.>
>>>>>.><<<<<.<.............>.....<<<<<<<<<.<<<....
<<<<.<..<<<<<......>>>>>..>>>>>...>>>....>>>>.>>>>
>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6r86 Structure and function of Vms1 and Arb1 in RQC and mitochondrial proteome homeostasis.
• Resolution: 3.4 Å
• Binding residue (original residue number in PDB): A2 Q4 S5 D7 S9 S10 D11 R12 A15 R16 Y19 V29 S32 P34 K46 A47 R60 G61 S62 K77 K89 V90 N91 H100 S102 K103 K122
• Binding residue (residue number reindexed from 1): A1 Q3 S4 D6 S8 S9 D10 R11 A14 R15 Y18 V28 S31 P33 K45 A46 R59 G60 S61 K76 K88 V89 N90 H99 S101 K102 K121

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0042273 ribosomal large subunit biogenesis

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:0032991 protein-containing complex
• GO:0043232 intracellular non-membrane-bounded organelle
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6r86, PDBe:6r86, PDBj:6r86
• PDBsum: 6r86
• PubMed: 31189955
• UniProt: P05743|RL26A_YEAST Large ribosomal subunit protein uL24A (Gene Name=RPL26A)