Structure of PDB 6yly Chain c Binding Site BS01

Receptor Information

>6yly Chain c (length=97) Species: 4932 (Saccharomyces cerevisiae)

SINQKLALVIKSGKYTLGYKSTVKSLRQGKSKLIIIAANTPVLRKSELEY
YAMLSKTKVYYFQGGNNELGTAVGKLFRVGVVSILEAGDSDILTTLA

Ligand information

>6yly Chain 1 (length=2676)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaggccagcaucag
uuuugguggcaggauaaauccauaggaauguagcuugccucgguaaguau
uauagccugugggaauacugccagcugggacugaggacugcgacguaagu
caaggaugcuggcauaaugguuauaugccgcccgucucacggaccaagga
gucuaacgucuaugcgaguguuuggguguaaaacccauacgcguaaugaa
agugaacguagguuggggccucgcaagaggugcacaaucgaccgauccug
augucuucggauggauuugaguaagagcauagcuguugggacccgaaaga
uggugaacuaugccugaauagggugaagccagaggaaacucugguggagg
cucguagcgguucugacgugcaaaucgaucgucgaauuuggguauagggg
cgaaagacuaaucgaaccaucuaguagcugguuccugccgaaguuucccu
caggauagcagaagcucguaucaguuuuaugagaauauguaagaaguccg
acauuugaaugaagagcuuuuagugggccauuuuugguaagcagaacugg
cgaugcgggaugaaccgaacguagaguuaaggugccggaauacacgcuca
ucagacaccacaaaagguguuaguucaucuagacagccggacgguggcca
uggaagucggaauccgcuaaggaguguguaacaacucaccggccgaauga
acuagcccugaaaauggauggcgcucaagcguguuaccuauacucuaccg
ucaggguugauaugaugcccugacgaguaggcaggcguggaggucaguga
cgaagccuagaccguaaggucgggucgaacggccucuagugcagaucuug
gugguaguagcaaauauucaaaugagaacuuugaagacugaaguggggaa
agguuccacgucaacagcaguuggacguggguuagucgauccuaagagau
ggggaagcuccguuucaaaggccugacaggccaccaucgaaagggaaucc
gguuaagauuccggaaccuggauauggauucuucacgguaacguaacuga
auguggagacgucggcgcgagcccugggaggaguuaucuuuucuucuuaa
cagcuuaucaccccggaauugguuuauccggagauggggucuuauggcug
gaagaggccagcaccuuugcuggcuccggugcgcuugugacggcccguga
aaauccacaggaaggaauaguuuucaugccaggucguacugauaaccgca
gcaggucuccaaggugaacagccucuaguugauagaauaauguagauaag
ggaagucggcaaaauagauccguaacuucgggauaaggauuggcucuaag
ggucggacgaucaacuuagaacugguacggacaaggggaaucugacuguc
uaauuaaaacauagcauugcgauggucagaaagugauguugacgcaaugu
gauuuauggauuaacgagauucccacugucccuaucuacuaucuagcgaa
accacagccaaggggcuuggcagaaucagcggggacuaguuugacauugu
gaagagacauaguuucuuuacuuauucaaugaagcggagcuggaauucau
uuuccacguucuagcauucaaggucccauucggggcugauccggguugaa
gacauugucaggugguagucccucggaauuugaggcuaaacuggcuugug
gcagucaagcguucauagcgacauugcuuuuugauucuucgaugucggcu
cuuccuaucauaccgaagcagaauucgguaagcguuggauuguucaccca
cuaauagggauacccuacugaugaauguuaccgcaauaguaauugaacuu
aguacgagaggaacaguucauucggauaauugguuuuugcggcugucuga
ucaggcauugccgcgaagcuaccauccgcuggauuauggcugaacgccuc
uaagucagaauccaugcuagaacgcggugauuucuuugcuccacacaaua
uagauggauacgaauaaggcguccuuguggcgucgcugaaccauagcagg
cuagcaacggugcacuuggcggaaaggccuugggugcuugcuggcgaauu
gcaaugucauuuugcguggggauaaaucauuuguauacgacuuagaugua
caacgggguauuguaagcaguagaguagccuuguuguuacgaucugcuga
gauuaagccuuuguugucugauuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6yly Construction of the Central Protuberance and L1 Stalk during 60S Subunit Biogenesis.
• Resolution: 3.8 Å
• Binding residue (original residue number in PDB): L25 G26 Y27 K28 S29 K32 V50 R52 L84 F85 V87
• Binding residue (residue number reindexed from 1): L17 G18 Y19 K20 S21 K24 V42 R44 L76 F77 V79

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0030627 pre-mRNA 5'-splice site binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006364 rRNA processing
• GO:0048025 negative regulation of mRNA splicing, via spliceosome

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:6yly, PDBe:6yly, PDBj:6yly
• PDBsum: 6yly
• PubMed: 32668200
• UniProt: P14120|RL30_YEAST Large ribosomal subunit protein eL30 (Gene Name=RPL30)