Structure of PDB 6ylh Chain e Binding Site BS01

Receptor Information

>6ylh Chain e (length=127) Species: 4932 (Saccharomyces cerevisiae)

ASLPHPKIVKKHTKKFKRHHSDRYHRVAENWRKQKGIDSVVRRRFRGNIS
QPKIGYGSNKKTKFLSPSGHKTFLVANVKDLETLTMHTKTYAAEIAHNIS
AKNRVVILARAKALGIKVTNPKGRLAL

Ligand information

>6ylh Chain 1 (length=3039)

guuugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaau
aagcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaa
gcggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguugua
auuuggagagggcaacuuuggggccguuccuugucuauguuccuuggaac
aggacgucauagagggugagaaucccguguggcgaggagugcgguucuuu
guaaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugg
gugguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaac
aaguacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaag
uacgugaaauuguugaaagggaagggcauuugaucagagccagcaucagu
uuugguggcaggauaaauccauaggaauguagcuugccucgguaaguauu
auagccugugggaauacugccagcugggacugaggacugcgacguaaguc
aaggaugcuggcauaaugguuauaugccgcccgucuugaaacacggacca
aggagucuaacgucuaugcgaguguuuggguguaaaacccauacgcguaa
ugaaagugaacguagguuggggccucgcaagaggugcacaaucgaccgau
ccugaugucuucggauggauuugaguaagagcauagcuguugggacccga
aagauggugaacuaugccugaauagggugaagccagaggaaacucuggug
gaggcucguagcgguucugacgugcaaaucgaucgucgaauuuggguaua
ggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaaguuu
cccucaggauagcagaagcucguaucaguuuuaugagauuagagguuccg
gggucgaaaugaccuugaccuauucuguaagaaguccuuguuugaacgug
gacgaaugaagcuuuuagugggccauuuuugguaagcagaacuggcgaug
cgggaugaaccgaacguagaguuaaggugccggaauacacgcucaucaga
caccacaaaagguguuaguucaucuagacagccggacgguggccauggaa
gucggaauccgcuaaggaguguguaacaacucaccggccgaaugaacuag
cccugaaaauggauggcgcucaagcguguuaccuauacucuaccgucagg
guuaugcccugacgaguaggcaggcguggaggucagugacgaagccuaga
ccguaaggucgggucgaacggccucuagugcagaucuuggugguaguagc
aaauauucaaaugagaacuuugaagacugaaguggggaaagguuccacgu
caacagcaguuggacguggguuagucgauccuaagagauggggaagcucc
guuucaaaggccuggcaggccaccaucgaaagggaauccgguuaagauuc
cggaaccuggauauggauucuucacgguaacguaacugaauguggagacg
ucggcgcgagcccugggaggaguuaucuuuucuucuuaacagcuuaucac
cccggaauugguuuauccggagauggggucuuauggcuggaagaggccag
caccuuugcuggcuccggugcgcuugugacggcccgugaaaauccacagg
aaggaauaguuuucaugccaggucguacugauaaccgcagcaggucucca
aggugaacagccucuaguugauagaauaauguagauaagggaagucggca
aaauagauccguaacuucgggauaaggauuggcucuaagggucggcgauc
aacuuagaacugguacggacaaggggaaucugacugucuaauuaaaacau
agcauugcgauggucagaaagugauguugacgcaaugugauuucugccca
gugcucugaaugucaaagugaagaaauucaaccaagcgcggguaaacggc
gggaguacucucuuaagguagggauuaacgagauucccacugucccuauc
uacuaucuagcgaaaccacagccaagggaacgggcuuggcagaaucagcg
gggaaagacccuguugagcuugacucuaguuugacauugugaagagacau
agaggguguagaauaagugggagcuucggcgccagugaaauaccacuacc
uuuauaguuucuuuacuuauucaaugaagcggagcuggaauucauuuucc
acguucuagcauucaaggucccauucggggcugauccggguugaagacau
ugucagguggggaguuucacaucuguugcagaugucuaaggggggcucau
ggagaacagaaaucuccaguagaacaaaggguaaaagcccccuugauuuu
gauuuuugugaauacaaaccaugaaaguguggccccuuuagucccucgga
auuugaggcuagaggaaaguuaccacaggguggcuuguggcagucaagcg
uucauagcgacauugcuuuuugauucuucgaucggcucuuccuaucauac
cgaagcagaauucgguaagcguuggauuguucacccacuaauagggaacg
ugagcugguagaccgucgugagacagguuaguuuuacccuacugaugaau
guuaccgcaauaguaauugaacuuaguacgagaggaacaguucauucgga
uaauugguuuuugcggcugucugaucaggcauugccgcgaagcuaccauc
cgcuggauuauggcugaacgccucuaagucagaauccaugcuagaacgcg
gugauuugcuccacacaaauagauggauacgaauaaggcguccuuguggc
gucgcugaaccauagcaggcuagcaacggugcacuuggcggaaaggccuu
gggugcuugcuggcgaauugcaaugucauuugcguggggauaaaucauuu
guauacgacuuagauguacaacgggguauuguaagcaguagaguagccgu
uacgaucugcugagauuaagccuuuguugucugauuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6ylh Construction of the Central Protuberance and L1 Stalk during 60S Subunit Biogenesis.
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): K11 K12 K15 K16 F17 R19 H21 D23 R24 Y25 R27 V28 N31 W32 R33 K34 K36 S40 R43 R44 R45 F46 R47 P53 K54 I55 G56 Y57 S59 N60 K61 K64 F65 K80 A97 H98 N99 S101 K103 R105 K118 N121 R125
• Binding residue (residue number reindexed from 1): K10 K11 K14 K15 F16 R18 H20 D22 R23 Y24 R26 V27 N30 W31 R32 K33 K35 S39 R42 R43 R44 F45 R46 P52 K53 I54 G55 Y56 S58 N59 K60 K63 F64 K79 A96 H97 N98 S100 K102 R104 K117 N120 R124

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:6ylh, PDBe:6ylh, PDBj:6ylh
• PDBsum: 6ylh
• PubMed: 32668200
• UniProt: P38061|RL32_YEAST Large ribosomal subunit protein eL32 (Gene Name=RPL32)