Structure of PDB 8evt Chain AF Binding Site BS01

Receptor Information

>8evt Chain AF (length=222) Species: 4932 (Saccharomyces cerevisiae)

AEQVAAERAARKAANKEKRAIILERNAAYQKEYETAERNIIQAKRDAKAA
GSYYVEAQHKLVFVVRIKGINKIPPKPRKVLQLLRLTRINSGTFVKVTKA
TLELLKLIEPYVAYGYPSYSTIRQLVYKRGFGKINKQRVPLSDNAIIEAN
LGKYGILSIDDLIHEIITVGPHFKQANNFLWPFKLSNPSGGWGVPRKFKH
FIQGGSFGNREEFINKLVKSMN

Ligand information

>8evt Chain A1 (length=3192)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaggccagcaucag
uuuugguggcaggauaaauccauaggaauguagcuugccucgguaaguau
uauagccugugggaauacugccagcugggacugaggacugcgacguaagu
caaggaugcuggcauaaugguuauaugccgcccgucuugaaacacggacc
aaggagucuaacgucuaugcgaguguuuggguguaaaacccauacgcgua
augaaagugaacguagguuggggccucgcaagaggugcacaaucgaccga
uccugaugucuucggauggauuugaguaagagcauagcuguugggacccg
aaagauggugaacuaugccugaauagggugaagccagaggaaacucuggu
ggaggcucguagcgguucugacgugcaaaucgaucgucgaauuuggguau
aggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaaguu
ucccucaggauagcagaagcucguaucaguuuuaugagguaaagcgaaug
auuagagguuccggggucaccuugaccuauucucaaacuuuaaauaugua
agaaguccuuguuacuuaauugaacguggacauuugaaugaagagcuuuu
agugggccauuuuugguaagcagaacuggcgaugcgggaugaaccgaacg
uagaguuaaggugccggaauacacgcucaucagacaccacaaaagguguu
aguucaucuagacagccggacgguggccauggaagucggaauaggagugu
guaacaacucaccggccgaaugaacuagcccugaaaauggauggcgcuca
agcguguuaccuauacucuaccgucaggguugauaugaugcccugacgag
uaggcaggcguggaggucagugacgaagccuagaccguaaggucgggucg
aacggccucuagugcagaucuuggugguaguagcaaauauucaaaugaga
acuuugaagacugaaguggggaaagguuccacgucaacagcaguuggacg
uggguuagucgauccuaagagauggggaagcuccguuucaaaggccugau
uuuaugcaggccaccaucgaaagggaauccgguuaagauuccggaaccug
gauauggauucuucacgguaacguaacugaauguggagacgucggcgcga
gcccugggaggaguuaucuuuucuucuuaacagcuuaucaccccggaauu
gguuuauccggagauggggucuuauggcuggaagaggccagcaccuuugc
uggcuccggugcgcuugugacggcccgugaaaauccacaggaaggaauag
uuuucaugccaggucguacugauaaccgcagcaggucuccaaggugaaca
gccucuaguugauagaauaauguagauaagggaagucggcaaaauagauc
cguaacuucgggauaaggauuggcucuaagggucggguacgaucaacuua
gaacugguacggacaaggggaaucugacugucuaauuaaaacauagcauu
gcgauggucagaaagugauguugacgcaaugugauuucugcccagugcuc
ugaaugucaaagugaagaaauucaaccaagcgcggguaaacggcgggagu
aacuaugacucucuuaagguagccaaaugccucgucaucuaauuagugac
gcgcaugaauggauuaacgagauucccacugucccuaucuacuaucuagc
gaaaccacagccaagggaacgggcuuggcagaaucagcggggaaagaaga
cccuguugagcuugacucuaguuugacauugugaagagacauagagggug
uagaauaagugggagcuucggcgccagugaaauaccacuaccuuuauagu
uucuuuacuuauucaaugaagcggagcuggaauucauuuuccacguucua
gcauucaaggucccauucggggcugauccggguugaagacauugucaggu
ggggaguuuggcuggggcggcacaucuguuaaacgauaacgcagaugucc
uaaggggggcucauggagaacagaaaucuccaguagaacaaaaggguaaa
agcccccuugauuuugauuuucagugugaauacaaaccaugaaagugugg
ccuaucgauccuuuagucccucggaauuugaggcuagaggugccagaaaa
guuaccacagggauaacuggcuuguggcagucaagcguucauagcgacau
ugcuuuuugauucuucgaugucggcucuuccuaucauaccgaagcagaau
ucgguaagcguuggauuguucacccacuaauagggaacgugagcuggguu
uagaccgucgugagacagguuaguuuuacccuacugaugaauguuaccgc
aauaguaauugaacuuaguacgagaggaacaguucauucggauaauuggu
uuuugcggcugucugaucaggcauugccgcgaagcuaccauccgcuggau
uauggcugaacgccucuaagucagaauccaugcuagaacgcggugauuuc
uuugcuccacacaauauagauggauacgaauaaggcguccuuguggcguc
gcugaaccauagcaggcuagcaacggugcacuuggcggaaaggccuuggg
ugcuugcuggcgaauugcaaugucauuuugcguggggauaaaucauuugu
auacgacuuagauguacaacgggguauuguaagcaguagaguagccuugu
uguuacgaucugcugagauuaagccuuuguugucugauuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8evt Regulation of translation by ribosomal RNA pseudouridylation.
• Resolution: 2.2 Å
• Binding residue (original residue number in PDB): R30 R33 N37 R41 R60 R67 K70 K90 G91 N93 K94 P97 K98 K101 L105 R107 R110 I111 N112 K121 A122 E125 L126 Y141 S142 R145 K150 R151 K158 Q159 R160 D165 K196 N200 K206 L207 S208 N209 P210 S211 G212 G213 W214 P217 R218 K219 F220 K241
• Binding residue (residue number reindexed from 1): R8 R11 N15 R19 R38 R45 K48 K68 G69 N71 K72 P75 K76 K79 L83 R85 R88 I89 N90 K99 A100 E103 L104 Y119 S120 R123 K128 R129 K136 Q137 R138 D143 K174 N178 K184 L185 S186 N187 P188 S189 G190 G191 W192 P195 R196 K197 F198 K219

Gene Ontology

Molecular Function

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

Biological Process

• GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0000470 maturation of LSU-rRNA
• GO:0002181 cytoplasmic translation
• GO:0042273 ribosomal large subunit biogenesis

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:8evt, PDBe:8evt, PDBj:8evt
• PDBsum: 8evt
• PubMed: 37595043
• UniProt: P05737|RL7A_YEAST Large ribosomal subunit protein uL30A (Gene Name=RPL7A)