Structure of PDB 7oht Chain B Binding Site BS01

Receptor Information

>7oht Chain B (length=350) Species: 559292 (Saccharomyces cerevisiae S288C)

APRHGHLGFLPRKRAASIRARVKAFPKDDRSKPVALTSFLGYKAGMTTIV
RDLDRPGSKFHKREVVEAVTVVDTPPVVVVGVVGYVETPRGLRSLTTVWA
EHLSDEVKRRFYKNWYKSKKKAFTKYSAKYAQDGAGIERELARIKKYASV
VRVLVHTQIRKTPLAQKKAHLAEIQLNGGSISEKVDWAREHFEKTVAVDS
VFEQNEMIDAIAVTKGHGFEGKVACIGAWHGQRGYHSRTSINHKIYRVGK
GDDEANGATSFDRTKKTITPMGGFVHYGEIKNDFIMVKGCIPGNRKRIVT
LRKSLYTNTSRKALEEVSLKWIDTASKFGKGRFQTPAEKHAFMGTLKKDL

Ligand information

>7oht Chain 1 (length=1485)

cuauuggaacaggacgucauagagggugagaaucccgugugggaccgaua
guaagaacugagagugaaaaaguacgugaaauuguugacaggccagcauc
aguuuugguggcaggauaaauccauaggaauguagcuugccugguaagua
uuauagccugugggaauacugccagcugggacugaggacugcgacguaag
ucaaggaugcuggcauugcgaguguuuggguguaaacccauacgcgaacg
uaggguccugggauaagagcauaguuccugccgaaguuucccucaggaua
gcagaagcucguaucaguuuuaugagguaaagcgaacuuuaaauauguaa
gaaguccuuguuugaacguggacauuugaaugaagagcuuuuagugggcc
auuuuugguaagcagaacuggcgaugcgggaugaaccgaacguagaguua
aggugccggaauacacgcucaucagacacacaaaagguguuaguucaucu
agacagccggacgguggccauggaagucggaauccgcuaaggagugugua
acaacucaccggccgaaugaacuagcccugaaaaggauggcgcucaagcg
uguuaccuauacucuaccgucaggguuaugcccugacgaguaggcaggcg
uggaggucagugagaagccugacaaggucgggucgaacggccucuaguga
aucagcgggggaagacccuguugagcuugacucuagguggggaguuuggg
ggcggcacaucuguuaaacgauaagcagauguccuaaggggggcucaugg
agaacagaaaucuccaguagaacaaaaggaaaagcccccuugauuuugau
uuucagugugaauacaaaccaugaaaguguggccuaucgauccuuuauag
aggugccagaaaaguuaccacagggauaacuggcuuguggcagucaagcg
uuagcgacauugcuuuugauucuucgaugucggcucuuccuaucauaccg
aagcagaauucgguaagcguuggauuguucacccacuaauagggagucug
gguuuagaccgucgugagacagguuaguuccuacugaugaauguuaccgc
aauaguaauugaacuuaguacgagaggaacaguucauucggauaauuggu
uuuugcggcugucugaucaggcaugccgcgaagcuaccauccgcuggauu
auggcugaacgccucuaagucagaauccaugcuagaacgcggugauuucu
ugcuccacacaauauagauggauacgaauaaggcguccuuguggcgucgc
ugaaccauagcaggcuagcaacggugcacuuggcggaaaggccuugggug
cuugcuggcgaauugcaaugucauuuugcguggggauaaaucauuuguau
acgacuuagauguacaacgggguauuguaagcaguagaguagccguuacg
aucugcugagauuaagccuuuguugucugauuugu

<..............((......<<<.....))>>>....>.........
.......<...>.............................<<<<<<<.<
<<<<<<<<<<<<<<.....<<<<<<<<<......<<<<<<...>>>>>>.
......>>>>>>>.>.>.>>>>>.>>>>>>>>>>........<<<....>
>>.....>>>>>>>..<<<........<<<<....>>>>...........
.....<<<..>>>.....>>>.....<<<<<<....<.<<<....>>>.>
<<.<<.<......<<<.<<<<<<.......................>>>>
...<<<<..<<<..>>>..>>>>.....>>>>>.....>.>>.>>..<<<
<.<<<<<.....>>>>>.>>>>....<<<......>>>...<<<<<<<..
<<<<(((.....<<<<<<.....<<.........<<<.<<<<<<<<<<..
.....<<<<<.<<....<<.........>>....>>.........<<...
...>>...>>>>>...>>>>>>>>>>>>>.........))).>>...>>>
>>>.>>>>..>>>>>>><<<<<<<<<...>>>>>>>>>....>>>>>>..
.<<<<<<..<<.....<<<<<<.....>>>>>>...>>.>>>>>>.....
<<<<<..<<......<<<<<.<<.<<<..<<<<<......>>>>>.....
.<.<..<<.<<<<<..........>>>>>.>>.....<<<<<<<...<<<
.<.........>.>>>.................>>>>>>>...<<<..<<
<<.......>>>>..>>>.<<<....>>>...>.>........<.....>
............>>>...>>>>>>>..............<<<<<...<<.
...>>...>>>>>.................<<<...<<<<<..<.<<<<<
<<......>>>>>>>...>.<<<.........>>>.....>>>>>..>>>
......<<<<<<<....>>>.>>>>.....>>.>>>>>....<<<<<<<<
..<<<<.<.<<<<<<...............>>>>>>.><<<<<...<<<<
...<<<<<<<<<<<....>>>>>.>>>>>>..>>>>..>>>>>.<<<<..
.<<<<<...........>>>>>...>>>>.>>>>....>>>>>>>>....
..<<<<<<.<<<.<<....<<..........<<<<<<.....>>>>>>..
....>>.......<<<<<<...<<<<<.<..<<<......>>>..>.>>>
>>.>>>>>>.............>>.>>>.>>>>>>..<<<<<.<......
.......>.....<<<<<<<<<.<<<....<<<<.<..<<<<<.>>>>>.
.>>>>>...>>>....>>>>.>>>>>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7oht Analysis of subunit folding contribution of three yeast large ribosomal subunit proteins required for stabilisation and processing of intermediate nuclear rRNA precursors.
• Resolution: 4.7 Å
• Binding residue (original residue number in PDB): A8 P9 R10 G12 H13 L14 G15 F16 P18 K20 R21 R26 R28 K30 M53 R62 S65 Y92 T95 R97 G98 L99 R100 S101 T104 W106 R116 F118 K120 N121 Y123 S125 K126 K128 F130 K132 Y133 K153 Y154 K174 K175 L178 A179 E180 T221 K222 G223 G225 F226 A250 C251 I252 G253 A254 W255 H256 Q269 Y272 S274 R275 T276 I278 N279 M308 G309 H313 Y314 K325 G326 C327 N331 R332 K333 R334 R348 S363 K364 F365 K367 R369 P373 K376 M380 L383 K384 K385
• Binding residue (residue number reindexed from 1): A1 P2 R3 G5 H6 L7 G8 F9 P11 K13 R14 R19 R21 K23 M46 R55 S58 Y85 T88 R90 G91 L92 R93 S94 T97 W99 R109 F111 K113 N114 Y116 S118 K119 K121 F123 K125 Y126 K146 Y147 K167 K168 L171 A172 E173 T214 K215 G216 G218 F219 A224 C225 I226 G227 A228 W229 H230 Q232 Y235 S237 R238 T239 I241 N242 M271 G272 H276 Y277 K288 G289 C290 N294 R295 K296 R297 R311 S326 K327 F328 K330 R332 P336 K339 M343 L346 K347 K348

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006364 rRNA processing
• GO:0006412 translation
• GO:0006414 translational elongation
• GO:1990145 maintenance of translational fidelity

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:7oht, PDBe:7oht, PDBj:7oht
• PDBsum: 7oht
• PubMed: 34813592
• UniProt: P14126|RL3_YEAST Large ribosomal subunit protein uL3 (Gene Name=RPL3)