Structure of PDB 7zs5 Chain BC Binding Site BS01

Receptor Information

>7zs5 Chain BC (length=252) Species: 4932 (Saccharomyces cerevisiae)

GRVIRNQRKGAGSIFTSHTRLRQGAAKLRTLDYAERHGYIRGIVKQIVHD
SGRGAPLAKVVFRDPYKYRLREEIFIANEGVHTGQFIYAGKKASLNVGNV
LPLGSVPEGTIVSNVEEKPGDRGALARASGNYVIIIGHNPDENKTRVRLP
SGAKKVISSDARGVIGVIAGGGRVDKPLLKAGRAFHKYRLKRNSWPKTRG
VAMNPVDHPHGGGNHQHIGKASTISRGAVSGQKAGLIAARRTGLLRGSQK
TQ

Ligand information

>7zs5 Chain 1 (length=3248)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaugguguuuugua
aucucgcauuucacugggccagcaucaguuuugguggcaggauaaaucca
uaggaauguagcuugccucgguaaguauuauagccugugggaauacugcc
agcugggacugaggacugcgacguaagucaaggaugcuggcauaaugguu
auaugccgcccgucuugaaacacggaccaaggagucuaacgucuaugcga
guguuuggguguaaaacccauacgcguaaugaaagugaacguagguuggg
gccucgcaagaggugcacaaucgaccgauccugaugucuucggauggauu
ugaguaagagcauagcuguugggacccgaaagauggugaacuaugccuga
auagggugaagccagaggaaacucugguggaggcucguagcgguucugac
gugcaaaucgaucgucgaauuuggguauaggggcgaaagacuaaucgaac
caucuaguagcugguuccugccgaaguuucccucaggauagcagaagcuc
guaucaguuuuaugagguaaagcgaaugauuagagguuccggggucgaaa
ugaccuugaccuauucucaaacuuuaaauauguaagaaguccuuguuacu
uaauugaacguggacauuugaaugaagagcuuuuagugggccauuuuugg
uaagcagaacuggcgaugcgggaugaaccgaacguagaguuaaggugccg
gaauacacgcucaucagacaccacaaaagguguuaguucaucuagacagc
cggacgguggccauggaagucggaauccgcuaaggaguguguaacaacuc
accggccgaaugaacuagcccugaaaauggauggcgcucaagcguguuac
cuauacucuaccgucaggguugauaugaugcccugacgaguaggcaggcg
uggaggucagugacgaagccuagaccguaaggucgggucgaacggccucu
agugcagaucuuggugguaguagcaaauauucaaaugagaacuuugaaga
cugaaguggggaaagguuccacgucaacagcaguuggacguggguuaguc
gauccuaagagauggggaagcuccguuucaaaggccugauuuuaugcagg
ccaccaucgaaagggaauccgguuaagauuccggaaccuggauauggauu
cuucacgguaacguaacugaauguggagacgucggcgcgagcccugggag
gaguuaucuuuucuucuuaacagcuuaucaccccggaauugguuuauccg
gagauggggucuuauggcuggaagaggccagcaccuuugcuggcuccggu
gcgcuugugacggcccgugaaaauccacaggaaggaauaguuuucaugcc
aggucguacugauaaccgcagcaggucuccaaggugaacagccucuaguu
gauagaauaauguagauaagggaagucggcaaaauagauccguaacuucg
ggauaaggauuggcucuaagggucggguagugagggccuuggucagacgc
uuguuguagacggccuuggucuugcuacaauuaacgaucaacuuagaacu
gguacggacaaggggaaucugacugucuaauuaaaacauagcauugcgau
ggucagaaagugauguugacgcaaugugauuucugcccagugcucugaau
gucaaagugaagaaauucaaccaagcgcggguaaacggcgggaguaacua
ugacucucuuaagguagccaaaugccucgucaucuaauuagugacgcgca
ugaauggauuaacgagauucccacugucccuaucuacuaucuagcgaaac
cacagccaagggaacgggcuuggcagaaucagcggggaaagaagacccug
uugagcuugacucuaguuugacauugugaagagacauagagggcuaccuu
uauaguuucuuuacuuauucaaugaagcggagcuggaauucauuuuccac
guucuagcauucaaggucccauucggggcugauccggguugaagacauug
ucagguggggaguuuggcuggggcggcacaucuguuaaacgauaacgcag
auguccuaaggggggcucauggagaacagaaaucuccaguagaacaaaag
gguaaaagcccccuugauuuugauuuucagugugaauacaaaccaugaaa
guguggccuaucgauccuuuagucccucggaauuugaggcuagaggugcc
agaaaaguuaccacagggauaacuggcuuguggcagucaagcguucauag
cgacauugcuuuuugauucuucgaugucggcucuuccuaucauaccgaag
cagaauucgguaagcguuggauuguucacccacuaauagggaacgugagc
uggguuuagaccgucgugagacagguuaguuuuacccuacugaugaaugu
uaccgcaauaguaauugaacuuaguacgagaggaacaguucauucggaua
auugguuuuugcggcugucugaucaggcauugccgcgaagcuaccauccg
cuggauuauggcugaacgccucuaagucagaauccaugcuagaacgcggu
gauuucuuugcuccacacaauauagauggauacgaauaaggcguccuugu
ggcgucgcugaaccauagcaggcuagcaacggugcacuuggcggaaaggc
cuugggugcuugcuggcgaauugcaaugucauuuugcguggggauaaauc
auuuguauacgacuuagauguacaacgggguauuguaagcaguagaguag
ccuuguuguuacgaucugcugagauuaagccuuuguugucugauuugu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7zs5 Structural basis for clearing of ribosome collisions by the RQT complex.
• Resolution: 3.2 Å
• Binding residue (original residue number in PDB): G2 R3 N7 Q8 R9 G11 S14 I15 S18 H19 T20 R21 L22 R23 G25 A26 Y34 R37 Y40 I44 H50 R54 R64 Y67 K68 Y69 R70 Y89 A94 S95 E118 K119 A125 L126 A127 R128 A129 S130 G131 N132 L150 P151 S152 K156 G172 G173 R174 K177 L179 L180 K181 A182 G183 F186 H187 K188 R190 L191 K192 R193 N194 W196 P197 K198 T199 R200 G201 V202 M204 N205 V207 D208 H209 H211 G213 G214 N215 H216 Q217 H218 G220 K221 A222 S223 T224 S226 R227 V230 S231 G232 Q233 K234 A235 G236 L237 I238 A239 A240 R241 R242 T243 G244 L245 L246
• Binding residue (residue number reindexed from 1): G1 R2 N6 Q7 R8 G10 S13 I14 S17 H18 T19 R20 L21 R22 G24 A25 Y33 R36 Y39 I43 H49 R53 R63 Y66 K67 Y68 R69 Y88 A93 S94 E117 K118 A124 L125 A126 R127 A128 S129 G130 N131 L149 P150 S151 K155 G171 G172 R173 K176 L178 L179 K180 A181 G182 F185 H186 K187 R189 L190 K191 R192 N193 W195 P196 K197 T198 R199 G200 V201 M203 N204 V206 D207 H208 H210 G212 G213 N214 H215 Q216 H217 G219 K220 A221 S222 T223 S225 R226 V229 S230 G231 Q232 K233 A234 G235 L236 I237 A238 A239 R240 R241 T242 G243 L244 L245

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0042273 ribosomal large subunit biogenesis
• GO:1990145 maintenance of translational fidelity

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7zs5, PDBe:7zs5, PDBj:7zs5
• PDBsum: 7zs5
• PubMed: 36801861
• UniProt: P0CX45|RL2A_YEAST Large ribosomal subunit protein uL2A (Gene Name=RPL2A)