Structure of PDB 8uu4 Chain C Binding Site BS01

Receptor Information

>8uu4 Chain C (length=273) Species: 1642 (Listeria innocua)

AIKKYKPTTNGRRHMTSSDFAEITTSTPEKSLLRPLKKKAGRNNQGKLTV
RHHGGGHKRQYRVIDFKRNKDGIPGRVATIEYDPNRSANIALINYADGEK
RYIIAAKGLEVGQTIYSGAEADIKVGNALELKDIPVGTVIHNIEMKPGKG
GQLVRSAGTSAQVLGKEGKYVLIRLNSGEVRMILATCRATIGQVGNEQHE
LINIGKAGRSRWMGKRPTVRGSVMNPNDHPHGGGEGKAPIGRKSPMSPWG
KPTLGYKTRKKNNNSDKFIVRRR

Ligand information

>8uu4 Chain A (length=2903)

uuaaguuagaaagggcgcacgguggaugccuuggcacuaggagccgaaga
aggacgggacuaacaccgauaugcuuuggggagcuguacguaagcguuga
uccagagauuuccgaaugggggaacccacuaucuuuagucggauaguauc
cuuacgugaauacauagcgugaggaaggcagacccagggaacugaaacau
cuaaguaccuggaggaagagaaagaaaaaucgauuuccugaguagcggcg
agcgaaacggaaagagcccaaaccaagaagcuugcuucuugggguuguag
gacacucuauacggaguuacaaaagaaaguuauaaaugaagcggucugga
aaggcccgccaaagacgguaacagcccgguaguugaaauggcuuucccuc
cagaguggauccugaguacgacggaacacgugaaauuccgucggaauccg
ggaggaccaucucccaaggcuaaauacucccuagugaccgauagugaacc
aguaccgugagggaaaggugaaaagcaccccggaaggggagugaaacagu
uccugaaaccgugugccuacaaguaguuagagcccguuaaugggugauag
cgugccuuuuguagaaugaaccggcgaguuacgauuuguugcaagguuaa
gcggaaaaagcggagccguagcgaaagcgagucugaauagggcgcauaag
uaacaggucguagacccgaaaccaggugaucuacccauguccaggaugaa
gguaagguaauacuuacuggagguccgaacccacgcacguugaaaagugc
ggggaugagguguggguagcggagaaauuccaaucgaacuuggagauagc
ugguucucuccgaaauagcuuuagggcuagccucgagguaaagagucaug
gagguagagcacuguuuggacuaggggcccgguuaccgaauucagauaaa
cuccgaaugccauguacuuauacucgggagucagacugcgagugauaaga
uccguagucgaaagggaaacagcccagaccaccaguuaagguccccaaau
auauguuaaguggaaaaggaugugggguugcuuagacaaccaggauguug
gcuuagaagcagccaccauugaaagagugcguaauagcucacuggucgag
ugaccccgcgccgaaaauguaccggggcuaaacauauuaccgaaacugug
gaugaaccgguucgugguaggagagcguucuaagggcggugaagucagac
cggaaggacugguggagcgcuuagaagugagaaugccgguaugaguagcg
aaagaagggugagaaucccuuccaccgaauaucuaagguuuccugaggaa
ggcucguccgcucaggguuagucgggaccuaagccgaggccgauaggcgu
aggcgauggacaacagguagagauuccuguaccagugcuaauuguuuaac
cgauggggugacacagaaggauagggaaucgcacgaauggaaaugugcgu
ccaagcagugagugugagaaguaggcaaauccgcuucuugcgaagcauga
gcugugauggggaagcggaaguuccugauuucacgcugucaagaaaagcc
ucuaggaagaguaguacugcccguaccgcaaaccgacacagguagaugag
gagagaauccuaaggugagcgagagaacucucguuaaggaacucggcaaa
augaccccguaacuucgggagaaggggugcucuauuagggugcaagcccg
agagagccgcagugaauaggcccaggcgacuguuuagcaaaaacacaggu
cucugcaaaaccguaaggugacguauaggggcugacgccugcccggugcu
ggaagguuaagaggagugcuuagcuucggcgaagguacgaauugaagccc
caguaaacggcggccguaacuauaacgguccuaagguagcgaaauuccuu
gucggguaaguuccgacccgcacgaaaggcgcaacgaucugggcacuguc
ucaacgagagacucggugaaauuauaguaccugugaagaugcagguuacc
cgcgacaggacggaaagaccccguggagcuuuacugcaaccugauaugga
auguuuguaccgcuuguacaggauagguaggagccgaagagacgugugcg
cuagcauacgaggaggcaauggugggauacuacccuggcuguaugaccau
ucuaacccgccacgcuaagcgcguggggagacagugucaggugggcaguu
ugacuggggcggucgccuccuaaagaguaacggaggcgcccaaagguucc
cucagaauggauggaaaucauucgcagaguguaaaggcacaagggagcuu
gacugcgagacugacaagucgagcagggacgaaagucgggcuuagugauc
cggugguuccgcauggaagggccaucgcucaacggauaaaagcuaccccg
gggauaacaggcuuaucucccccaagaguccacaucgacggggagguuug
gcaccucgaugucggcucgucgcauccuggggcuguagucggucccaagg
guugggcuguucgcccauuaaagcggcacgcgagcuggguucagaacguc
gugagacaguucggucccuauccgucgcgggcgcaggaaauuugagagga
gcuguccuuaguacgagaggaccgggauggacacaccgcugguguaccag
uuguuccgccaggagcaucgcuggguagcuauguguggcagggauaaacg
cugaaagcaucuaagcgugaagccccccucaagaugagauuucccauuuc
uucggaaaguaagaucccugaaagaugaucagguagauagguuuggagug
gaaguguagcgauacauggagcggacaaauacuaaucgaucgaggacuua
acc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8uu4 Mechanistic insights into the alternative ribosome recycling by HflXr.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): K7 P8 T10 N11 R13 R14 H15 K31 K38 K39 A41 G42 R43 N44 N45 Q46 K48 L49 T50 V51 R52 H54 G56 H58 K59 R60 Q61 Y62 R63 I74 R77 Y83 P85 R87 D98 G99 K101 K150 Q153 L154 R156 S157 A158 G159 Y171 N177 S178 E180 E198 H200 E201 N204 I205 G206 K207 A208 G209 R210 S211 R212 W213 R217 P218 T219 V220 R221 G222 S223 V224 M225 P227 N228 D229 H230 H232 G235 E236 G237 K238 P240 I241 G242 R243 S245 P246 P249 W250 T254 L255 G256 Y257 K258 T259 R260 N263 R274
• Binding residue (residue number reindexed from 1): K6 P7 T9 N10 R12 R13 H14 K30 K37 K38 A40 G41 R42 N43 N44 Q45 K47 L48 T49 V50 R51 H53 G55 H57 K58 R59 Q60 Y61 R62 I73 R76 Y82 P84 R86 D97 G98 K100 K149 Q152 L153 R155 S156 A157 G158 Y170 N176 S177 E179 E197 H199 E200 N203 I204 G205 K206 A207 G208 R209 S210 R211 W212 R216 P217 T218 V219 R220 G221 S222 V223 M224 P226 N227 D228 H229 H231 G234 E235 G236 K237 P239 I240 G241 R242 S244 P245 P248 W249 T253 L254 G255 Y256 K257 T258 R259 N262 R273

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0016740 transferase activity
• GO:0019843 rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8uu4, PDBe:8uu4, PDBj:8uu4
• PDBsum: 8uu4
• PubMed: 38407413
• UniProt: A0A0U5A742