Structure of PDB 8uu6 Chain C Binding Site BS02

Receptor Information

>8uu6 Chain C (length=273) Species: 1642 (Listeria innocua)

AIKKYKPTTNGRRHMTSSDFAEITTSTPEKSLLRPLKKKAGRNNQGKLTV
RHHGGGHKRQYRVIDFKRNKDGIPGRVATIEYDPNRSANIALINYADGEK
RYIIAAKGLEVGQTIYSGAEADIKVGNALELKDIPVGTVIHNIEMKPGKG
GQLVRSAGTSAQVLGKEGKYVLIRLNSGEVRMILATCRATIGQVGNEQHE
LINIGKAGRSRWMGKRPTVRGSVMNPNDHPHGGGEGKAPIGRKSPMSPWG
KPTLGYKTRKKNNNSDKFIVRRR

Ligand information

>8uu6 Chain A (length=2904)

guuaaguuagaaagggcgcacgguggaugccuuggcacuaggagccgaag
aaggacgggacuaacaccgauaugcuuuggggagcuguacguaagcguug
auccagagauuuccgaaugggggaacccacuaucuuuagucggauaguau
ccuuacgugaauacauagcgugaggaaggcagacccagggaacugaaaca
ucuaaguaccuggaggaagagaaagaaaaaucgauuuccugaguagcggc
gagcgaaacggaaagagcccaaaccaagaagcuugcuucuugggguugua
ggacacucuauacggaguuacaaaagaaaguuauaaaugaagcggucugg
aaaggcccgccaaagacgguaacagcccgguaguugaaauggcuuucccu
ccagaguggauccugaguacgacggaacacgugaaauuccgucggaaucc
gggaggaccaucucccaaggcuaaauacucccuagugaccgauagugaac
caguaccgugagggaaaggugaaaagcaccccggaaggggagugaaacag
uuccugaaaccgugugccuacaaguaguuagagcccguuaaugggugaua
gcgugccuuuuguagaaugaaccggcgaguuacgauuuguugcaagguua
agcggaaaaagcggagccguagcgaaagcgagucugaauagggcgcauaa
guaacaggucguagacccgaaaccaggugaucuacccauguccaggauga
agguaagguaauacuuacuggagguccgaacccacgcacguugaaaagug
cggggaugagguguggguagcggagaaauuccaaucgaacuuggagauag
cugguucucuccgaaauagcuuuagggcuagccucgagguaaagagucau
ggagguagagcacuguuuggacuaggggccgguuaccgaauucagauaaa
cuccgaaugccauguacuuauacucgggagucagacugcgagugauaaga
uccguagucgaaagggaaacagcccagaccaccaguuaagguccccaaau
auauguuaaguggaaaaggaugugggguugcuuagacaaccaggauguug
gcuuagaagcagccaccauugaaagagugcguaauagcucacuggucgag
ugaccccgcgccgaaaauguaccggggcuaaacauauuaccgaaacugug
gaugaaccgguucgugguaggagagcguucuaagggcggugaagucagac
cggaaggacugguggagcgcuuagaagugagaaugccgguaugaguagcg
aaagaagggugagaaucccuuccaccgaauaucuaagguuuccugaggaa
ggcucguccgcucaggguuagucgggaccuaagccgaggccgauaggcgu
aggcgauggacaacagguagagauuccuguaccagugcuaauuguuuaac
cgauggggugacacagaaggauagggaaucgcacgaauggaaaugugcgu
ccaagcagugagugugagaaguaggcaaauccgcuucuugcgaagcauga
gcugugauggggaagacggaaguuccugauuucacgcugucaagaaaagc
cucuaggaagaguaguacugcccguaccgcaaaccgacacagguagauga
ggagagaauccuaaggugagcgagagaacucucguuaaggaacucggcaa
aaugaccccguaacuucgggagaaggggugcucuauuagggugcaagccc
gagagagccgcagugaauaggcccaggcgacuguuuagcaaaaacacagg
ucucugcaaaaccguaaggugacguauaggggcugacgccugcccggugc
uggaagguuaagaggagugcuuagcuucggcgaagguacgaauugaagcc
ccaguaaacggcggccguaacuauaacgguccuaagguagcgaaauuccu
ugucggguaaguuccgacccgcacgaaaggcgcaacgaucugggcacugu
cucaacgagagacucggugaaauuauaguaccugugaagaugcagguuac
ccgcgacaggacggaaagaccccguggagcuuuacugcaaccugauaugg
aauguuuguaccgcuuguacaggauagguaggagccgaagagacgugugc
gcuagcauacgaggaggcaauggugggauacuacccuggcuguaugacca
uucuaacccgccacgcuaagcgcguggggagacagugucaggugggcagu
uugacuggggcggucgccuccuaaagaguaacggaggcgcccaaagguuc
ccucagaauggauggaaaucauucgcagaguguaaaggcacaagggagcu
ugacugcgagacugacaagucgagcagggacgaaagucgggcuuagugau
ccggugguuccgcauggaagggccaucgcucaacggauaaaagcuacccc
ggggauaacaggcuuaucucccccaagaguccacaucgacggggagguuu
ggcaccucgaugucggcucgucgcauccuggggcuguagucggucccaag
gguugggcuguucgcccauuaaagcggcacgcgagcuggguucagaacgu
cgugagacaguucggucccuauccgucgcgggcgcaggaaauuugagagg
agcuguccuuaguacgagaggaccgggauggacacaccgcugguguacca
guuguuccgccaggagcaucgcuggguagcuauguguggcagggauaaac
gcugaaagcaucuaagcgugaagccccccucaagaugagauuucccauuu
cuucggaaaguaagaucccugaaagaugaucagguagauagguuuggagu
ggaaguguagcgauacauggagcggacaaauacuaaucgaucgaggacuu
aacc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8uu6 Mechanistic insights into the alternative ribosome recycling by HflXr.
• Resolution: 3.3 Å
• Binding residue (original residue number in PDB): K7 P8 T10 N11 R13 R14 H15 G42 R43 N44 N45 Q46 L49 T50 V51 R52 H54 G56 H58 K59 R60 Q61 Y62 I74 Y83 P85 R87 D98 G99 E100 M146 K150 Q153 L154 R156 S157 A158 G159 Y171 N177 S178 E180 R182 H200 E201 I205 G206 K207 A208 G209 R210 S211 R212 W213 R217 P218 T219 V220 R221 G222 S223 V224 M225 N226 N228 H232 G235 E236 G237 K238 P240 I241 G242 R243 P249 W250 T254 G256 T259 R260 S266 R274
• Binding residue (residue number reindexed from 1): K6 P7 T9 N10 R12 R13 H14 G41 R42 N43 N44 Q45 L48 T49 V50 R51 H53 G55 H57 K58 R59 Q60 Y61 I73 Y82 P84 R86 D97 G98 E99 M145 K149 Q152 L153 R155 S156 A157 G158 Y170 N176 S177 E179 R181 H199 E200 I204 G205 K206 A207 G208 R209 S210 R211 W212 R216 P217 T218 V219 R220 G221 S222 V223 M224 N225 N227 H231 G234 E235 G236 K237 P239 I240 G241 R242 P248 W249 T253 G255 T258 R259 S265 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:8uu6, PDBe:8uu6, PDBj:8uu6
• PDBsum: 8uu6
• PubMed: 38407413
• UniProt: A0A0U5A742