Structure of PDB 8a63 Chain H Binding Site BS01

Receptor Information

>8a63 Chain H (length=206) Species: 169963 (Listeria monocytogenes EGD-e)

TKGILGRKVGMTQVFTENGELIPVTVIEAAQNVVLQKKTVETDGYEAVQI
GFEDKRAILSNKPEQGHVAKANTTPKRFIREFRDVNLDEYEIGAEVKVDV
FAEGDIIDATGVSKGKGFQGVIKRHGQSRGPMAHGSRYHRRPGSMGPVAP
NRVFKNKLLPGRMGGEQITIQNLEIVKVDVEKNVLLVKGNVPGAKKALVQ
IKTATK

Ligand information

>8a63 Chain A (length=2908)

uuaaguuagaaagggcgcacgguggaugccuuggcacuaggagccgaaga
aggacgggacuaacaccgauaugcuuuggggagcuguacguaagcguuga
uccagagauuuccgaaugggggaacccacuaucuuuagucggauaguauc
cuuacgugaauacauagcgugaggaaggcagacccagggaacugaaacau
cuaaguaccuggaggaagagaaagaaaaaucgauuuccugaguagcggcg
agcgaaacggaaagagcccaaaccaagaagcuugcuucuugggguuguag
gacacucuauauggaguuacaaaagaaaguuauaaaugaagcggucugga
aaggcccgccaaagacgguaacagcccgguaguugaaauggcuuucccuc
cagaguggauccugaguacggcggaacacgugaaauuccgucggaauccg
ggaggaccaucucccaaggcuaaauacucccuagugaccgauagugaacc
aguaccgugagggaaaggugaaaagcaccccggaaggggagugaaacagu
uccugaaaccgugugccuacaaguaguuagagcccguuaaugggugauag
cgugccuuuuguagaaugaaccggcgaguuacgauuuguugcaagguuaa
gcggaaaaagcggagccguagcgaaagcgagucugaauagggcgcauaag
uaacaggucguagacccgaaaccaggugaucuacccauguccaggaugaa
gguaagguaauacuuacuggagguccgaacccacgcacguugaaaagugc
ggggaugagguguggguagcggagaaauuccaaucgaacuuggagauagc
ugguucucuccgaaauagcuuuagggcuagccucgagguaaagagucaug
gagguagagcacuguuuggacuaggggcccuucucggguuaccgaauuca
gauaaacuccgaaugccauguacuuauacucgggagucagacugcgagug
auaagauccguagucgaaagggaaacagcccagaccaccaguuaaggucc
ccaaauauauguuaaguggaaaaggaugugggguugcuuagacaaccagg
auguuggcuuagaagcagccaccauugaaagagugcguaauagcucacug
gucgagugaccccgcgccgaaaauguaccggggcuaaacauauuaccgaa
acuguggaugaaccgguucgugguaggagagcguucuaagggcggugaag
ucagaccggaaggacugguggagcgcuuagaagugagaaugccgguauga
guagcgaaagaagggugagaaucccuuccaccgaauaucuaagguuuccu
gaggaaggcucguccgcucaggguuagucgggaccuaagccgaggccgau
aggcguaggcgauggacaacagguagagauuccuguaccagugcuaauug
uuuaaccgauggggugacacagaaggauagggaaucgcacgaauggaaau
gugcguccaagcagugagugugagaaguaggcaaauccgcuucucgcgaa
gcaugagcugugauggggaacggaaguuccugauuucacgcugucaagaa
aagccucuaggaagaguaguacugcccguaccgcaaaccgacacagguag
augaggagagaauccuaaggugagcgagagaacucucguuaaggaacucg
gcaaaaugaccccguaacuucgggagaaggggugcucuauuagggugcaa
gcccgagagagccgcagugaauaggcccaggcgacuguuuagcaaaaaca
caggucucugcaaaaccguaaggugacguauaggggcugacgccugcccg
gugcuggaagguuaagaggagugcuuagcuucggcgaagguacgaauuga
agccccaguaaacggcggccguaacuauaacgguccuaagguagcgaaau
uccuugucggguaaguuccgacccgcacgaaaggcgcaacgaucugggca
cugucucaacgagagacucggugaaauuauaguaccugugaagaugcagg
uuacccgcgacaggacggaaagaccccguggagcuuuacugcaaccugau
auggaauguuuguaccgcuuguacaggauagguaggagccgaagagacgu
gugcgcuagcauacgaggaggcaauggugggauacuacccuggcuguaug
accauucuaacccgccacgcuuagcgcguggggagacagugucagguggg
caguuugacuggggcggucgccuccuaaagaguaacggaggcgcccaaag
guucccucagaauggauggaaaucauucgcagaguguaaaggcacaaggg
agcuugacugcgagacugacaagucgagcagggacgaaagucgggcuuag
ugauccggugguuccgcauggaagggccaucgcucaacggauaaaagcua
ccccggggauaacaggcuuaucucccccaagaguccacaucgacggggag
guuuggcaccucgaugucggcucgucgcauccuggggcuguagucggucc
caaggguugggcuguucgcccauuaaagcggcacgcgagcuggguucaga
acgucgugagacaguucggucccuauccgucgcgggcgcaggaaauuuga
gaggagcuguccuuaguacgagaggaccgggauggacacaccgcuggugu
accaguuguuccgccaggagcaucgcuggguagcuauguguggcagggau
aaacgcugaaagcaucuaagcgugaagccccccucaagaugagauuuccc
auuucuucggaaaguaagaucccugaaagaugaucagguagauagguuug
gaguggaaguguagcgauacauggagcggacaaauacuaaucgaucgagg
acuuaacc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8a63 Structural basis for HflXr-mediated antibiotic resistance in Listeria monocytogenes.
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): M12 T13 Q14 P24 Q37 D44 Y46 Q50 R57 I59 L60 N62 K63 P64 G67 H68 K71 R78 I80 R81 E82 R84 S114 K115 G116 K117 G118 F119 G121 K124 R125 Q128 S129 R130 P132 M133 A134 H135 G136 R138 Y139 H140 R141 R142 P143 G144 S145 M146 G147 P148 V149 A150 P151 N152 R153 V154 F155 K156 K158 L160 P161 R163 Q168 I169 T170 Q172 N173 N191 V192 P193 G194 K197 K207
• Binding residue (residue number reindexed from 1): M11 T12 Q13 P23 Q36 D43 Y45 Q49 R56 I58 L59 N61 K62 P63 G66 H67 K70 R77 I79 R80 E81 R83 S113 K114 G115 K116 G117 F118 G120 K123 R124 Q127 S128 R129 P131 M132 A133 H134 G135 R137 Y138 H139 R140 R141 P142 G143 S144 M145 G146 P147 V148 A149 P150 N151 R152 V153 F154 K155 K157 L159 P160 R162 Q167 I168 T169 Q171 N172 N190 V191 P192 G193 K196 K206

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:8a63, PDBe:8a63, PDBj:8a63
• PDBsum: 8a63
• PubMed: 36300626
• UniProt: Q8Y440|RL3_LISMO Large ribosomal subunit protein uL3 (Gene Name=rplC)