Structure of PDB 8buu Chain W Binding Site BS01

Receptor Information

>8buu Chain W (length=79) Species: 224308 (Bacillus subtilis subsp. subtilis str. 168)

GSTKNGRDSEAKRLGAKRADGQFVTGGSILYRQRGTKIYPGENVGRGGDD
TLFAKIDGTVKFERFGRDRKKVSVYPVAQ

Ligand information

>8buu Chain A (length=2852)

uuaaguuagaaagggcgcacgguggaugccuuggcacuaggagccgauga
aggacgggacgaacaccgauaugcuucggggagcuguaagcaagcuuuga
uccggagauuuccgaauggggaaacccaccacucguaauggagugguauc
cauaucugaauucauaggauaugagaaggcagacccggggaacugaaaca
ucuaaguacccggaggaagagaaagcaaaugcgauucccugaguagcggc
gagcgaaacgggauuagcccaaaccaagaggcuugccucuugggguugua
ggacacucuguacggaguuacaaaggaacgagguagaugaagaggucugg
aaaggcccgccauaggagguaacagcccuguagucaaaacuucguucucu
ccugaguggauccugaguacggcggaacacgugaaauuccgucggaaucc
gggaggaccaucucccaaggcuaaauacucccuagugaccgauagugaac
caguaccgugagggaaaggugaaaagcaccccggaaggggagugaaagag
auccugaaaccgugugccuacaaguagucagagcccguuaacgggugaug
gcgugccuuuuguagaaugaaccggcgaguuacgaucccgugcaagguua
agcagaagaugcggagccgcagcgaaagcgagucugaauagggcgcauga
guacguggucguagacccgaaaccaggugaucuacccauguccaggguga
aguucagguaacacugaauggaggcccgaacccacgcacguugaaaagug
cggggaugagguguggguaggggugaaaugccaaucgaaccuggagauag
cugguucucuccgaaauagcuuuagggcuagccucaagguaagagucuug
gagguagagcacugauuggacuaggggccgguuaccgaauucagucaaac
uccgaaugccaaugacuuauccuugggagucagacugcgagugauaagau
ccguagucgaaagggaaacagcccagaccgccagcuaaggucccaaagua
uacguuaaguggaaaaggauguggaguugcuuagacaacuggucgaguga
cucugcgccgaaaauguaccggggcuaaacguaucaccgaagcugcggac
uguucgaacagugguaggagagcguucuaagggcugugaagccagaccgg
aaggacugguggagcgcuuagaagugagaaugccgguaugaguagcgaaa
gaggggugagaauccccuccaccgaaugccuaagguuuccugaggaaggc
ucguccgcucaggguuagucgggaccuaagccgaggccgaaaggcguagg
cgauggacaacagguugauauuccuguaccaccuccucaccauuugagca
auggggggacgcaggaggauaggguaagcgcgguauuggauauccgcguc
caagcaguuaggcugggaaauaggcaaauccguuucccauaaggcugagc
ugugauggcgagcgagcgaaguuccugauuccacacugccaagaaaagcc
ucuagcgaggugagaggugcccguaccgcaaaccgacacagguaggcgag
gagagaauccuaaggugaucgagagaacucucguuaaggaacucggcaaa
augaccccguaacuucgggagaaggggugcucuguuagggugcaagcccg
agagagccgcagugaauaggcccaggcgacuguuuagcaaaaacacaggu
cucugcgaagccguaaggcgaaguauaggggcugacgccugcccggugcu
ggaagguuaagaggagcgcuuagcguaagcgaaggugcgaauugaagccc
caguaaacggcggccguaacuauaacgguccuaagguagcgaaauuccuu
gucggguaaguuccgacccgcacgaaaggcgcaacgaucugggcacuguc
ucaacgagagacucggugaaauuauaguaccugugaagaugcagguuacc
cgcgacaggacggaaagaccccguggagcuuuacugcagccugauauuga
auguugguacagcuuguacaggauagguaggagccuuggaaaccggagcg
ccagcuucgguggaggcaucggugggauacuacccuggcuguauugaccu
ucuaacccgccgcccuuaucgggcggggagacagugucaggugggcaguu
ugacuggggcggucgccuccuaaaagguaacggaggcgcccaaagguucc
cucagaaugguuggaaaucauucgcagaguguaaaggcacaagggagcuu
gacugcgagaccuacaagucgagcagggacgaaagucgggcuuagugauc
cggugguuccgcauggaagggccaucgcucaacggauaaaagcuaccccg
gggauaacaggcuuaucucccccaagaguccacaucgacggggagguuug
gcaccucgaugucggcucaucgcauccuggggcuguagucagucccaagg
guugggcuguucgcccauuaaagcgguacgcgagcuggguucagaacguc
gugagacaguucggucccuauccgucgcgggcgcaggaaauuugagagga
gcuguccuuaguacgagaggaccgggauggacgcaccgcugguguaccag
uuguucugccaagggcaucgcuggguagcuaugugcggacgggauaagug
cugaaagcaucuaagcaugaagccccccucaagaugagauuucccauucc
gcaaggaaguaagaucccugaaagaugaucagguugauaggucugaggug
gaaguguggcgacacauggagcugacagauacuaaucgaucgaggacuua
ac

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8buu Genome-encoded ABCF factors implicated in intrinsic antibiotic resistance in Gram-positive bacteria: VmlR2, Ard1 and CplR.
• Resolution: 2.9 Å
• Binding residue (original residue number in PDB): S17 T18 N20 R22 D23 S24 E25 A26 K27 R28 L29 K32 R33 A34 D35 Q37 G41 G42 S43 I44 Y46 R47 R49 G50 T51 K52 Y54 G62 G63 D64 D65 F68 K70 F77 R84 K85
• Binding residue (residue number reindexed from 1): S2 T3 N5 R7 D8 S9 E10 A11 K12 R13 L14 K17 R18 A19 D20 Q22 G26 G27 S28 I29 Y31 R32 R34 G35 T36 K37 Y39 G47 G48 D49 D50 F53 K55 F62 R69 K70

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:8buu, PDBe:8buu, PDBj:8buu
• PDBsum: 8buu
• PubMed: 36951104
• UniProt: P05657|RL27_BACSU Large ribosomal subunit protein bL27 (Gene Name=rpmA)