Structure of PDB 8buu Chain e Binding Site BS01

Receptor Information

>8buu Chain e (length=163) Species: 224308 (Bacillus subtilis subsp. subtilis str. 168)

IDPSKLELEERLVTVNRVAKVVKGGRRFRFAALVVVGDKNGHVGFGTGKA
QEVPEAIRKAVEDAKKNLIEVPMVGTTIPHEIIGRFGAGNILLKPASEGT
GVIAGGPVRAVLELAGVADILSKSLGSNTPINMIRATLQGLSELKRAEDV
AKLRGKSVEELLG

Ligand information

>8buu Chain a (length=1538)

ggagaguuugauccuggcucaggacgaacgcuggcggcgugccuaauaca
ugcaagucgagcggacagaugggagcuugcucccugauguuagcggcgga
cgggugaguaacacguggguaaccugccuguaagacugggauaacuccgg
gaaaccggggcuaauaccggaugguuguuugaaccgcaugguucaaacau
aaaagguggcuucggcuaccacuuacagauggacccgcggcgcauuagcu
aguuggugagguaacggcucaccaaggcgacgaugcguagccgaccugag
agggugaucggccacacugggacugagacacggcccagacuccuacggga
ggcagcaguagggaaucuuccgcaauggacgaaagucugacggagcaacg
ccgcgugagugaugaagguuuucggaucguaaagcucuguuguuagggaa
gaacaaguaccguucgaauagggcgguaccuugacgguaccuaaccagaa
agccacggcuaacuacgugccagcagccgcgguaauacguagguggcaag
cguuguccggaauuauugggcguaaagggcucgcaggcgguuucuuaagu
cugaugugaaagcccccggcucaaccggggagggucauuggaaacugggg
aacuugagugcagaagaggagaguggaauuccacguguagcggugaaaug
cguagagauguggaggaacaccaguggcgaaggcgacucucuggucugua
acugacgcugaggagcgaaagcguggggagcgaacaggauuagauacccu
gguaguccacgccguaaacgaugagugcuaaguguuaggggguuuccgcc
ccuuagugcugcagcuaacgcauuaagcacuccgccuggggaguacgguc
gcaagacugaaacucaaaggaauugacgggggcccgcacaagcgguggag
caugugguuuaauucgaagcaacgcgaagaaccuuaccaggucuugacau
ccucugacaauccuagagauaggacgucccggggcagagugacagguggu
gcaugguugucgucagcucgugucgugagauguuggguuaagucccgcaa
cgagcgcaacccuugaucuuaguugccagcauucaguugggcacucuaag
gugacugccggugacaaaccggaggaagguggggaugacgucaaaucauc
augccccuuaugaccugggcuacacacgugcuacaauggacagaacaaag
ggcagcgaaaccgcgagguuaagccaaucccacaaaucuguucucaguuc
ggaucgcagucugcaacucgacugcgugaagcuggaaucgcuaguaaucg
cggaucagcaugccgcggugaauacguucccgggccuuguacacaccgcc
cgucacaccacgagaguuuguaacacccgaagucggugagguaaccuuuu
aggagccagccgccgaaggugggacagaugauuggggugaagucguaaca
agguagccguaucggaaggugcggcuggaucaccuccu

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

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): N19 V21 A22 K23 V24 V25 G27 R29 R30 R32 K52 Q54 K62 K97 A99 S100 T103 I106 A107 G108 R112 L124 S125 K126 S127 L128 S130 N131 T132 N135 R138
• Binding residue (residue number reindexed from 1): N16 V18 A19 K20 V21 V22 G24 R26 R27 R29 K49 Q51 K59 K94 A96 S97 T100 I103 A104 G105 R109 L121 S122 K123 S124 L125 S127 N128 T129 N132 R135

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation
• GO:0046677 response to antibiotic

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8buu, PDBe:8buu, PDBj:8buu
• PDBsum: 8buu
• PubMed: 36951104
• UniProt: P21467|RS5_BACSU Small ribosomal subunit protein uS5 (Gene Name=rpsE)