Structure of PDB 6ha8 Chain F Binding Site BS01

Receptor Information

>6ha8 Chain F (length=176) Species: 224308 (Bacillus subtilis subsp. subtilis str. 168)

NRLKEKYNKEIAPALMTKFNYDSVMQVPKIEKIVINMGVGDAVQNAKAID
SAVEELTFIAGQKPVVTRAKKSIAGFRLREGMPIGAKVTLRGERMYDFLD
KLISVSLPRVRDFRGVSKKSFDGRGNYTLGIKEQLIFPEIDYDKVTKVRG
MDIVIVTTANTDEEARELLTQVGMPF

Ligand information

>6ha8 Chain A (length=2887)

guuaaguuagaaagggcgcacgguggaugccuuggcacuaggagccgaug
aaggacgggacgaacaccgauaugcuucggggagcuguaagcaagcuuug
auccggagauuuccgaauggggaaacccaccacucguaauggagugguau
ccauaucugaauucauaggauaugagaaggcagacccggggaacugaaac
aucuaaguacccggaggaagagaaagcaaaugcgauucccugaguagcgg
cgagcgaaacgggaucagcccaaaccaagaggcuugccucuugggguugu
aggacacucgaacgagguagaugaagaggucuggaaaggcccgccauagg
agguaacagcccuguagucaaaacuucguucgaguggauccugaguacgg
cggaacacgugaaauuccgucggaauccgggaggaccaucucccaaggcu
aaauacucccuagugaccgauagugaaccaguaccgugagggaaagguga
aaagcaccccggaaggggagugaaagagauccugaaaccgugugccuaca
aguagucagagcccguuaacgggugauggcgugccuuuuguagaaugaac
cggcgaguuacgaucucgugcaagguuaagcagaagaugcggagccgcag
cgaaagcgagucugaauagggcgcaugaguacguggucguagacccgaaa
ccaggugaucuacccauguccagggugaaguucagguaacacugaaugga
ggcccgaacccacgcacguugaaaagugcggggaugagguguggguaggg
gugaaaugccaaucgaaccuggagauagcugguucucuccgaaauagcuu
uagggcuagccucaagguaagagucuuggagguagagcacugauuggacu
aggggccccuaccggguuaccgaauucagucaaacuccgaaugccaauga
cuuauccuugggagucagacugcgagugauaagauccguagucgaaaggg
aaacagcccagaccgccagcuaaggucccaaaguauacguuaaguggaaa
aggauguggaguugcuuagacaaccaggauguuggcuuagaagcagccac
cauuuaaagagugcguaauagcucacuggucgagugacucugcgccgaaa
auguaccggggcuaaacguaucaccgaagcugcggacuguucgaacagug
guaggagagcguucuaagggcugugaagccagaccggaaggacuggugga
gcgcuuagaagugagaaugccgguaugaguagcgaaagaggggugagaau
ccccuccaccgaaugccuaagguuuccugaggaaggcucguccgcucagg
guuagucgggaccuaagccgaggccgaaaggcguaggcgauggacaacag
guugauauuccuguaccaccuccucaccauuugagcaauggggggacgca
ggaggauaggguaagcgcgguauuggauauccgcguccaagcaguuaggc
ugggaaauaggcaaauccguuucccaaaggcugagcugugauggcgagcg
cgaaguuccugauuccacacugccaagaaaagccucuagcgaggugagag
gugcccguaccgcaaaccgacacagguaggcgaggagagaauccuaaggu
gaucgagagaacucucguuaaggaacucggcaaaaugaccccguaacuuc
gggagaaggggugcucuguuagggugcaagcccgagagagccgcagugaa
uaggcccaggcgacuguuuagcaaaaacacaggucucugcgaagccguaa
ggcgaaguauaggggcugacgccugcccggugcuggaagguuaagaggag
cgcuuagcguaagcgaaggugcgaauugaagccccaguaaacggcggccg
uaacuauaacgguccuaagguagcgaaauuccuugucggguaaguuccga
cccgcacgaaaggcgcaacgaucugggcacugucucaacgagagacucgg
ugaaauuauaguaccugugaagaugcagguuacccgcgacaggacggaaa
gaccccguggagcuuuacugcagccugauauugaauguugguacagcuug
uacaggauagguaggagccuuggaaaccggagcgccagcuucgguggagg
caucggugggauacuacccuggcuguauugaccuucuaacccgccgcccu
uaucgggcggggagacagugucaggugggcaguuugacuggggcggucgc
cuccuaaaagguaacggaggcgcccaaagguucccucagaaugguuggaa
aucauucgcagaguguaaaggcacaagggagcuugacugcgagaccuaca
agucgagcagggacgaaagucgggcuuagugauccggugguuccgcaugg
aagggccaucgcucaacggauaaaagcuaccccggggauaacaggcuuau
cucccccaagaguccacaucgacggggagguuuggcaccucgaugucggc
ucaucgcauccuggggcuguagucggucccaaggguugggcuguucgccc
auuaaagcgguacgcgagcuggguucagaacgucgugagacaguucgguc
ccuauccgucgcgggcgcaggaaauuugagaggagcuguccuuaguacga
gaggaccgggauggacgcaccgcugguguaccaguuguucugccaagggc
aucgcuggguagcuaugugcggacgggauaagugcugaaagcaucuaagc
augaagccccccucaagaugagauuucccauuccgcaaggaaguaagauc
ccugaaagaugaucagguugauaggucugagguggaaguguggcgacaca
uggagcugacagauacuaaucgaucgaggacuuaacc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6ha8 Structural basis for antibiotic resistance mediated by theBacillus subtilisABCF ATPase VmlR.
• Resolution: 3.5 Å
• Binding residue (original residue number in PDB): K33 N37 G41 T68 K71 K72 F77 I85 K88 S121 D123 N127 T129 G131 I132 K133 R150 G151 D153
• Binding residue (residue number reindexed from 1): K32 N36 G40 T67 K70 K71 F76 I84 K87 S120 D122 N126 T128 G130 I131 K132 R149 G150 D152

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003723 RNA binding
• 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:6ha8, PDBe:6ha8, PDBj:6ha8
• PDBsum: 6ha8
• PubMed: 30126986
• UniProt: P12877|RL5_BACSU Large ribosomal subunit protein uL5 (Gene Name=rplE)