Structure of PDB 4v8a Chain DF Binding Site BS01

Receptor Information
>4v8a Chain DF (length=100) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MRRYEVNIVLNPNLDQSQLALEKEIIQRALENYGARVEKVEELGLRRLAY
PIAKDPQGYFLWYQVEMPEDRVNDLARELRIRDNVRRVMVVKSQEPFLAN
Ligand information
>4v8a Chain DA (length=1498) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
guuggagaguuugauccuggcucagggugaacgcuggcggcgugccuaag
acaugcaagucgugcgggccgcgggcccguggucagcggcggacggguga
guaacgcgugggugaccuacccggaagagggggacaacccggggaaacuc
gggcuaaucccccauguggacccgccccuugggguguguccaaagggcuu
ugcccgcuuccggaugggcccgcgucccaucagcuaguuggugggguaau
ggcccaccaaggcgacgacggguagccggucugagaggauggccggccac
aggggcacugagacacgggccccacuccuacgggaggcagcaguuaggaa
ucuuccgcaaugggcgcaagccugacggagcgacgccgcuuggaggaaga
agcccuucgggguguaaacuccugaacccgggacgaaacccccgacgagg
ggacugacgguaccgggguaauagcgccggccaacuccgugccagcagcc
gcgguaauacggagggcgcgagcguuacccggauucacugggcguaaagg
gcguguaggcggccuggggcgucccaugugaaagaccacggcucaaccgu
gggggagcgugggauacgcucaggcuagacggugggagagggugguggaa
uucccggaguagcggugaaaugcgcagauaccgggaggaacgccgauggc
gaaggcagccaccugguccacccgugacgcugaggcgcgaaagcgugggg
agcaaaccggauuagauacccggguaguccacgcccuaaacgaugcgcgc
uaggucucugggucuccugggggccgaagcuaacgcguuaagcgcgccgc
cuggggaguacggccgcaaggcugaaacucaaaggaauugacgggggccc
gcacaagcgguggagcaugugguuuaauucgaagcaacgcgaagaaccuu
accaggccuugacaugcuagggaacccgggugaaagccuggggugccccg
cgaggggagcccuagcacaggugcugcauggccgucgucagcucgugccg
ugagguguuggguuaagucccgcaacgagcgcaacccccgccguuaguug
ccagcgguucggccgggcacucuaacgggacugcccgcgaaagcgggagg
aaggaggggacgacgucuggucagcauggcccuuacggccugggcgacac
acgugcuacaaugcccacuacaaagcgaugccacccggcaacggggagcu
aaucgcaaaaaggugggcccaguucggauuggggucugcaacccgacccc
augaagccggaaucgcuaguaaucgcggaucagccaugccgcggugaaua
cguucccgggccuuguacacaccgcccgucacgccaugggagcgggcucu
acccgaagucgccgggagccuacgggcaggcgccgaggguagggcccgug
acuggggcgaagucguaacaagguagcuguaccggaaggugcggcugg
......<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<..<..<
<<.<<<..<<<..<<.<<<<<<<<..>>>>>>>>.>>>>>......<<..
.....<<<<<<<<..<<...<<<<<<<.<<<<<....<<<<<......>>
>>>.....>>>>>...<<<<<.<<<<<....>>>>>.>>>>>..<<<<..
.>>>>.>>>>>>>..>>>>>>>>>><<<....<<<..<<<<<<<<.....
..>>>>>>>>>>>......>>>..<<<<<<<<....>>>>...>>>>.>>
.<<<<<.<.........>>>>>>.<<<<....>>>>...>>>>>>>....
....<<<....<<<<....>>>>..>>>..>>.>>>>>>..<<<<.....
.<<<<....>>>>.....>>>>....<<<<<......<.<<<<.....>>
>>..>.......>>>>>......<<<<<(((...<<<<<.....<<.)))
>>.......>>>>>>>>>>..>>>>>>>>>..........<<<((.....
<<<<...<<<.<<<<<<<.<<<<<<<<<<......<<<<<<.....>>>>
>>....>>>>>>>>..>>>>>>>>>...<<<<<<<<...<<<<<<<....
<<<<<<<.<..<<<......>>>.....>.>>>>>>>...........<<
....>>.>>>>>>>..>>>>>.>>>...>>>...>>>>....<<<<<<..
.<<...<<<<.<.....>.>>>>...>>>>>>>>..........<<<<<<
..<<<<<<<<<<...>>>>>>>>>>...<<..))>>.....>>>>>>.>>
>.<<<......<<<<....>>>>....>>>..)))).]<<<<<.<<<<<<
<.<<.<<<<<<..<<<<<<<<<<......<<........>>.........
.<<<<<<<......<<<<<<<<..<<<<<<<....>>>>>>>.....<..
....>....>>>>>>>>..<<.<<<..<<<<<<.......<<<<<<<<<.
...>>>..<<<<......>>>>..>>>>>>.....<<<<.<<<<<<<...
<...<<<.....>>>>.....>>>>>>>.....<<<<<....>>>>>...
.....>>>>.........>>>...>>>>>>>>....>>>>>>>...>>.>
>>>>>>>.....<<<<<<<.....<<<..<<..<<<<....>>>>..>>.
...>>>.....>>>>>>>.........<.<<<<<<<........>>>>>>
>>.........>>>>>>....<<<<<<<..........>>>>>>>.....
.>>...>>>>>>>>>>.>>....<..<<.<.<<<<.<<<..<<<<<<<<<
<<<<...<.<<<<....<<<....>>>.>>>>.>..>>>>>>>>>>>>>.
.>>>.>>>>..>.>>...>.....<<<<<<<<<....>>>>>>>>>..
Receptor-Ligand Complex Structure
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PDB4v8a The antibiotic thermorubin inhibits protein synthesis by binding to inter-subunit bridge b2a of the ribosome.
Resolution3.2 Å
Binding residue
(original residue number in PDB)		R2 N73 R80 R87 M89 K92
Binding residue
(residue number reindexed from 1)		R2 N73 R80 R87 M89 K92
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
GO:0070181 small ribosomal subunit rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005737 cytoplasm
GO:0005840 ribosome
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:4v8a, PDBe:4v8a, PDBj:4v8a
PDBsum4v8a
PubMed22240456
UniProtQ5SLP8|RS6_THET8 Small ribosomal subunit protein bS6 (Gene Name=rpsF)

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