Structure of PDB 4v9b Chain DD Binding Site BS01

Receptor Information
>4v9b Chain DD (length=272) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AVKKFKPYTPSRRFMTVADFSEITKTEPEKSLVKPLKKTGGRNNQGRITV
RFRGGGHKRLYRIIDFKRWDKVGIPAKVAAIEYDPNRSARIALLHYVDGE
KRYIIAPDGLQVGQQVVAGPDAPIQVGNALPLRFIPVGTVVHAVELEPKK
GAKLARAAGTSAQIQGREGDYVILRLPSGELRKVHGECYATVGAVGNADH
KNIVLGKAGRSRWLGRRPHVRGAAMNPVDHPHGGGEGRAPRGRPPASPWG
WQTKGLKTRKRRKPSSRFIIAR
Ligand information
>4v9b Chain CA (length=1506) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uggagaguuugauccuggcucagggugaacgcuggcggcgugccuaagac
augcaagucgugcgggccgcgggguuuuacuccguggucagcggcggacg
ggugaguaacgcgugggugaccuacccggaagagggggacaacccgggga
aacucgggcuaaucccccauguggacccgccccuugggguguguccaaag
ggcuuugcccgcuuccggaugggcccgcgucccaucagcuaguugguggg
guaauggcccaccaaggcgacgacggguagccggucugagaggauggccg
gccacaggggcacugagacacgggccccacuccuacgggaggcagcaguu
aggaaucuuccgcaaugggcgcaagccugacggagcgacgccgcuuggag
gaagaagcccuucgggguguaaacuccugaacccgggacgaaacccccga
cgaggggacugacgguaccgggguaauagcgccggccaacuccgugccag
cagccgcgguaauacggagggcgcgagcguuacccggauucacugggcgu
aaagggcguguaggcggccuggggcgucccaugugaaagaccacggcuca
accgugggggagcgugggauacgcucaggcuagacggugggagagggugg
uggaauucccggaguagcggugaaaugcgcagauaccgggaggaacgccg
auggcgaaggcagccaccugguccacccgugacgcugaggcgcgaaagcg
uggggagcaaaccggauuagauacccggguaguccacgcccuaaacgaug
cgcgcuaggucucugggucuccugggggccgaagcuaacgcguuaagcgc
gccgccuggggaguacggccgcaaggcugaaacucaaaggaauugacggg
ggcccgcacaagcgguggagcaugugguuuaauucgaagcaacgcgaaga
accuuaccaggccuugacaugcuagggaacccgggugaaagccuggggug
ccccgcgaggggagcccuagcacaggugcugcauggccgucgucagcucg
ugccgugagguguuggguuaagucccgcaacgagcgcaacccccgccguu
aguugccagcgguucggccgggcacucuaacgggacugcccgcgaaagcg
ggaggaaggaggggacgacgucuggucagcauggcccuuacggccugggc
gacacacgugcuacaaugcccacuacaaagcgaugccacccggcaacggg
gagcuaaucgcaaaaaggugggcccaguucggauuggggucugcaacccg
accccaugaagccggaaucgcuaguaaucgcggaucagccaugccgcggu
gaauacguucccgggccuuguacacaccgcccgucacgccaugggagcgg
gcucuacccgaagucgccgggagccuacgggcaggcgccgaggguagggc
ccgugacuggggcgaagucguaacaagguagcuguaccggaaggugcggc
uggauc
....<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<..<..<<<
.<<<..<<<..<<.<<<<<<<<<.......>>>>>>>>>.>>>>>.....
.<<.......<<<<<<<<..<<...<<<<<<<.<<<<<....<<<<<...
...>>>>>.....>>>>>...<<<<<.<<<<<....>>>>>.>>>>>..<
<<<...>>>>.>>>>>>>..>>>>>>>>>><<<....<<<..<<<<<<<<
.......>>>>>>>>>>>......>>>..<<<<<<<<....>>>>...>>
>>.>>.<<<<<.<.........>>>>>>.<<<<<..>>>>>...>>>>>>
>........<<<....<<<<....>>>>..>>>..>>.>>>>>>..<<<<
......<<<<....>>>>.....>>>>....<<<<<........<<<<..
...>>>>..........>>>>>......<<<<<(((...<<<<<.....<
<.)))>>.......>>>>>>>>>>..>>>>>>>>>..........<<<((
.....<<<<...<<<.<<<<<<<.<<<<<<<<<<......<<<<<<....
.>>>>>>....>>>>>>>>..>>>>>>>>>...<<<<<<<<...<<<<<<
<....<<<<<<<.<..<<<......>>>.....>.>>>>>>>........
...<<....>>.>>>>>>>..>>>>>.>>>...>>>...>>>>....<<<
<<<...<<...<<<<.<.....>.>>>>...>>>>>>>>..........<
<<<<<..<<<<<<<<<<...>>>>>>>>>>...<<..))>>.....>>>>
>>.>>>.<<<......<<<<....>>>>....>>>..)))).]<<<<<.<
<<<<<<.<<.<<<<<<..<<<<<<<<<<......<<........>>....
......<<<<<<<......<<<<<<<<...<<<<<<....>>>>>>..<.
<<<......>>>.>>>>>>>>>.<<<.<<<..<<<<<<.......<<<<<
<<<<....>>>..<<<<......>>>>..>>>>>>.....<<<<.<<<<<
<....<...<<<.....>>>.>.....>>>>>>.....<<<<<....>>>
>>........>>>>.........>>>...>>>>>>>>>...>>>>>>>..
.>>.>>>>>>>>.....<<<<<<<.....<<<..<<..<<<<....>>>>
..>>....>>>.....>>>>>>>......<....<<<<<<<........>
>>>>>>....>.....>>>>>>....<<<<<<<..........>>>>>>>
......>>...>>>>>>>>>>.>>....<..<<.<.<<<<.<<<..<<<<
<<<<<<<<<...<.<<<<....<<<....>>>.>>>>.>..>>>>>>>>>
>>>>..>>>.>>>>..>.>>...>.....<<<<<<<<<....>>>>>>>>
>.....
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB4v9b Structural basis for potent inhibitory activity of the antibiotic tigecycline during protein synthesis.
Resolution3.1 Å
Binding residue
(original residue number in PDB)		Q166 K202
Binding residue
(residue number reindexed from 1)		Q165 K201
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0016740 transferase activity
GO:0019843 rRNA binding
Biological Process
GO:0002181 cytoplasmic translation
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:0015934 large ribosomal subunit
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:4v9b, PDBe:4v9b, PDBj:4v9b
PDBsum4v9b
PubMed23431179
UniProtP60405|RL2_THET8 Large ribosomal subunit protein uL2 (Gene Name=rplB)

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