Structure of PDB 4v7m Chain DV Binding Site BS01

Receptor Information

>4v7m Chain DV (length=101) Species: 300852 (Thermus thermophilus HB8)

MFAIVKTGGKQYRVEPGLKLRVEKLDAEPGATVELPVLLLGGEKTVVGTP
VVEGASVVAEVLGHGRGKKILVSKFKAKVQYRRKKGHRQPYTELLIKEIR
G

Ligand information

>4v7m Chain DA (length=2775)

agaugguaagggcccacgguggaugccucggcacccgagccgaugaagga
cguggcuaccugcgauaagccagggggagccgguagcgggcguggauccc
uggauguccgaaugggggaacccggccggcgggaacgccggucaccgcgc
uugcgcggggggaaccuggggaacugaaacaucucaguacccagaggaga
ggaaagagaaaucgacucccugaguagcggcgagcgaaaggggaccagcc
uaaaccguccggcuuguccgggcggggucgggggcccucgccgaaucccc
agccuagccgaagcuguugggaagcagcgccagagagggugaaagccccg
uaggcgaaagguggggggauaggugaggguacccgaguaccccgugguuc
guggagccaugggggaaucugggcggaccaccgccuaaggcuaaguacuc
cgggugaccgauagcgcaccaguaccgugagggaaaggugaaaagaaccc
cgggaggggagugaaauagagccugaaaccgugggcuuacaagcagucac
ggccccgggguuguggcgugccuauugaagcaugagccggcgacucacgg
ucgugggcgagcuuaagccguugaggcggaggcguagggaaaccgagucc
gaacagggcgguccgcggccguggacccgaaaccgggcgagcuagcccug
gccagggugaagcuggggugagacccaguggaggcccgaaccgguggggg
augcaaaccccucggaugagcuggggcuaggagugaaaagcuaaccgagc
ccggagauagcugguucuccccgaaaugacuuuagggucagccucaggcg
cugacuggggccuguagagcacugauagggcuagggggcccaccagccua
ccaaacccugucaaacuccgaagggucccagguggagccugggagugagg
gcgcgagcgauaacguccgcguccgagcgcgggaacaaccgagaccgcca
gcuaaggcccccaagucugggcuaagugguaaaggauguggcgccgcggu
ggcgccgcgccgaaaaugaucggggcuuaagcccagcgccgaagcugcgg
gucuggggccccaggcgguaggggagcguucccgaugccgaugaaggccg
acccgcgagggcggcuggagguaagggaagugcgaaugccggcaugagua
acgauaaagagggugagaaucccucucgccguaagcccaaggguuccuac
gcaauggucgucagcguaggguuaggcgggaccuaaggugaagccgaaag
gcguagccgaagggcagccgguuaauauuccggcccuucccgcaggugcg
auggggggacgcucuaggcuagggggaccggagccauggacgagcccggc
cagaagcgcagggugggagguaggcaaauccgccucccaacaagcucugc
gugguggggaagcaaccccccgaagccagggagccaagaaaagccucuaa
gcacaaccugcgggaacccguaccgcaaaccgacacaggugggcgggugc
aagagcacucaggcgcgcgggagaacccucgccaaggaacucugcaaguu
ggccccguaacuucgggagaaggggugcucccuggggugaugagccccgg
ggagccgcagugaacaggcucuggcgacuguuuaccaaaaacacagcucu
cugcgaacucguaagaggagguauagggagcgacgcuugcccggugccgg
aaggucaaggggaggggugcaagccccgaaccgaagccccggugaacggc
ggccguaacuauaacgguccuaagguagcgaaauuccuugucggguaagu
uccgaccugcacgaaaagcguaacgaccggagcgcugucucggcgaggga
cccggugaaauugaacuggccgugaagaugcggccuacccguggcaggac
gaaaagaccccguggagcuuuacugcagccugguguuggcucuuggucgc
gccugcguaggauaggugggagccugugaacccccgccuccggguggggg
ggaggcgccggugaaauaccacccuggcgcggcugggggccuaacccucg
gggggacagcgcuuggcgggcaguuugacuggggcggucgccuccuaaaa
gguaacggaggcgcccaaagguccccucaggcgggacggaaauccgccgg
agagcgcaaggguagaagggggccugacugcgaggccugcaagccgagca
ggggcgaaagccgggccuagugaaccgguggucccguguggaagggccau
cgaucaacggauaaaaguuaccccggggauaacaggcugaucucccccga
gcguccacagcggcggggagguuuggcaccucgaugucggcucgucgcau
ccuggggcugaagaaggucccaaggguugggcuguucgcccauuaaagcg
gcacgcgagcuggguucagaacgucgugagacaguucggucucuauccgc
cacgggcgcaggaggcuugaggggggcucuuccuaguacgagaggaccgg
aagggacgcaccucugguuucccagcugucccuccaggggcauaagcugg
guagccaugugcggaagggauaaccgcugaaagcaucuaagcgggaagcc
cgccccaagaugaggccucccacggcgucaagccgguaaggacccgggaa
gaccacccgguggaugggccggggguguaagcgccgcgaggcguugagcc
gaccggucccaaucguccgaggucu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v7m The structures of the anti-tuberculosis antibiotics viomycin and capreomycin bound to the 70S ribosome.
• Resolution: 3.45 Å
• Binding residue (original residue number in PDB): G8 G9 K10 E23 K24 R66 K68 K69 K74 F75 K76 A77 K78 V79 Y81 R82 R83 K84 K85 G86 H87 Q89
• Binding residue (residue number reindexed from 1): G8 G9 K10 E23 K24 R66 K68 K69 K74 F75 K76 A77 K78 V79 Y81 R82 R83 K84 K85 G86 H87 Q89

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4v7m, PDBe:4v7m, PDBj:4v7m
• PDBsum: 4v7m
• PubMed: 20154709
• UniProt: P60492|RL21_THET8 Large ribosomal subunit protein bL21 (Gene Name=rplU)