Structure of PDB 4v7l Chain B8 Binding Site BS01

Receptor Information

>4v7l Chain B8 (length=63) Species: 300852 (Thermus thermophilus HB8)

PKMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLA
KPEAERIKLLLPY

Ligand information

>4v7l Chain BA (length=2800)

agaugguaagggcccacgguggaugccucggcacccgagccgaugaagga
cguggcuaccugcgauaagccagggggagccgguagcgggcguggauccc
uggauguccgaaugggggaacccggccggcgggaacgccggucaccgcgc
uugcgcggggggaaccuggggaacugaaacaucucaguacccagaggaga
ggaaagagaaaucgacucccugaguagcggcgagcgaaaggggaccagcc
uaaaccguccggcuuguccgggcggggucgggggcccucggccgaauccc
cagccuagccgaagcuguugggaagcagcgccagagagggugaaagcccc
guaggcgaaagguggggggauaggugaggguacccgaguaccccgugguu
cguggagccaugggggaaucugggcggaccaccgccuaaggcuaaguacu
ccgggugaccgauagcgcaccaguaccgugagggaaaggugaaaagaacc
ccgggaggggagugaaauagagccugaaaccgugggcuuacaagcaguca
cggccccaagggguuguggcgugccuauugaagcaugagccggcgacuca
cggucgugggcgagcuuaagccguugaggcggaggcguagggaaaccgag
uccgaacagggcgcguccgcggccguggacccgaaaccgggcgagcuagc
ccuggccagggugaagcuggggugagacccaguggaggcccgaaccggug
ggggaugcaaaccccucggaugagcuggggcuaggagugaaaagcuaacc
gagcccggagauagcugguucuccccgaaaugacuuuagggucagccuca
ggcgcugacuggggccuguagagcacugauagggcuagggggcccaccag
ccuaccaaacccugucaaacuccgaagggucccagguggagccugggagu
gagggcgcgagcgauaacguccgcguccgagcgcgggaacaaccgagacc
gccagcuaaggcccccaagucugggcuaagugguaaaggauguggcgccg
cgaagacagccagucgaguggcgccgcgccgaaaaugaucggggcuuaag
cccagcgccgaagcugcgggucugggggaugaccccaggcgguaggggag
cguucccgaugccgaugaaggccgacccgcgagggcggcuggagguaagg
gaagugcgaaugccggcaugaguaacgauaaagagggugagaaucccucu
cgccguaagcccaaggguuccuacgcaauggucgucagcguaggguuagg
cgggaccuaaggugaagccgaaaggcguagccgaagggcagccgguuaau
auuccggcccuucccgcaggugcgauggggggacgcucuaggcuaggggg
accggagccauggacgagcccggccagaagcgcagggugggagguaggca
aauccgccucccaacaagcucugcgugguggggaaaccccccgaagccag
ggagccaagaaaagccucuaagcacaaccugcgggaacccguaccgcaaa
ccgacacaggugggcgggugcaagagcacucaggcgcgcgggagaacccu
cgccaaggaacucugcaaguuggccccguaacuucgggagaaggggugcu
cccuggggugaugagccccggggagccgcagugaacaggcucuggcgacu
guuuaccaaaaacacagcucucugcgaacucguaagaggagguauaggga
gcgacgcuugcccggugccggaaggucaaggggaggggugcaagccccga
accgaagccccggugaacggcggccguaacuauaacgguccuaagguagc
gaaauuccuugucggguaaguuccgaccugcacgaaaagcguaacgaccg
gagcgcugucucggcgagggacccggugaaauugaacuggccgugaagau
gcggccuacccguggcaggacgaaaagaccccguggagcuuuacugcagc
cugguguuggcucuuggucgcgccugcguaggauaggugggagccuguga
acccccgccuccgggugggggggaggcgccggugaaauaccacccuggcg
cggcugggggccuaacccucggauggggggacagcgcuuggcgggcaguu
ugacuggggcggucgccuccuaaaagguaacggaggcgcccaaagguccc
cucaggcgggacggaaauccgccggagagcgcaaggguagaagggggccu
gacugcgaggccugcaagccgagcaggggcgaaagccgggccuagugaac
cgguggucccguguggaagggccaucgaucaacggauaaaaguuaccccg
gggauaacaggcugaucucccccgagcguccacagcggcggggagguuug
gcaccucgaugucggcucgucgcauccuggggcugaagaaggucccaagg
guugggcuguucgcccauuaaagcggcacgcgagcuggguucagaacguc
gugagacaguucggucucuauccgccacgggcgcaggaggcuugaggggg
gcucuuccuaguacgagaggaccggaagggacgcaccucugguuucccag
cugucccuccaggggcauaagcuggguagccaugugcggaagggauaacc
gcugaaagcaucuaagcgggaagcccgccccaagaugaggccucccacgg
cgucaagccgguaaggacccgggaagaccacccgguggaugggccggggg
uguaagcgccgcgaggcguugagccgaccggucccaaucguccgaggucu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v7l The structures of the anti-tuberculosis antibiotics viomycin and capreomycin bound to the 70S ribosome.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): P2 K3 M4 K5 T6 H7 K8 K11 K12 R13 K15 T17 A18 S19 K26 T27 G28 K29 R30 H31 L32 N33 W34 Q35 I41 R42 R46 K47 F48 K52 L62
• Binding residue (residue number reindexed from 1): P1 K2 M3 K4 T5 H6 K7 K10 K11 R12 K14 T16 A17 S18 K25 T26 G27 K28 R29 H30 L31 N32 W33 Q34 I40 R41 R45 K46 F47 K51 L61

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4v7l, PDBe:4v7l, PDBj:4v7l
• PDBsum: 4v7l
• PubMed: 20154709
• UniProt: Q5SKU1|RL35_THET8 Large ribosomal subunit protein bL35 (Gene Name=rpmI)