Structure of PDB 4v7m Chain BW Binding Site BS01

Receptor Information

>4v7m Chain BW (length=113) Species: 300852 (Thermus thermophilus HB8)

MEAKAIARYVRISPRKVRLVVDLIRGKSLEEARNILRYTNKRGAYFVAKV
LESAAANAVNNHDMLEDRLYVKAAYVDEGPALKRVLPRARGRADIIKKRT
SHITVILGEKHGK

Ligand information

>4v7m Chain BA (length=2789)

agaugguaagggcccacgguggaugccucggcacccgagccgaugaagga
cguggcuaccugcgauaagccagggggagccgguagcgggcguggauccc
uggauguccgaaugggggaacccggccggcgggaacgccggucaccgcgc
uugcgcggggggaaccuggggaacugaaacaucucaguacccagaggaga
ggaaagagaaaucgacucccugaguagcggcgagcgaaaggggaccagcc
uaaaccguccggcuuguccgggcggggucgggggcccucggccgaauccc
cagccuagccgaagcuguugggaagcagcgccagagagggugaaagcccc
guaggcgaaagguggggggauaggugaggguacccgaguaccccgugguu
cguggagccaugggggaaucugggcggaccaccgccuaaggcuaaguacu
ccgggugaccgauagcgcaccaguaccgugagggaaaggugaaaagaacc
ccgggaggggagugaaauagagccugaaaccgugggcuuacaagcaguca
cggccccgggguuguggcgugccuauugaagcaugagccggcgacucacg
gucgugggcgagcuuaagccguugaggcggaggcguagggaaaccgaguc
cgaacagggcgcguccgcggccguggacccgaaaccgggcgagcuagccc
uggccagggugaagcuggggugagacccaguggaggcccgaaccgguggg
ggaugcaaaccccucggaugagcuggggcuaggagugaaaagcuaaccga
gcccggagauagcugguucuccccgaaaugacuuuagggucagccucagg
cgcugacuggggccuguagagcacugauagggcuagggggcccaccagcc
uaccaaacccugucaaacuccgaagggucccagguggagccugggaguga
gggcgcgagcgauaacguccgcguccgagcgcgggaacaaccgagaccgc
cagcuaaggcccccaagucugggcuaagugguaaaggauguggcgccgcg
aagacagccagucgaguggcgccgcgccgaaaaugaucggggcuuaagcc
cagcgccgaagcugcgggucuggggccccaggcgguaggggagcguuccc
gaugccgaugaaggccgacccgcgagggcggcuggagguaagggaagugc
gaaugccggcaugaguaacgauaaagagggugagaaucccucucgccgua
agcccaaggguuccuacgcaauggucgucagcguaggguuaggcgggacc
uaaggugaagccgaaaggcguagccgaagggcagccgguuaauauuccgg
cccuucccgcaggugcgauggggggacgcucuaggcuagggggaccggag
ccauggacgagcccggccagaagcgcagggugggagguaggcaaauccgc
cucccaacaagcucugcgugguggggaagccaaccccccgaagccaggga
gccaagaaaagccucuaagcacaaccugcgggaacccguaccgcaaaccg
acacaggugggcgggugcaagagcacucaggcgcgcgggagaacccucgc
caaggaacucugcaaguuggccccguaacuucgggagaaggggugcuccc
uggggugaugagccccggggagccgcagugaacaggcucuggcgacuguu
uaccaaaaacacagcucucugcgaacucguaagaggagguauagggagcg
acgcuugcccggugccggaaggucaaggggaggggugcaagccccgaacc
gaagccccggugaacggcggccguaacuauaacgguccuaagguagcgaa
auuccuugucggguaaguuccgaccugcacgaaaagcguaacgaccggag
cgcugucucggcgagggacccggugaaauugaacuggccgugaagaugcg
gccuacccguggcaggacgaaaagaccccguggagcuuuacugcagccug
guguuggcucuuggucgcgccugcguaggauaggugggagccugugaacc
cccgccuccgggugggggggaggcgccggugaaauaccacccuggcgcgg
cugggggccuaacccucggauggggggacagcgcuuggcgggcaguuuga
cuggggcggucgccuccuaaaagguaacggaggcgcccaaagguccccuc
aggcgggacggaaauccgccggagagcgcaaggguagaagggggccugac
ugcgaggccugcaagccgagcaggggcgaaagccgggccuagugaaccgg
uggucccguguggaagggccaucgaucaacggauaaaaguuaccccgggg
auaacaggcugaucucccccgagcguccacagcggcggggagguuuggca
ccucgaugucggcucgucgcauccuggggcugaagaaggucccaaggguu
gggcuguucgcccauuaaagcggcacgcgagcuggguucagaacgucgug
agacaguucggucucuauccgccacgggcgcaggaggcuugaggggggcu
cuuccuaguacgagaggaccggaagggacgcaccucugguuucccagcug
ucccuccaggggcauaagcuggguagccaugugcggaagggauaaccgcu
gaaagcaucuaagcgggaagcccgccccaagaugaggccucccacggccg
guaaggacccgggaagaccacccgguggaugggccggggguguaagcgcc
gcgaggcguugagccgaccggucccaaucguccgagguc

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

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): A5 I6 A7 R8 R11 S13 R15 K16 R25 N40 K41 R42 Y45 K49 S53 A56 N57 N60 N61 H62 Y75 D77 E78 P80 K83 R84 L86 P87 R88 A89 R90 G91 R92 A93 D94 I96 K97 K98 R99 H102
• Binding residue (residue number reindexed from 1): A5 I6 A7 R8 R11 S13 R15 K16 R25 N40 K41 R42 Y45 K49 S53 A56 N57 N60 N61 H62 Y75 D77 E78 P80 K83 R84 L86 P87 R88 A89 R90 G91 R92 A93 D94 I96 K97 K98 R99 H102

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:4v7m, PDBe:4v7m, PDBj:4v7m
• PDBsum: 4v7m
• PubMed: 20154709
• UniProt: Q5SHP3|RL22_THET8 Large ribosomal subunit protein uL22 (Gene Name=rplV)