Structure of PDB 7azo Chain L13A Binding Site BS01

Receptor Information

>7azo Chain L13A (length=138) Species: 300852 (Thermus thermophilus HB8)

MKTYVPKQVEPRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGD
FVVVVNADKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLE
HAVKGMLPKGPLGRRLFKRLKVYAGPDHPHQAQRPEKL

Ligand information

>7azo Chain 23SA (length=2889)

gucaagaugguaagggcccacgguggaugccucggcacccgagccgauga
aggacguggcuaccugcgauaagccagggggagccgguagcgggcgugga
ucccuggauguccgaaugggggaacccggccggcgggaacgccggucacc
gcgcuuuuugcgcggggggaaccuggggaacugaaacaucucaguaccca
gaggagaggaaagagaaaucgacucccugaguagcggcgagcgaaagggg
accagccuaaaccguccggcuuguccgggcggggucguggggcccucgga
ccgaauccccagccuagccgaagcuguugggaagcagcgccagagagggu
gaaagccccguaggcgaaagguggggggauaggugaggguacccgaguac
cccgugguucguggagccaugggggaaucugggcggaccaccgccuaagg
cuaaguacuccgggugaccgauagcgcaccaguaccgugagggaaaggug
aaaagaaccccgggaggggagugaaauagagccugaaaccgugggcuuac
aagcagucacggccccgcaagggguuguggcgugccuauugaagcaugag
ccggcgacucacggucgugggcgagcuuaagccguugaggcggaggcgua
gggaaaccgaguccgaacagggcgcaaacggccgaaaaguccgcggccgu
ggacccgaaaccgggcgagcuagcccuggccagggugaagcuggggugag
acccaguggaggcccgaaccggugggggaugcaaaccccucggaugagcu
ggggcuaggagugaaaagcuaaccgagcccggagauagcugguucucccc
gaaaugacuuuagggucagccucaggcgcugacuggggccuguagagcac
ugauagggcuagggggcccaccagccuaccaaacccugucaaacuccgaa
gggucccagguggagccugggagugagggcgcgagcgauaacguccgcgu
ccgagcgcgggaacaaccgagaccgccagcuaaggcccccaagucugggc
uaagugguaaaggauguggcgccgcgaagacagccaggauguuggagcag
ccaucauuuaaagagugcguuagcucacuggucgaguggcgccgcgccga
aaaugaucggggcuuaagcccagcgccgaagcugcgggucugggggauga
ccccaggcgguaggggagcguucccgaugccgaugaaggccgacccgcga
gggcggcuggagguaagggaagugcgaaugccggcaugaguaacgauaaa
gagggugagaaucccucucgccguaagcccaaggguuccuacgcaauggu
cgucagcguaggguuaggcgggaccuaaggugaagccgaaaggcguagcc
gaagggcagccgguuaauauuccggcccuucccgcaggugcgaugggggg
acgcucuaggcuagggggaccggagccauggacgagcccggccagaagcg
cagggugggagguaggcaaauccgccucccaacaagcucugcgugguggg
gaagcccguacgggugacaaccccccgaagccagggagccaagaaaagcc
ucuaagcacaaccugcgggaacccguaccgcaaaccgacacaggugggcg
ggugcaagagcacucaggcgcgcgggagaacccucgccaaggaacucugc
aaguuggccccguaacuucgggagaaggggugcucccuggggugaugagc
cccggggagccgcagugaacaggcucuggcgacuguuuaccaaaaacaca
gcucucugcgaacucguaagaggagguauagggagcgacgcuugcccggu
gccggaaggucaaggggaggggugcaagccccgaaccgaagccccgguga
acggcggccguaacuauaacgguccuaagguagcgaaauuccuugucggg
uaaguuccgaccugcacgaaaagcguaacgaccggagcgcugucucggcg
agggacccggugaaauugaacuggccgugaagaugcggccuacccguggc
aggacgaaaagaccccguggagcuuuacugcagccugguguuggcucuug
gucgcgccugcguaggauaggugggagccugugaacccccgccuccgggu
gggggggaggcgccggugaaauaccacccuggcgcggcugggggccuaac
ccucggauggggggacagcgcuuggcgggcaguuugacuggggcggucgc
cuccuaaaagguaacggaggcgcccaaagguccccucaggcgggacggaa
auccgccggagagcgcaaggguagaagggggccugacugcgaggccugca
agccgagcaggggcgaaagccgggccuagugaaccgguggucccgugugg
aagggccaucgaucaacggauaaaaguuaccccggggauaacaggcugau
cucccccgagcguccacagcggcggggagguuuggcaccucgaugucggc
ucgucgcauccuggggcugaagaaggucccaaggguugggcuguucgccc
auuaaagcggcacgcgagcuggguucagaacgucgugagacaguucgguc
ucuauccgccacgggcgcaggaggcuugaggggggcucuuccuaguacga
gaggaccggaagggacgcaccucugguuucccagcugucccuccaggggc
auaagcuggguagccaugugcggaagggauaaccgcugaaagcaucuaag
cgggaagcccgccccaagaugaggccucccacggcgucaagccgguaagg
acccgggaagaccacccgguggaugggccggggguguaagcgccgcgagg
cguugagccgaccggucccaaucguccgaggucuugacc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7azo Discovery of natural-product-derived sequanamycins as potent oral anti-tuberculosis agents.
• Resolution: 3.3 Å
• Binding residue (original residue number in PDB): K2 T3 V5 W13 G24 R25 T28 T32 R35 K37 N45 F51 T63 G64 K65 K66 Q69 K70 Y72 R74 Y75 S76 Y78 P79 G80 L82 K83 R97 E100 H101 A102 G105 M106 P108 K109 P111 L112 R114 F117 K118 Q131
• Binding residue (residue number reindexed from 1): K2 T3 V5 W13 G24 R25 T28 T32 R35 K37 N45 F51 T63 G64 K65 K66 Q69 K70 Y72 R74 Y75 S76 Y78 P79 G80 L82 K83 R97 E100 H101 A102 G105 M106 P108 K109 P111 L112 R114 F117 K118 Q131

Gene Ontology

Molecular Function

• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation
• GO:0017148 negative regulation of translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7azo, PDBe:7azo, PDBj:7azo
• PDBsum: 7azo
• PubMed: 36827973
• UniProt: P60488|RL13_THET8 Large ribosomal subunit protein uL13 (Gene Name=rplM)