Structure of PDB 5v7q Chain E Binding Site BS01

Receptor Information

>5v7q Chain E (length=207) Species: 1773 (Mycobacterium tuberculosis)

LKIDVKTPAGKVDGAIELPAELFDVPANIALMHQVVTAQRAAARQGTHST
KTRGEVSGGGRKPYRQKGTGRARQGSTRAPQFTGGGVVHGPKPRDYSQRT
PKKMIAAALRGALSDRARNGRIHAITELVEGQNPSTKSARAFLASLTERK
QVLVVIGRSDEAGAKSVRNLPGVHILAPDQLNTYDVLRADDVVFSVEALN
AYIAANT

Ligand information

>5v7q Chain A (length=3118)

aagugucuaagggcgcaugguggaugccuuggcaucgagagccgaugaag
gacgugggaggcugcgauaugccucggggagcugucaaccgagcguggau
ccgaggauuuccgaauggggaaacccagcacgagugaugucgugcuaccc
gcaucugaauauauagggugcgggagggaacgcggggaagugaaacaucu
caguacccguaggaggagaaaacaauugugauuccgcaaguaguggcgag
cgaacgcggaacaggcuaaaccgcacgcauggguaaccggguagggguug
ugugugcgggguugugggaggauaugucucagcgcuacccggcugagagg
cagucagaaagugucgugguuagcggaaguggccugggauggucugccgu
agacggugagagcccgguacgcgaaaacccggcaccugccuaguaucaau
ucccgaguagcagcgggcccguggaauccgcugugaauccgccgggacca
cccgguaagccuaaauacuccucgaugaccgauagcggauuaguaccgug
agggaauggugaaaaguaccccgggaggggagugaaagaguaccugaaac
cgugugccuacaauccgucagagccuccuuuuccucuccggaggagggug
gugauggcgugccuuuugaagaaugagccugcgagucagggacaugucgc
aagguuaacccgugugggguagccgcagcgaaagcgagucugaauagggc
gacccacacgcgcauacgcgcgugugaauaguggcguguucuggacccga
agcggagugaucuacccauggccagggugaagcgcggguaagaccgcgug
gaggcccgaacccacuuagguugaagacugaggggaugagcuguggguag
gggugaaaggccaaucaaacuccgugauagcugguucuccccgaaaugca
uuuaggugcagcguugcgugguucaccgcggagguagagcuacuggaugg
ccgauggguuacugacgucagccaaacuccgaaugccgugguguaaagcg
uggcagugagacggcgggggauaagcuccguacgucgaaagggaaacagc
ccagaucgccggcuaaggcccccaagcgugugcuaagugggaaaggaugu
gcagucgcaaagacaaccaggagguuggcuuagaagcagccacccuugaa
agagugcguaauagcucacuggucaagugauugugcgccgauaauguagc
ggggcucaagcacaccgccgaagccgcggcacauccaccuuguggugggu
guggguaggggagcgucccucauucagcgaagccaccgggugaccggugg
uggagggugggggagugagaaugcaggcaugaguagcgacaaggcaagug
agaaccuugcccgccgaaagaccaaggguuccugggccaggccaguccgc
ccagggugagucgggaccuaaggcgaggccgacaggcguagucgauggac
aacggguugauauucccguacccgugugugggcgcccgugacgaaucagc
gguacuaaccacccaaaaccggaucgaucacuccccuucgggggugugga
guucuggggcugcgugggaacuucgcugguaguagucaagcgaaggggug
acgcaggaagguagccguaccagucagugguaacacuggggcaagccggu
agggagagcgauaggcaaauccgucgcucacuaauccugagaggugacgc
auagccgguugaggcgaauucggugauccucugcugccaagaaaagccuc
uagcgagcacacacacggcccguaccccaaaccgacacagguggucaggu
agagcauaccaaggcguacgagauaacuaugguuaaggaacucggcaaaa
ugcccccguaacuucgggagaagggggaccggaauaucgugaacacccuu
gcggugggagcgggauccggucgcagaaaccagugaggagcgacuguuua
cuaaaaacacagguccgugcgaagucgcaagacgauguauacggacugac
gccugcccggugcuggaagguuaagaggacccguuaacccgcaaggguga
agcggagaauuuaagccccaguaaacggcggugguaacuauaaccauccu
aagguagcgaaauuccuugucggguaaguuccgaccugcacgaauggcgu
aacgacuucucaacugucucaaccauagacucggcgaaauugcacuacga
guaaagaugcucguuacgcgcggcaggacgaaaagaccccgggaccuuca
cuacaacuugguauugauguucgguacgguuuguguaggauaggugggag
acugugaaaccucgacgccaguuggggcggagucguuguugaaauaccac
ucugaucguauugggcaucuaaccucgaacccugaaucggguuuagggac
agugccuggcggguaguuuaacuggggcgguugccuccuaaaauguaacg
gaggcgcccaaagguucccucaaccuggacggcaaucagguggcgagugu
aaaugcacaagggagcuugacugcgagacuuacaagucaagcagggacga
aagucgggauuagugauccggcacccccgaguggaaggggugucgcucaa
cggauaaaagguaccccggggauaacaggcugaucuuccccaagagucca
uaucgacgggaugguuuggcaccucgaugucggcucgucgcauccugggg
cuggagcaggucccaaggguugggcuguucgcccauuaaagcggcacgcg
agcuggguuuagaacgucgugagacaguucggucucuauccgccgcgcgc
gucagaaacuugaggaaaccugucccuaguacgagaggaccgggacggac
gaaccucuggugcaccaguugucccgccaggggcaccgcuggauagccac
guucggucaggauaaccgcugaaagcaucuaagcgggaaaccuucuccaa
gaucagguuucucacccacuuggugggauaaggccccccgcagaacacgg
guucaauaggucagaccuggaagcucaguaauggguguagggaacuggug
cuaaccggccgaaaacuu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5v7q Structural insights into species-specific features of the ribosome from the human pathogen Mycobacterium tuberculosis.
• Resolution: 3.7 Å
• Binding residue (original residue number in PDB): N36 H41 Q42 Q47 R48 A51 R52 Q53 T55 H56 S57 K59 R61 G62 G66 R69 K70 G78 R79 R81 G83 R86 Q89 F90 T91 G92 V95 H97 K100 R102 Q106 R107 P109 K110 M112 I113 T144 K145 R148 K173 N177 P179 I183 Q188 Y192 D193 R196
• Binding residue (residue number reindexed from 1): N28 H33 Q34 Q39 R40 A43 R44 Q45 T47 H48 S49 K51 R53 G54 G58 R61 K62 G70 R71 R73 G75 R78 Q81 F82 T83 G84 V87 H89 K92 R94 Q98 R99 P101 K102 M104 I105 T136 K137 R140 K165 N169 P171 I175 Q180 Y184 D185 R188

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0005886 plasma membrane
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5v7q, PDBe:5v7q, PDBj:5v7q
• PDBsum: 5v7q
• PubMed: 28977617
• UniProt: P9WH85|RL4_MYCTU Large ribosomal subunit protein uL4 (Gene Name=rplD)