Structure of PDB 5v93 Chain R Binding Site BS01

Receptor Information

>5v93 Chain R (length=98) Species: 1773 (Mycobacterium tuberculosis)

YAIVKTGGKQYKVAVGDVVKVEKLESEQGEKVSLPVALVVDGATVTTDAK
ALAKVAVTGEVLGHTKGPKIRIHKFKNKTGYHKRQGHRQQLTVLKVTG

Ligand information

>5v93 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: 5v93 Structural insights into species-specific features of the ribosome from the human pathogen Mycobacterium tuberculosis.
• Resolution: 4.0 Å
• Binding residue (original residue number in PDB): G11 G12 K13 R75 K78 F79 K80 N81 K82 T83 Y85 H86 K87 R88 Q89 G90 H91 R92
• Binding residue (residue number reindexed from 1): G7 G8 K9 R71 K74 F75 K76 N77 K78 T79 Y81 H82 K83 R84 Q85 G86 H87 R88

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:0005886 plasma membrane
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5v93, PDBe:5v93, PDBj:5v93
• PDBsum: 5v93
• PubMed: 28977617
• UniProt: P9WHC3|RL21_MYCTU Large ribosomal subunit protein bL21 (Gene Name=rplU)