Structure of PDB 8why Chain 7 Binding Site BS01

Receptor Information

>8why Chain 7 (length=45) Species: 246196 (Mycolicibacterium smegmatis MC2 155)

AKGKRTFQPNNRRRARVHGFRLRMRTRAGRAIVANRRSKGRRALT

Ligand information

>8why Chain A (length=3017)

aaguguuuaagggcgcaugguggaugccuuggcacugggagccgaugaag
gacguaggaggcugcgauaagccucggggagcugucaaccgagcguugau
ccgaggauguccgaauggggaaacccggcacgagugaugucgugucacca
ggcgcugaauauauaggcgucuggggggaacgcggggaagugaaacaucu
caguacccguaggaagagaaaacaaaaugugauuccgugaguaguggcga
gcgaaagcggaggauggcuaaaccguaugcaugugauaccggguaggggu
ugugugugcgggguugugggaccuaucuuuccggcucuaccuggcuggag
ggcagugagaaaauguugugguuagcggaaauggcuugggauggccugcc
guagacggugagagcccgguacgugaaaacccgacgucugucuugauggu
guucccgaguagcagcgggcccguggaaucugcugugaaucugccgggac
cacccgguaagccugaauacuucccagugaccgauagcggauuaguaccg
ugagggaauggugaaaaguaccccgggaggggagugaaagaguaccugaa
accgugcgcuuacaauccgucagagcccucgacgugucguggggugaugg
cgugccuuuugaagaaugagccugcgagucagggacaugucgcgagguua
acccgggugggguagccgcagcgaaagcgagucugaauagggcguaucca
cacaagagugugugguguagugguguguucuggacccgaagcggagugau
cuacccauggccagggugaagcgcggguaagaccgcguggaggcccgaac
ccacuuagguugaagacugaggggaugagcuguggguaggggugaaaggc
caaucaaacuccgugauagcugguucuccccgaaaugcauuuaggugcag
cgucgcauguuucuugccggagguagagcuacuggauggccgaugggccc
cacaggguuacugacgucagccaaacuccgaaugccgguaaguccaagag
ugcggcagugagacggcgggggauaagcuccgugcgucgagagggaaaca
gcccagaucgccggcuaaggccccuaagcgugugcuaaguggaaaaggau
gugcagucgcgaagacaacuggucaagugauugugcgccgauaauguagc
ggggcucaagcacaccgccgaagccgcggcagccaacguguuggcugggu
aggggagcguccugcauccggugaagccgccgagugaucgagugguggag
ggugugggagugagaaugcaggcaugaguagcgauuaggcaagugagaac
cuugcccgccgaaagaccaaggguuccugggccaggccaguccgcccagg
gugagucgggaccuaaggcgaggccgacaggcguagucgauggacaacgg
guugauauucccguacccguguaugugcguccaugaugaaucagcgguac
uaaccauccugcaugggaccuucguugguaguagucaagcgaugggguga
cgcaggaagguagccguaccggucagugguaauaccgggguaagccugua
gggagucagauagguaaauccgucuggcauauauccugagaggugaugca
uagccgagugaggcgaauucggugauccuaugcugccgagaaaagccucu
agcgaggacauacacggcccguaccccaaaccaacacagguggucaggua
gagaauacuaaggcguacgagugaacuaugguuaaggaacucggcaaaau
gcccccguaacuucgggagaagggggacccacauggcguguaagccuuua
cggcccaagcgugaguggguggcacaaaccagugagaagcgacuguuuac
uaaaaacacagguccgugcgaagucgcaagacgauguauacggacugacg
ccugcccggugcuggaagguuaagaggacccguuaacucccuuugggggu
gaagcggagaauuuaagccccaguaaacggcggugguaacuauaaccauc
cuaagguagcgaaauuccuugucggguaaguuccgaccugcacgaauggc
guaacgacuucucaacugucucaaccauagacucggcgaaauugcacuac
gaguaaagaugcucguuacgcgcggcaggacgaaaagaccccgggaccuu
cacuacaacuugguauuggugcucgauacgguuuguguaggauagguggg
agacugugaagcucacacgccaguguggguggagucguuguugaaauacc
acucugaucguauugggccucuaaccucggaccguauauccgguucaggg
acagugccugguggguaguuuaacuggggcgguugccuccuaaaauguaa
cggaggcgcccaaagguucccucaaccuggacggcaaucagguguugagu
guaagugcacaagggagcuugacugcgagacggacaugucgagcagggac
gaaagucgggacuagugauccggcaccucugaguggaaggggugucgcuc
aacggauaaaagguaccccggggauaacaggcugaucuuccccaagagau
cgacgggaugguuuggcaccucgaugucggcucgucgcauccuggggcug
gagcaggucccaaggguugggcuguucgcccauuaaagcggcacgcgagc
uggguuuagaacgucgugagacaguucggucucuauccgccgcgcgcguc
agaagcuugaggaaaccugucccuaguacgagaggaccgggacggacgaa
ccucugguauaccaguugucccaccaggggcacggcuggauagccacguu
cggacaggauaaccgcugaaagcaucuaagcgggaaaccucuuccaagac
caggcuucucacccucuaggagggauaaggccccccgcagaccacgggau
ugauagaccagaccuggaagccuaguaauaggugcagggaacuggcacua
accggccgaaaacuuac

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8why Cryo- EM structure of the mycobacterial 70S ribosome in complex with ribosome hibernation promotion factor RafH.
• Resolution: 2.7 Å
• Binding residue (original residue number in PDB): A2 G4 K5 R6 T7 F8 Q9 P10 N11 N12 R13 R14 R15 A16 R17 H19 G20 F21 R22 R24 R28 A29 N36 R37 R38 K40 G41 R42 R43
• Binding residue (residue number reindexed from 1): A1 G3 K4 R5 T6 F7 Q8 P9 N10 N11 R12 R13 R14 A15 R16 H18 G19 F20 R21 R23 R27 A28 N35 R36 R37 K39 G40 R41 R42

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8why, PDBe:8why, PDBj:8why
• PDBsum: 8why
• PubMed: 38245551
• UniProt: A0R7K0|RL34_MYCS2 Large ribosomal subunit protein bL34 (Gene Name=rpmH)