Structure of PDB 8wib Chain N Binding Site BS01

Receptor Information

>8wib Chain N (length=122) Species: 246196 (Mycolicibacterium smegmatis MC2 155)

MIQQESRLKVADNTGAKEILCIRVLGGSSRRYAGIGDVIVATVKDAIPGG
NVKRGDVVKAVVVRTVKERRRADGSYIKFDENAAVIIKNDNDPRGTRIFG
PVGRELREKKFMKIVSLAPEVL

Ligand information

>8wib Chain A (length=3022)

aaguguuuaagggcgcaugguggaugccuuggcacugggagccgaugaag
gacguaggaggcugcgauaagccucggggagcugucaaccgagcguugau
ccgaggauguccgaauggggaaacccggcacgagugaugucgugucacca
ggcgcugaauauauaggcgucuggggggaacgcggggaagugaaacaucu
caguacccguaggaagagaaaacaaaaugugauuccgugaguaguggcga
gcgaaagcggaggauggcuaaaccguaugcaugugauaccggguaggggu
ugugugugcgggguugugggaccuaucuuuccggcucuaccuggcuggag
ggcagugagaaaauguugugguuagcggaaauggcuugggauggccugcc
guagacggugagagcccgguacgugaaaacccgacgucugucuugauggu
guucccgaguagcagcgggcccguggaaucugcugugaaucugccgggac
cacccgguaagccugaauacuucccagugaccgauagcggauuaguaccg
ugagggaauggugaaaaguaccccgggaggggagugaaagaguaccugaa
accgugcgcuuacaauccgucagagcccucgacgugucguggggugaugg
cgugccuuuugaagaaugagccugcgagucagggacaugucgcgagguua
acccgggugggguagccgcagcgaaagcgagucugaauagggcguaucca
cacaagagugugugguguagugguguguucuggacccgaagcggagugau
cuacccauggccagggugaagcgcggguaagaccgcguggaggcccgaac
ccacuuagguugaagacugaggggaugagcuguggguaggggugaaaggc
caaucaaacuccgugauagcugguucuccccgaaaugcauuuaggugcag
cgucgcauguuucuugccggagguagagcuacuggauggccgaugggccc
cacaggguuacugacgucagccaaacuccgaaugccgguaaguccaagag
ugcggcagugagacggcgggggauaagcuccgugcgucgagagggaaaca
gcccagaucgccggcuaaggccccuaagcgugugcuaaguggaaaaggau
gugcagucgcgaagacaacacuggucaagugauugugcgccgauaaugua
gcggggcucaagcacaccgccgaagccgcggcagccaacguguuggcugg
guaggggagcguccugcauccggugaagccgccgagugaucgaguggugg
agggugugggagugagaaugcaggcaugaguagcgauuaggcaagugaga
accuugcccgccgaaagaccaaggguuccugggccaggccaguccgccca
gggugagucgggaccuaaggcgaggccgacaggcguagucgauggacaac
ggguugauauucccguacccguguaugugcguccaugaugaaucagcggu
acuaaccaucgcugcaugggaccuucguugguaguagucaagcgaugggg
ugacgcaggaagguagccguaccggucagugguaauaccgggguaagccu
guagggagucagauagguaaauccgucuggcauauauccugagaggugau
gcauagccgagugaggcgaauucggugauccuaugcugccgagaaaagcc
ucuagcgaggacauacacggcccguaccccaaaccaacacagguggucag
guagagaauacuaaggcguacgagugaacuaugguuaaggaacucggcaa
aaugcccccguaacuucgggagaagggggacccacauggcguguaagccu
uuacggcccaagcgugaguggguggcacaaaccagugagaagcgacuguu
uacuaaaaacacagguccgugcgaagucgcaagacgauguauacggacug
acgccugcccggugcuggaagguuaagaggacccguuaacucccuuuggg
ggugaagcggagaauuuaagccccaguaaacggcggugguaacuauaacc
auccuaagguagcgaaauuccuugucggguaaguuccgaccugcacgaau
ggcguaacgacuucucaacugucucaaccauagacucggcgaaauugcac
uacgaguaaagaugcucguuacgcgcggcaggacgaaaagaccccgggac
cuucacuacaacuugguauuggugcucgauacgguuuguguaggauaggu
gggagacugugaagcucacacgccaguguggguggagucguuguugaaau
accacucugaucguauugggccucuaaccucggaccguauauccgguuca
gggacagugccugguggguaguuuaacuggggcgguugccuccuaaaaug
uaacggaggcgcccaaagguucccucaaccuggacggcaaucagguguug
aguguaagugcacaagggagcuugacugcgagacggacaugucgagcagg
gacgaaagucgggacuagugauccggcaccucugaguggaaggggugucg
cucaacggauaaaagguaccccggggauaacaggcugaucuuccccaaga
gauaucgacgggaugguuuggcaccucgaugucggcucgucgcauccugg
ggcuggagcaggucccaaggguugggcuguucgcccauuaaagcggcacg
cgagcuggguuuagaacgucgugagacaguucggucucuauccgccgcgc
gcgucagaagcuugaggaaaccugucccuaguacgagaggaccgggacgg
acgaaccucugguauaccaguugucccaccaggggcacggcuggauagcc
acguucggacaggauaaccgcugaaagcaucuaagcgggaaaccucuucc
aagaccaggcuucucacccucuaggagggauaaggccccccgcagaccac
gggauugauagaccagaccuggaagccuaguaauaggugcagggaacugg
cacuaaccggccgaaaacuuac

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8wib Cryo- EM structure of the mycobacterial 70S ribosome in complex with ribosome hibernation promotion factor RafH.
• Resolution: 3.5 Å
• Binding residue (original residue number in PDB): M1 Q3 E5 S6 I22 R23 L25 S28 S29 R31 Y32 K44 K67 E68 Y76
• Binding residue (residue number reindexed from 1): M1 Q3 E5 S6 I22 R23 L25 S28 S29 R31 Y32 K44 K67 E68 Y76

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0070180 large ribosomal subunit 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:8wib, PDBe:8wib, PDBj:8wib
• PDBsum: 8wib
• PubMed: 38245551
• UniProt: A0QSF9|RL14_MYCS2 Large ribosomal subunit protein uL14 (Gene Name=rplN)