Structure of PDB 8wid Chain d Binding Site BS01

Receptor Information

>8wid Chain d (length=208) Species: 246196 (Mycolicibacterium smegmatis MC2 155)

GQKINPHGFRLGITTEWKSRWYADKQYKDYVKEDVAIRKLLATGLERAGI
ADVEIERTRDRVRVDIHTARPGIVIGRRGTEADRIRADLEKLTGKQVQLN
ILEVKNPESQAQLVAQGVAEQLSNRVAFRRAMRKAIQSAMRQPNVKGIRV
QCSGRLGGAEMSRSEFYREGRVPLHTLRADIDYGLYEAKTTFGRIGVKVW
IYKGDIVG

Ligand information

>8wid Chain a (length=1515)

uuggagaguuugauccuggcucaggacgaacgcuggcggcgugcuuaaca
caugcaagucgaacggaaaggcccuuucggggguacucgaguggcgaacg
ggugaguaacacgugggugaucugcccugcacuuugggauaagccuggga
aacugggucuaauaccgaauacacccugcuggucgcauggccugguaggg
gaaagcuuuugcggugugggaugggcccgcggccuaucagcuuguuggug
gggugauggccuaccaaggcgacgacggguagccggccugagagggugac
cggccacacugggacugagauacggcccagacuccuacgggaggcagcag
uggggaauauugcacaaugggcgcaagccugaugcagcgacgccgcguga
gggaugacggccuucggguuguaaaccucuuucagcacagacgaagcgca
agugacgguaugugcagaagaaggaccggccaacuacgugccagcagccg
cgguaauacguaggguccgagcguuguccggaauuacugggcguaaagag
cucguaggugguuugucgcguuguucgugaaaacucacagcuuaacugug
ggcgugcgggcgauacgggcagacuagaguacugcaggggagacuggaau
uccugguguagcgguggaaugcgcagauaucaggaggaacaccgguggcg
aaggcgggucucugggcaguaacugacgcugaggagcgaaagcgugggga
gcgaacaggauuagauacccugguaguccacgccguaaacgguggguacu
agguguggguuuccuuccuugggauccgugccguagcuaacgcauuaagu
accccgccuggggaguacggccgcaaggcuaaaacucaaaggaauugacg
ggggcccgcacaagcggcggagcauguggauuaauucgaugcaacgcgaa
gaaccuuaccuggguuugacaugcacaggacgccggcagagaugucgguu
cccuuguggccugugugcagguggugcauggcugucgucagcucgugucg
ugagauguuggguuaagucccgcaacgagcgcaacccuugucucauguug
ccagcacguuaugguggggacucgugagagacugccggggucaacucgga
ggaagguggggaugacgucaagucaucaugccccuuauguccagggcuuc
acacaugcuacaauggccgguacaaagggcugcgaugccgugagguggag
cgaauccuuucaaagccggucucaguucggaucggggucugcaacucgac
cccgugaagucggagucgcuaguaaucgcagaucagcaacgcugcgguga
auacguucccgggccuuguacacaccgcccgucacgucaugaaagucggu
aacacccgaagccgguggccuaacccuuguggagggagccgucgaaggug
ggaucggcgauugggacgaagucguaacaagguagccguaccggaaggug
cggcuggaucaccuc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8wid 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): G2 Q3 K4 I5 K26 S154 R156 E161 M162 S163 R169 R172 V173 H176 T177 L178 R179 E188 F193 R195 K199
• Binding residue (residue number reindexed from 1): G1 Q2 K3 I4 K25 S153 R155 E160 M161 S162 R168 R171 V172 H175 T176 L177 R178 E187 F192 R194 K198

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8wid, PDBe:8wid, PDBj:8wid
• PDBsum: 8wid
• PubMed: 38245551
• UniProt: A0QSD7|RS3_MYCS2 Small ribosomal subunit protein uS3 (Gene Name=rpsC)