Structure of PDB 8cee Chain O Binding Site BS01

Receptor Information

>8cee Chain O (length=85) Species: 224308 (Bacillus subtilis subsp. subtilis str. 168)

TQERKNQLINEFKTHESDTGSPEVQIAILTDSINNLNEHLRTHKKDHHSR
RGLLKMVGKRRNLLTYLRNKDVTRYRELINKLGLR

Ligand information

>8cee Chain A (length=1333)

ggagaguuugauccuggcucaggacgaacgcuggcggcgugccuaauaca
ugcaagucgagcggacagauguuagcggcggacgggugaguaacacgugg
guaaccugccuguaagacugggauaacuccgggaaaccggggcuaauacc
ggaugguuguuugaaccgcaugguucaaacauaaaagguggcuucggcua
ccacuuacagauggacccgcggcgcauuagcuaguuggugagguaacggc
ucaccaaggcgacgaugcguagccgaccugagagggugaucggccacacu
gggacugagacacggcccagacuccuacgggaggcagcaguagggaaucu
uccgcaauggacgaaagucugacggagcaacgccgcgugagugaugaagg
uuuucggaucguaaagcucuguuguuagggaagaacaagugccguucgaa
uagggcgguaccuugacgguaccuaaccagaaagccacggcuaacuacgu
gccagcagccgcgguaauacguagguggcaagcguuguccggaauuauug
ggcguaaagggcucgcaggcgguuucuuaagucugaugugaaagcccccg
gcucaaccggggagggucauuggaaacuggggaacuugagugcagaagag
gagaguggaauuccacguguagcggugaaaugcguagagauguggaggaa
caccaguggcgaaggcgacucucuggucuguaacugacgcugaggagcga
aagcgcgccguaaacgaugagugcuaaguguuaggggguuuccgccccuu
agugcugcagcuaacgcauuaagcacuccgccuggggaguacggucgcaa
gacugaaacucaaaggaauugacgggggcccgcacaagcgguggagcaug
ugguuuaauucgaaacgcgaagaaccuuaccaggucuugacauccucuga
caauccuagagauaggacguccccuucgggggcagagugacagguggugc
augguugucgucagcucgugucgugagauguuggguuaagucccgcaacg
agcgcaacccuugaucuuaguugccagcauucaguugggcacucuaaggu
gacugccggugacaaaccggaggaagguggggaugacgucaaaucaucau
gccccuuaugaccugggcuacacacgugcuacaauggacagaacaaaggg
cagcgaaaccgcgagguuaagccaaucccacaaaucuguucucaguucgg
aucgcagucugcaacucgacugcgugaagcuggaaucgcuaguaaucgcg
gaucagcaugccgcggugaauacguucccgggc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8cee Structural basis of ribosomal 30S subunit degradation by RNase R
• Resolution: 3.7 Å
• Binding residue (original residue number in PDB): K8 H18 S20 D21 T22 G23 S24 Q28 N38 L39 H42 H46 D49 H50 H51 S52 R54 G55 L57 K58 K62 N65 Y69
• Binding residue (residue number reindexed from 1): K5 H15 S17 D18 T19 G20 S21 Q25 N35 L36 H39 H43 D46 H47 H48 S49 R51 G52 L54 K55 K59 N62 Y66

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8cee, PDBe:8cee, PDBj:8cee
• PDBsum: 8cee
• PubMed: 38326618
• UniProt: P21473|RS15_BACSU Small ribosomal subunit protein uS15 (Gene Name=rpsO)