Structure of PDB 8cec Chain S Binding Site BS01

Receptor Information

>8cec Chain S (length=83) Species: 224308 (Bacillus subtilis subsp. subtilis str. 168)

IKSAIKRTKTNNERRVHNATIKSAMRTAIKQVEASVANNEADKAKTALTE
AAKRIDKAVKTGLVHKNTAARYKSRLAKKVNGL

Ligand information

>8cec 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: 8cec Structural basis of ribosomal 30S subunit degradation by RNase R
• Resolution: 3.57 Å
• Binding residue (original residue number in PDB): I4 K5 S6 K9 R10 K12 N14 R17 R18 H20 N21 T52 A55 K56 D59 K60 K63 H68 N70 A73 R74 K76 S77 R78 A80 K81 N84
• Binding residue (residue number reindexed from 1): I1 K2 S3 K6 R7 K9 N11 R14 R15 H17 N18 T49 A52 K53 D56 K57 K60 H65 N67 A70 R71 K73 S74 R75 A77 K78 N81

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0070181 small ribosomal subunit rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8cec, PDBe:8cec, PDBj:8cec
• PDBsum: 8cec
• PubMed: 38326618
• UniProt: P21477|RS20_BACSU Small ribosomal subunit protein bS20 (Gene Name=rpsT)