Structure of PDB 8cec Chain D Binding Site BS01

Receptor Information

>8cec Chain D (length=218) Species: 224308 (Bacillus subtilis subsp. subtilis str. 168)

LLEAGVHFGHQTRRWNPKMKRYIFTERNGIYIIDLQKTVKKVEEAYNFTK
NLAAEGGKILFVGTKKQAQDSVKEEAQRSGMYYVNQRWLGGTLTNFETIQ
KRIKRLKDIEKMQENGTFDVLPKKEVVQLKKELERLEKFLGGIKDMKDLP
DALFIIDPRKERIAVAEARKLNIPIIGIVDTNCDPDEIDVVIPANDDAIR
AVKLLTSKMADAILEAKQ

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): R21 W23 P25 R95 G98 G99 T102 N103 R110 K131 K132 K139 E140 R143 I171 E175 K178
• Binding residue (residue number reindexed from 1): R13 W15 P17 R87 G90 G91 T94 N95 R102 K123 K124 K131 E132 R135 I163 E167 K170

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8cec, PDBe:8cec, PDBj:8cec
• PDBsum: 8cec
• PubMed: 38326618
• UniProt: P21464|RS2_BACSU Small ribosomal subunit protein uS2 (Gene Name=rpsB)