Structure of PDB 8cdv Chain U Binding Site BS01

Receptor Information

>8cdv Chain U (length=64) Species: 224308 (Bacillus subtilis subsp. subtilis str. 168)

KVCYFTSNGITHIDYKDVDLLKKFVSERGKILPRRVTGTNAKYQRKLTAA
IKRARQMALLPYVS

Ligand information

>8cdv Chain A (length=1247)

ggagaguuugauccuggcucaggacgaacgcuggcggcgugccuaauaca
ugcaagucgagcggacagauguuagcggcggacgggugaguaacacgugg
guaaccugccuguaagacugggauaacuccgggaaaccggggcuaauacc
ggaugguuguuugaaccgcaugguucaaacauaaaagguggcuucggcua
ccacuuacagauggacccgcggcgcauuagcuaguuggugagguaacggc
ucaccaaggcgacgaugcguagccgaccugagagggugaucggccacacu
gggacugagacacggcccagacuccuacgggaggcagcaguagggaaucu
uccgcaauggacgaaagucugacggagcaacgccgcgugagugaugaagg
uuuucggaucguaaagcucuguuguuagggaagaacaagugccguucgaa
uagggcgguaccuugacgguaccuaaccagaaagccacggcuaacuacgu
gccagcagccgcgguaauacguagguggcaagcguuguccggaauuauug
ggcguaaagggcucgcaggcgguuucuuaagucugaugugaaagcccccg
gcucaaccggggagggucauuggaaacuggggaacuugagugcagaagag
gagaguggaauuccacguguagcggugaaaugcguagagauguggaggaa
caccaguggcgaaggcgacucucuggucuguaacugacgcugaggagcga
aagcgugggcacgccguaaacgaugagugcuaaguguuaggggguuuccg
ccccuuagugcugcagcuaacgcauuaagcacuccgccuggggaguacgg
ucgcaagacugaaacucaaaggaauugaguggagcaugugguuuaauucg
aagcaacgcgaagaaccuuaccaggucuugacauccucugacaauccuag
agauaggacguccccuucgggggcagagugacagcgcaacccuugaucuu
aguugccagcauucaguugggcacucuaaggugacugccggugacaaacc
ggaggaagguggggaugacgucaaaucaucaugccccuuaugaccugggc
uacacacgugcuacaauggacagaacaaagggcagcgaaaccgcgagguu
aagccaaucccacaaaucuguucucaguucggaucgcagucugcaacucg
acugcgugaagcuggaaucgcuaguaaucgcggaucagcaugccgcg

...<<<<....((((.>>>>.<<<<.<<<<<..<<<<<<<<..<..<<<.
<<<..<<<..<<.<........>.>>>>>......<<........<<<<<
<<..<<...<<<<<<<..<<<.....<<<<<<....>>>>>>......>>
>......<<<<<<<<<<....>>>>>>>>>>.....<<<<<<<..>>>>>
>>.>>>>>>>..>>>>>>>>>.<<<....<<<..<<<<<<<<.......>
>>>>>>>>>>......>>>..<<<<<<<<....>>>>...>>>>.>>.<<
<<<.<.........>>>>>>.<<<<....>>>>...>>>>>>>.......
.<<<....<<<<....>>>>..>>>..>>.>>>>>>..<<<<......<<
<<....>>>>.....>>>>....<<<<<<.......<.<<<<<<<<<...
..>>>>>>>>>.>........>>>>>>......<<<<<(((...<<<<<.
....<<.)))>>.......>>>>>>>>>>..>>>>>>>>>..........
<<<((.....<<<<...<<<.<<<<<<<.<<<<<<<<<.......<<<<<
<.....>>>>>>.....>>>>>>>..>>>>>>>>>...<<<<<<<<...<
<<<<<<....<.<<.......<<<......>>>..........>>.>...
........<<....>>.>>>>>>>..>>>>>.>>>...>>>...>>>>..
..<<<<<..>>>>>..........<<<<<<..<<<<<<<<<<<<......
>>>>>>>>>>>>...<<..))>>.....>>>>>>.>>>.<<<.......<
<<....>>>.....>>>..))))......<..<<<<<<<<..........
....................<<<<<<<........<<.......<<<<<.
...>>>>>.....<<....>>.....>>.............<....<<<<
.....<....<.....>..>.......>>>>......<<<<<.....>>>
>>.........>.............................>>>>>>>..
....>>>>>>>>.....<<<<<<<.....<<<..<<..<.........>.
..>>....>>>.....>>>>>>>...........<<<<<<<........>
>>>>>>.........>............<<<<<.........>>>>>

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8cdv Structural basis of ribosomal 30S subunit degradation by RNase R
• Resolution: 4.73 Å
• Binding residue (original residue number in PDB): T19 S20 K43 I44 R47 K55 Q57 R58 T61 K65 R66 R68 Q69 Y75
• Binding residue (residue number reindexed from 1): T6 S7 K30 I31 R34 K42 Q44 R45 T48 K52 R53 R55 Q56 Y62

Gene Ontology

Molecular Function

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

External links

• PDB: RCSB:8cdv, PDBe:8cdv, PDBj:8cdv
• PDBsum: 8cdv
• PubMed: 38326618
• UniProt: P21475|RS18_BACSU Small ribosomal subunit protein bS18 (Gene Name=rpsR)