Structure of PDB 8cgu Chain K Binding Site BS01

Receptor Information

>8cgu Chain K (length=111) Species: 679895 (Escherichia coli BW25113)

GVAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSRKSTPFAAQVAAE
RCADAVKEYGIKNLEVMVKGPGPGRESTIRALNAAGFRITNITDVTPIPH
DGCRPPKKRRV

Ligand information

>8cgu Chain A (length=1047)

aaauugaagaguuugaucauggcucagauugaacgcuggcggcaggccua
acacaugcaagucgaacgguaacaggaauugcugacgaguggcggacggg
ugaguaaugucugggaaacugccugauggagggggauaacuacuggaaac
gguagcuaauaccgcauaacgucgcaagaccaaagagggggccucuugcc
aucggaugugcccagaugggauuagcuaguaggugggguaacggcucacc
uaggcgacgaucccuagcuggucugagaggaugaccagccacacuggaac
ugagacacgguccagacuccuacgggaggcagcaguggggaauauugcac
aaugggcgcaagccugaugcagccaugccgcguguaugaagaagcccuuc
ggguuguaaaguacuuucagcggggaggaagggaguaaaguuaauaccuu
ugcucauugacguuacccgcagaagaagcaccggcuaacuccgugccagc
agccgcgguaauacggagggugcaagcguuaaucggaauuacugggcgua
aagcgcacgcaggcgguuuguuaagucagaugugaaauccccgggcucaa
ccugggaacugcaucugauacuggcaagcuugagucucguagaggggggu
agaauuccagguguagcggugaaaugcguagagaucuggaggaauaccgg
uggcgaaggcggcccccuggacgaagacugacgcucaggugcgaaagcgu
ggggagcaaacaggauuagauacccugguaguccacgccguaaacgaugu
cgacuuggagguugugccggcguggcuuccggagcuaacgcguuaagucg
accgccuggggaguacggccgcaagguuaaaacucaaaugaauugacggg
gguuguacacaccgcccgucacaccaugggaguggguugcaaaagaagua
gguagcuuaaccuucgggagggcgcuuaccacuuugugauucaugacugg
ggugaagucguaacaagguaaccguaggggaaccugcgguuggauca

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8cgu Structural conservation of antibiotic interaction with ribosomes.
• Resolution: 1.89 Å
• Binding residue (original residue number in PDB): H22 N28 N29 I31 T33 G39 N40 A41 W44 T46 G48 G49 R53 G54 S55 K57 K87 P115 I116 P117 H118 X119 G120 C121 R122 P124 K125 R127 R128
• Binding residue (residue number reindexed from 1): H4 N10 N11 I13 T15 G21 N22 A23 W26 T28 G30 G31 R35 G36 S37 K39 K69 P97 I98 P99 H100 X101 G102 C103 R104 P106 K107 R109 R110

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0019843 rRNA binding
• GO:0070181 small ribosomal subunit rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8cgu, PDBe:8cgu, PDBj:8cgu
• PDBsum: 8cgu
• PubMed: 37550453
• UniProt: P0A7R9|RS11_ECOLI Small ribosomal subunit protein uS11 (Gene Name=rpsK)