Structure of PDB 8cgu Chain T Binding Site BS01

Receptor Information

>8cgu Chain T (length=86) Species: 679895 (Escherichia coli BW25113)

ANIKSAKKRAIQSEKARKHNASRRSMMRTFIKKVYAAIEAGDKAAAQKAF
NEMQPIVDRQAAKGLIHKNKAARHKANLTAQINKLA

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): A2 N3 I4 K5 S6 A7 K9 R10 Q13 S14 R18 H20 N21 S23 R24 S26 M27 R29 T30 K33 K34 Y36 Q55 P56 D59 R60 K64 H68 K69 N70 K71 A73 R74 K76 A77 N78 T80 Q82
• Binding residue (residue number reindexed from 1): A1 N2 I3 K4 S5 A6 K8 R9 Q12 S13 R17 H19 N20 S22 R23 S25 M26 R28 T29 K32 K33 Y35 Q54 P55 D58 R59 K63 H67 K68 N69 K70 A72 R73 K75 A76 N77 T79 Q81

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0008073 ornithine decarboxylase inhibitor activity
• GO:0019843 rRNA binding
• GO:0070181 small ribosomal subunit rRNA binding

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8cgu, PDBe:8cgu, PDBj:8cgu
• PDBsum: 8cgu
• PubMed: 37550453
• UniProt: P0A7U7|RS20_ECOLI Small ribosomal subunit protein bS20 (Gene Name=rpsT)