Structure of PDB 8qoa Chain M Binding Site BS02

Receptor Information
>8qoa Chain M (length=115) Species: 679895 (Escherichia coli BW25113) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ARIAGINIPDHKHAVIALTSIYGVGKTRSKAILAAAGIAEDVKISELSEG
QIDTLRDEVAKFVVEGDLRREISMSIKRLMDLGCYRGLRHRRGLPVRGQR
TKTNARTRKGPRKPI
Ligand information
>8qoa Chain A (length=1513) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
aauugaagaguuugaucauggcucagauugaacgcuggcggcaggccuaa
cacaugcaagucgaacgguaacaggugcugacgaguggcggacgggugag
uaaugucugggaaacugccugauggagggggauaacuacuggaaacggua
gcuaauaccgcauaacgucgcaagaccaaagaggggccucuugccaucgg
augugcccagaugggauuagcuaguaggugggguaacggcucaccuaggc
gacgaucccuagcuggucugagaggaugaccagccacacuggaacugaga
cacgguccagacuccuacgggaggcagcaguggggaauauugcacaaugg
gcgcaagccugaugcagccaugccgcguguaugaagaaggccuucggguu
guaaaguacuuucagcggggaggaagggaguaaaguuaauaccuuugcuc
auugacguuacccgcagaagaagcaccggcuaacuccgugccagcagccg
cgguaauacggagggugcaagcguuaaucggaauuacugggcguaaagcg
cacgcaggcgguuuguuaagucagaugugaaauccccgggcucaaccugg
gaacugcaucugauacuggcaagcuugagucucguagagggggguagaau
uccagguguagcggugaaaugcguagagaucuggaggaauaccgguggcg
aaggcggcccccuggacgaagacugacgcucaggugcgaaagcgugggga
gcaaacaggauuagauacccugguaguccacgccguaaacgaugucgacu
uggagguugugcccuugaggcguggcuuccggagcuaacgcguuaagucg
accgccuggggaguacggccgcaagguuaaaacucaaaugaauugacggg
ggcccgcacaagcgguggagcaugugguuuaauucgaugcaacgcgaaga
accuuaccuggucuugacauccacggaaguuuucagagaugagaaugugc
cuucgggaaccgugagacaggugcugcauggcugucgucagcucguguug
ugaaauguuggguuaagucccgcaacgagcgcaacccuuauccuuuguug
ccagcgguccggccgggaacucaaaggagacugccagugauaaacuggag
gaagguggggaugacgucaagucaucauggcccuuacgaccagggcuaca
cacgugcuacaauggcgcauacaaagagaagcgaccucgcgagagcaagc
ggaccucauaaagugcgucguaguccggauuggagucugcaacucgacuc
caugaagucggaaucgcuaguaaucguggaucagaaugccacggugaaua
cguucccgggccuuguacacaccgcccgucacaccaugggaguggguugc
aaaagaaguagguagcuuaaccuucgggagggcgcuuaccacuuugugau
ucaugacuggggugaagucguaacaagguaaccguaggggaaccugcggu
uggaucaccuccu
.......<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<.....
<<<.<<<..<<<..<<.<...<<<...>>>.>..>>>>>......<<...
....<<<<<<<..<<...<<<<<<<.<.<<.....<<<<<......>>>>
>......>>.>.....<<<....>>>....<<<<<..>>>>>.>>>>>>>
..>>.>>>>>>><<<....<<<..<<<<<<<.........>>>>>>>>>>
......>>>..<<<<<<<<....>>>>...>>>>.>>.<<<<<.<.....
....>>>>>>.<<<<....>>>>...>>>>>>.........<<<...<<<
<<....>>>>.>>>>..>>.>>>>>>..<<<<......<<<<....>>>>
.....>>>>...<.<<<<<......<.<<<<<<<<.......>>>>>>>>
.>........>>>>>....>..<<<<<(((...<<<<<.....<<.)))>
>.......>>>>>>>>>>..>>>>>>>>>..........<<<((.....<
<<<...<<<.<<<<<<<.<<<<<<<<<<......<<<<<<.....>>>>>
>....>>>>>>>>..>>>>>>>>>...<<<<<<<<...<<<<<<<....<
<<<<<<<...<<<......>>>......>>>>>>>>...........<<.
...>>.>>>>>>>..>>>>.>>>>...>>>...>>>>....<<<<<<...
<<...<<<<.<.....>.>>>>...>>>>>>>>..........<<<<<<.
<<<<<<<<<<<<<.....>>>>>>>>>>>>>..<<..))>>.....>>>>
>>.>>>.<<<......<<<<....>>>>....>>>..)))).]<<<<<.<
<<<<<<.<<.<<<<<<..<<<<<<<<<<......<<........>>....
......<<<<<<<......<<<<<<<.....<<<<....>>>>......<
<....>>..>>>>>.>>.<<<.<<<..<<<<<<.......<<<<<<<<<.
...>>>..<<<<......>>>>..>>>>>>.....<<<<.<<<<<<<...
<<..<<<.....>>>>>....>>>>>>>.....<<<<<.....>>>>>..
......>>>>.........>>>...>>>>>>>>>...>>>>>>>...>>.
>>>>>>>>.....<<<<<<<.....<<<..<<...<<<....>>>...>>
....>>>.....>>>>>>>......<....<<<<<<<........>>>>>
>>....>.....>>>>>>....<<<<<<<.........>>>>>>>.....
.>>...>>>>>>>>>>.>>....<..<<.<.<<<<.<<<..<<<<<<<<<
<<<....<<<<<<.<<<<..<<<..>>>.>>>>>>>>>>...>>>>>>>>
>>>>..>>>.>>>>..>.>>...>.....<<<<<<<<<....>>>>>>>>
>............
Receptor-Ligand Complex Structure
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PDB8qoa SecM adopts alpha-helical conformation in the ribosomal exit tunnel and traps a pre-peptide bond formation state of the ribosome
Resolution2.0 Å
Binding residue
(original residue number in PDB)		K13 H14 I17 Y23 G24 V25 G26 T28 R29 S76 Y86 R87 R90 H91 P96 V97 R98 G99 Q100 R101 T102 K103 T104 N105 A106 R107 T108 R109 K110 R113 K114 I116
Binding residue
(residue number reindexed from 1)		K12 H13 I16 Y22 G23 V24 G25 T27 R28 S75 Y85 R86 R89 H90 P95 V96 R97 G98 Q99 R100 T101 K102 T103 N104 A105 R106 T107 R108 K109 R112 K113 I115
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0000049 tRNA binding
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0019843 rRNA binding
Biological Process
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

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8qoa, PDBe:8qoa, PDBj:8qoa
PDBsum8qoa
PubMed38503753
UniProtP0A7S9|RS13_ECOLI Small ribosomal subunit protein uS13 (Gene Name=rpsM)

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