Structure of PDB 6ogg Chain Q Binding Site BS01

Receptor Information
>6ogg Chain Q (length=123) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ATVNQLVRKPRARKVAKSNVPALEACPQKRGVCTRVYTTTPKKPNSALRK
VCRVRLTNGFEVTSYIGGEGHNLQEHSVILIRGGRVKDLPGVRYHTVRGA
LDCSGVKDRKQARSKYGVKRPKA
Ligand information
>6ogg Chain 3 (length=1539) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
aauugaagaguuugaucauggcucagauugaacgcuggcggcaggccuaa
cacaugcaagucgaacgguaacaggaagaagcuugcuucuuugcugacga
guggcggacgggugaguaaugucugggaaacugccugauggagggggaua
acuacuggaaacgguagcuaauaccgcauaacgucgcaagaccaaagagg
gggaccuucgggccucuugccaucggaugugcccagaugggauuagcuag
uaggugggguaacggcucaccuaggcgacgaucccuagcuggucugagag
gaugaccagccacacuggaacugagacacgguccagacuccuacgggagg
cagcaguggggaauauugcacaaugggcgcaagccugaugcagccaugcc
gcguguaugaagaaggccuucggguuguaaaguacuuucagcggggagga
agggaguaaaguuaauaccuuugcucauugacguuacccgcagaagaagc
accggcuaacuccgugccagcagccgcgguaauacggagggugcaagcgu
uaaucggaauuacugggcguaaagcgcacgcaggcgguuuguuaagucag
augugaaauccccgggcucaaccugggaacugcaucugauacuggcaagc
uugagucucguagagggggguagaauuccagguguagcggugaaaugcgu
agagaucuggaggaauaccgguggcgaaggcggcccccuggacgaagacu
gacgcucaggugcgaaagcguggggagcaaacaggauuagauacccuggu
aguccacgccguaaacgaugucgacuuggagguugugcccuugaggcgug
gcuuccggagcuaacgcguuaagucgaccgccuggggaguacggccgcaa
gguuaaaacucaaaugaauugacgggggcccgcacaagcgguggagcaug
ugguuuaauucgaugcaacgcgaagaaccuuaccuggucuugacauccac
ggaaguuuucagagaugagaaugugccuucgggaaccgugagacaggugc
ugcauggcugucgucagcucguguugugaaauguuggguuaagucccgca
acgagcgcaacccuuauccuuuguugccagcgguccggccgggaacucaa
aggagacugccagugauaaacuggaggaagguggggaugacgucaaguca
ucauggcccuuacgaccagggcuacacacgugcuacaauggcgcauacaa
agagaagcgaccucgcgagagcaagcggaccucauaaagugcgucguagu
ccggauuggagucugcaacucgacuccaugaagucggaaucgcuaguaau
cguggaucagaaugccacggugaauacguucccgggccuuguacacaccg
cccgucacaccaugggaguggguugcaaaagaaguagguagcuuaaccuu
cgggagggcgcuuaccacuuugugauucaugacuggggugaagucguaac
aagguaaccguaggggaaccugcgguuggaucaccuccu
.......<<<<<.[.((((>>>>>.<<<<.<<<<<..<<<<<<<......
<<<.<<<..<<<..<<.<<..<<<.<<<<<<....>>>>.>>.>>>>>..
>>>>>......<<..<....<<<<<<<..<<...<<<<<<<...<<....
.<<<<<......>>>>>......>>.......<<......>>....<<<<
<.<.<<....>>>>>>>>.>>>>>>>..>>.>>>>>>><<<....<<<..
.<<<<<<.........>>>>>>.>>>......>>>..<<<<<<<<....>
>>>...>>>>>>>.<<<<<.<.........>>>>>>.<<<<....>>>>.
..>>>>>>.........<<...<<<<<<....>>>>.>>>>...>.>>>>
>>..<<<<.......<<<....>>>......>>>>...<.<<<<<.....
...<<<<<<<<.......>>>>>>>>..........>>>>>....>..<<
<<<(((...<<<<<.....<..))).>.......>>>>>>>>>>..>>>>
>>>>>..........<<<((.....<<<<...<<<.<<<<<<..<<<<<<
<<<<......<<<<<<.....>>>>>>....>>>>>>>>..>>.>>>>>>
...<<<<<<<<...<<<<<<<....<<<<<<<<...<<<......>>>..
....>>>>>>>>...........<<....>>.>>>>>>>..>>>.>>>>>
...>>>...>>>>....<<<<<<<...<...<<<<.........>>>>..
.>>>>>>>>..........<<<<<<..<<<<<<.<<<<<.....>>>>>.
>>>>>>...<<..))>>.....>>>>>>.>>>.<<<.......<<<....
>>>.....>>>..)))).]<<<<<.<<<<<<<..<..<<<<...<<<<<<
<<<<......<<........>>..........<<<<<<<.......<<<<
<<..<<<.<<......>.>>>>.............>>>>>.>...<<.<<
<..<<<<<<.......<<<<<<<<<....>>>..<<<<......>>>>..
>>>>>>.....<<<..<<<<<<<...<....<.......>..>....>>>
>>>>.....<<<<<.....>>>>>.........>>>.........>>>..
.>>>>>>>>....>>>>>>>...>>.>>>>>>>>.....<<<<<<<....
.<<<..<....<<<....>>>....>....>>>.....>>>>>>>.....
.<..<.<<<<<<<........>>>>>>>>...>......>>>>.....<<
<<<<<.........>>>>>>>......>....>>>>>>>>>>.>>.....
..<<.<.<<<<.<<<..<<<<<<<<<<<<....<<<<<<.<<<...<<..
..>>..>>>>>>>>>...>>>>>>>>>>>>..>>>.>>>>..>.>>....
.....<<<<<<<<<....>>>>>>>>>............
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6ogg Extensive ribosome and RF2 rearrangements during translation termination.
Resolution4.2 Å
Binding residue
(original residue number in PDB)		N4 Q5 R8 K9 R11 A12 R13 K14 K17 E24 P27 Q28 K29 R30 K42 K43 P44 N45 S46 R49 T57 E69 L80 R82 G83 R85 V86 K87 D88 R93 G99 D108 R109 K110 Q111 A112 R113 S114 K115 Y116 G117 K119 R120
Binding residue
(residue number reindexed from 1)		N4 Q5 R8 K9 R11 A12 R13 K14 K17 E24 P27 Q28 K29 R30 K42 K43 P44 N45 S46 R49 T57 E69 L80 R82 G83 R85 V86 K87 D88 R93 G99 D108 R109 K110 Q111 A112 R113 S114 K115 Y116 G117 K119 R120
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0000049 tRNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0019843 rRNA binding
GO:0034336 misfolded RNA binding
Biological Process
GO:0000372 Group I intron splicing
GO:0002181 cytoplasmic translation
GO:0006412 translation
GO:0033120 positive regulation of RNA splicing
GO:0034337 RNA folding
GO:0046677 response to antibiotic
GO:1990145 maintenance of translational fidelity
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

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6ogg, PDBe:6ogg, PDBj:6ogg
PDBsum6ogg
PubMed31513010
UniProtP0A7S3|RS12_ECOLI Small ribosomal subunit protein uS12 (Gene Name=rpsL)

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