Structure of PDB 6vwl Chain j Binding Site BS01

Receptor Information
>6vwl Chain j (length=117) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
RKQVSDGVAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSRKSTPFA
AQVAAERCADAVKEYGIKNLEVMVKGPGPGRESTIRALNAAGFRITNITD
VTPIPHNGCRPPKKRRV
Ligand information
>6vwl Chain 1 (length=1521) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
ugaagaguuugaucauggcucagauugaacgcuggcggcaggccuaacac
augcaagucgaacgguaacaggaagcuuugcugacgaguggcggacgggu
gaguaaugucugggaaacugccugauggagggggauaacuacuggaaacg
guagcuaauaccgcauaacgucgcaagaccaaagagggggaccuucgggc
cucuugccaucggaugugcccagaugggauuagcuaguaggugggguaac
ggcucaccuaggcgacgaucccuagcuggucugagaggaugaccagccac
acuggaacugagacacgguccagacuccuacgggaggcagcaguggggaa
uauugcacaaugggcgcaagccugaugcagccaugccgcguguaugaaga
aggccuucggguuguaaaguacuuucagcggggaggaagggaguaaaguu
aauaccuuugcucauugacguuacccgcagaagaagcaccggcuaacucc
gugccagcagccgcgguaauacggagggugcaagcguuaaucggaauuac
ugggcguaaagcgcacgcaggcgguuuguuaagucagaugugaaaucccc
gggcucaaccugggaacugcaucugauacuggcaagcuugagucucguag
agggggguagaauuccagguguagcggugaaaugcguagagaucuggagg
aauaccgguggcgaaggcggcccccuggacgaagacugacgcucaggugc
gaaagcguggggagcaaacaggauuagauacccugguaguccacgccgua
aacgaugucgacuuggagguugugccgcguggcuuccggagcuaacgcgu
uaagucgaccgccuggggaguacggccgcaagguuaaaacucaaaugaau
ugacgggggcccgcacaagcgguggagcaugugguuuaauucgaugcaac
gcgaagaaccuuaccuggucuugacauccacggaaguuuucagagaugag
aaugugccuucgggaaccgugagacaggugcugcauggcugucgucagcu
cguguugugaaauguuggguuaagucccgcaacgagcgcaacccuuaucc
uuuguugccagcgguccggccgggaacucaaaggagacugccagugauaa
acuggaggaagguggggaugacgucaagucaucauggcccuuacgaccag
ggcuacacacgugcuacaauggcgcauacaaagagaagcgaccucgcgag
agcaagcggaccucauaaagugcgucguaguccggauuggagucugcaac
ucgacuccaugaagucggaaucgcuaguaaucguggaucagaaugccacg
gugaauacguucccgggccuuguacacaccgcccgucacaccaugggagu
ggguugcaaaagaaguagguagcuuaaccuucgggagggcgcuuaccacu
uugugauucaugacuggggugaagucguaacaagguaaccguagggaaac
cugcgguuggaucaccuccuu
....<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<.....<<<
.<<<..<<<..<<.<<..<<<<<<..>>>.>>>>>..>>>>>......<<
.......<<<<<<<..<<...<<<<<<<.<.<<.....<<<<<......>
>>>>......>>.>.....<<<....>>>....<<<<<<..<<....>>>
>>>>>.>>>>>>>..>>.>>>>>>><<<....<<<..<<<<<<<......
...>>>>>>>>>>......>>>..<<<<<<<<....>>>>...>>>>.>>
.<<<<<.<.........>>>>>>.<<<<<..>>>>>...>>>>>>.....
....<<<...<<<<<....>>>>.>>>>..>>.>>>>>>..<<<<.....
..<<<....>>>......>>>>..<<.<<<<<......<.<<<<<<<<..
.....>>>>>>>>.>........>>>>>....>>.<<<<<(((...<<<<
<.....<<.)))>>.......>>>>>>>>>>..>>>>>>>>>........
..<<<((.....<<<<...<<<.<<<<<<<.<<<<<<<<<<......<<<
<<<.....>>>>>>....>>>>>>>>..>>>>>>>>>...<<<<<<<<..
.<<<<<<<....<<<<<<<<...<<<......>>>......>>>>>>>>.
..........<<....>>.>>>>>>>..>>>.>>>>>...>>>...>>>>
....<<<<<<...<<...<<<<.........>>>>...>>>>>>>>....
......<<<<<<.<<<<<<<<<<<<.>>>>>>>>>>>>..<<..))>>..
...>>>>>>.>>>.<<<......<<<<....>>>>....>>>..)))).]
<<<<<.<<<<<<<.<<..<<<<<.<<<<<<<<<<<......<<.......
.>>..........<<<<<<<......<<<<<<<..<<<<<<<....>>>>
>>>....<....>...>>>>>.>>.<<<.<<<..<<<<<<.......<<<
<<<<<<....>>>..<<<<......>>>>..>>>>>>.....<<<<.<<<
<<<<...<<..<<<.....>>>>>....>>>>>>>.....<<<<<.....
>>>>>........>>>>.........>>>...>>>>>>>>>...>>>>>>
>...>>.>>>>>>>>.>...<<<<<<<.....<<<..<<...<<<....>
>>...>>....>>>.....>>>>>>>......<....<<<<<<<......
..>>>>>>>....>.....>>>>>.....<<<<<<<.........>>>>>
>>......>>...>>>>>>>>>>.>>....<..<<.<.<<<<.<<<..<<
<<<<<<<<<<....<<<<<<.<<<<..<<....>>.>>>>>>>>>>...>
>>>>>>>>>>>..>>>.>>>>..>.>>...>.....<<<<<<<<<....>
>>>>>>>>.............
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6vwl mRNA stem-loops can pause the ribosome by hindering A-site tRNA binding.
Resolution3.1 Å
Binding residue
(original residue number in PDB)		H21 N27 N28 I30 T32 G38 N39 A40 W43 T45 G47 G48 R52 G53 S54 K56 K86 I115 P116 H117 N118 C120 R121 P123 K124 R126 R127
Binding residue
(residue number reindexed from 1)		H10 N16 N17 I19 T21 G27 N28 A29 W32 T34 G36 G37 R41 G42 S43 K45 K75 I104 P105 H106 N107 C109 R110 P112 K113 R115 R116
Enzymatic activity
Enzyme Commision number ?
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

View graph for
Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6vwl, PDBe:6vwl, PDBj:6vwl
PDBsum6vwl
PubMed32427100
UniProtP0A7R9|RS11_ECOLI Small ribosomal subunit protein uS11 (Gene Name=rpsK)

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