Structure of PDB 6vwl Chain l Binding Site BS01

Receptor Information
>6vwl Chain l (length=106) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ARIAGINIPDHKHAVIALTSIYGVGKTRSKAILAAAGIAEDVKISELSEG
QIDTLRDEVAKFVVEGDLRREISMSIKRLMDLGCYRGLRHRRGLPVRGQR
TKTNAR
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)		K12 H13 I16 G23 V24 G25 T27 R28 Y85 R86 R89 H90 L94 V96 R97 G98 Q99 R100 T101 T103 N104
Binding residue
(residue number reindexed from 1)		K12 H13 I16 G23 V24 G25 T27 R28 Y85 R86 R89 H90 L94 V96 R97 G98 Q99 R100 T101 T103 N104
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

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
UniProtP0A7S9|RS13_ECOLI Small ribosomal subunit protein uS13 (Gene Name=rpsM)

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