Structure of PDB 6vwl Chain n Binding Site BS01

Receptor Information

>6vwl Chain n (length=87) Species: 562 (Escherichia coli)

SLSTEATAKIVSEFGRDANDTGSTEVQVALLTAQINHLQGHFAEHKKDHH
SRRGLLRMVSQRRKLLDYLKRKDVARYTQLIERLGLR

Ligand information

>6vwl Chain 2 (length=2833)

gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucuagccaugggcag
guugaagguuggguaacacuaacuggaggaccgaaccgacuaaugucgaa
aaauuagcggaugacuuguggcugggggugaaaggccaaucaaaccggga
gauagcugguucuccccgaaagcuauuuagguagcgccucgugaauucau
cuccggggguagagcacuguuucggcaagggggucaucccgacuuaccaa
cccgaugcaaacugcgaauaccggagaauguuaucacgggagacacacgg
cgggugcuaacguccgucgugaagagggaaacaacccagaccgccagcua
aggucccaaagucaugguuaagugggaaacgaugugggaaggucggccug
cgcggaagauguaacggggcuaaaccaugcaccgaagcugcggcagcgac
gcuuaugcguuguuggguaggggagcguucuguaagccugcgaaggugug
cugugaggcaugcuggagguaucagaagugcgaaugcugacauaaguaac
gauaaagcgggugaaaagcccgcucgccggaagaccaaggguuccugucc
aacguuaaucggggcagggugagucgaccccuaaggcgaggccgaaaggc
guagucgaugggaaacagguuaauauuccuguacuugguguuacugcgaa
ggggggacggagaaggcuauguuggccgggcgacgguugucccgguuuaa
gcguguaggcugguuuuccaggcaaauccggaaaaucaaggcugaggcgu
gaugacgaggcacuacggugcugaagcaacaaaugcccugcuuccaggaa
aagccucuaagcaucagguaacaucaaaucguaccccaaaccgacacagg
uggucagguagagaauaccaaggcgcuugagagaacucgggugaaggaac
uaggcaaaauggugccguaacuucgggagaaggcacgcugauauguaggu
gaggucccucgcggauggagcugaaaucagucgaagauaccagcuggcug
caacuguuuauuaaaaacacagcacugugcaaacacgaaaguggacguau
acggugugacgccugcccggugccggaagguuaauugaugggguuagcgc
aagcgaagcucuugaucgaagccccgguaaacggcggccguaacuauaac
gguccuaagguagcgaaauuccuugucggguaaguuccgaccugcacgaa
uggcguaaugauggccaggcugucuccacccgagacucagugaaauugaa
cucgcugugaagaugcaguguacccgcggcaagacggaaagaccccguga
accuuuacuauagcuugacacugaacauugagccuugauguguaggauag
gugggaggcuuugaaguguggacgccagucugcauggagccgaccuugaa
auaccacccuuuaauguuugauguucuaacguugacccguaauccggguu
gcggacagugucugguggguaguuugacuggggcggucuccuccuaaaga
guaacggaggagcacgaagguuggcuaauccuggucggacaucaggaggu
uagugcaauggcauaagccagcuugacugcgagcgugacggcgcgagcag
gugcgaaagcaggucauagugauccggugguucugaauggaagggccauc
gcucaacggauaaaagguacuccggggauaacaggcugauaccgcccaag
aguucauaucgacggcgguguuuggcaccucgaugucggcucaucacauc
cuggggcugaaguaggucccaaggguauggcuguucgccauuuaaagugg
uacgcgagcuggguuuagaacgucgugagacaguucggucccuaucugcc
gugggcgcuggagaacugaggggggcugcuccuaguacgagaggaccgga
guggacgcaucacugguguucggguugucaugccaauggcacugcccggu
agcuaaaugcggaagagauaagugcugaaagcaucuaagcacgaaacuug
ccccgagaugaguucucccugacccuuuaaggguccugaaggaacguuga
agacgacgacguugauaggccggguguguaagcgcagcgaugcguugagc
uaaccgguacuaaugaaccgugaggcuuaaccu

<<<<<<<<......<<<<<<<<<<<.....[[..[[<<<<<<<[[<<...
...<<<<<<....(((.>>>.....<<<<<<<..<<<)))....>>>...
...>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<
<<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>
>......>>>>>.>.........<<....>>..<<<<<<.....<<....
.>>....>>>>>>..(((..<<<<......<<<<<<<<<<<<<.<<<...
<<<<<......>>>>>((......<<<.....))>>>...>>>...>>>>
>>>>>>>>>...>>>>........<<<<<<<<.........>>>>>>>>.
.....<<<<<..<<<<>>>>>..)))......]].>>>>>>>.]].....
..........<<....>>....]].........<<<<.....>>>>....
..............>>>>>>>>>>>.......<<<<..<<<<<<....>>
>>>>..>>>>...<.<........>.>.<<<<<<....<<<<<<<<<<<<
<..<<<...<<.....>>...>>>...<<....>>..<<<<.....>>>>
.....>>>>>>>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<
<<....<<<<<<......>>>>>>.....>>>...<<<.<<<<<......
..>>>>>>>>....>>>>>>>>>...<<<.....>>>......>>>>>>.
..>..>.>>..<<<<<<....<<<<<....>>>>>.<<<<<<<<...<<<
<<<<<<.....<<<...<<<.<<<<...<<.<<<<.....>>>>..>>..
.>>>>.>>>..>>.>.....>>>>>>.>>>...>>>>>>>.>...<<<<<
<<<<<......>>>>>>>>>>....<<<......>>>...<<<<.<<<..
.<<<(((.....<<<<<<...........<<.<<<<<<..<..>..>>>>
>>>>...........))).....>>>>>>.>>>...>>>>>>><<<<<<<
<<....>>>>>>>>>....>>>>>>..<<<<<...<<<......<<<<<<
<<....>>>>>>>>...>>>..>>>>>........>>>>>><......<<
.....<<<<<<.......>>>>>><<<<....<<<<<.<<...<<<<<<.
..<<.....>>.>>>>>>....((<<<.<<<...<<<...<<<....>>>
...>>>...>>>..<<<<<........>>>>>))<<<<<<<<<<<<<...
<<<<....<<<<..<<<..<<<<<<<<<<<....(((...>>>>>><<..
<<<<...<<<<<<<<<<<<.<<.....>>>>>>>>>>..>>>>...>>>>
...>><..<<<<<....>>>>>...>>>>>>...>>>...>>>>......
...>>>>...>>....>>>>>>>>>>>.>>>..>>.....<<......>>
>>>>>.<<<<.....>>>>..>>>>..<<<<....<<<<<<<<.<<....
.....<.....<<<<<....<<..>>.....>>>>><<<<<<.....<<<
...<<<<.....>>>>...>>>...>>>>>>............<<<<<<<
<<..<<<.........>>>..<<<<<<<.....<<<....>>>.......
>>>>>>>.<<<<<.<<<..<<<<<<<..<<<....<...<<<....<<..
..>>.....>>>..>.....>>>>>>>>..>>>>>.<<<<<.......>>
>>>.........<...........<<<<<<.....>>>>>>.....>...
.>>>>>..>>.>>>>>>>..>..>>.>>>>>>>>.>>>>>>.....>...
..<<<<<........>>>>>..<<<<<<<<.(((.[[......<<<<.[[
<<<<..<<<<<.<<<.<<<<<.<<<<<<<<<<<.<<<<...........<
<<<<...<<......<<<<<<<......>>>>>>>...>>..........
...>>>>>..>>>>.>>>>>>>>>>>...<<<.<<<<<<.....>>>>>>
>>>....>>>>>.>>>..>>>>>..<<<<.....>>>><<<<<<......
.....>>>>>>.(<<...<<<<<<<...<<<<<<.......>>>>>>...
..<<)..(((>>....>>>>>>>...<<<<..<<<<....>>>>..>>>>
.<<<....>>>.>>))).......<<<<<<<.((..>>>>..))>>>>>>
>.............>>>>..]]>>>>.......<<<<...<<<<<<...<
<.......>>...>>>>>>....>>>.>.......<<<<<.<<<<<<..<
<<<<<<<<......>>>>>>..>>>.<<<<<.....>>>>>.....>>>>
>..>...>>>.>>....<<<<<<<....>>>.>>>>....]]..)))>>>
>>>>>....<<<<<<<...<<<<..<<<<<<<...............>>>
>>>>.<<<<<...<<<<...<<<<<<<<<<<))).>>>>>>..>>>>>..
.>>>>.>>>>>...<<<....<<<<<...........>>>>>....>>>.
>>>>.......>>>>>>>..<<<<<.....>>>>>.....<<..<<<<<.
......>>>>>....<<<<<<<<..<<....<<<<<....>>>>>...>>
...>>>>>.>>>.....>>.....>>>>>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6vwl mRNA stem-loops can pause the ribosome by hindering A-site tRNA binding.
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): Q39 L55 R62 R87
• Binding residue (residue number reindexed from 1): Q39 L55 R62 R87

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• 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
• GO:0006417 regulation of translation

Cellular Component

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

External links

• PDB: RCSB:6vwl, PDBe:6vwl, PDBj:6vwl
• PDBsum: 6vwl
• PubMed: 32427100
• UniProt: P0ADZ4|RS15_ECOLI Small ribosomal subunit protein uS15 (Gene Name=rpsO)