Structure of PDB 4v4w Chain AS Binding Site BS01

Receptor Information
>4v4w Chain AS (length=87) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PRSLKKGPFIDLHLLKKVEKAVESGDKKPLRTWSRRSTIFPNMIGLTIAV
HNGRQHVPVFVTDEMVGHKLGEFAPTRTYRGHAADKK
Ligand information
>4v4w Chain AA (length=1488) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
ugaagaguuugaucauggcucagauugaacgcuggcggcaggccuaacac
augcaagucgaacgguccggaagaagcuuucuuuuggacaguggcggacg
ggugaguaaugucugggaaacugccugauggagggggauaacuacuggaa
acgguagcuaauaccgcauaacgucgcaagaccaaagagguuuucuugcc
aucggaugugcccagaugggauuagcuaguaggugggguaacggcucacc
uaggcgacgaucccuagcuggucugagaggaugaccagccacacuggaac
ugagacacgguccagacuccuacgggaggcagcaguggggaauauugcac
aaugggcgcaagccugaugcagccaugccgcguguaugaagaaggccuuc
ggguuguaaaguacuuucgcggggaggaagggagcgacgagcucauugac
guuacccgcgaaguagcaccggcuaacuccgugccagcagccgcgguaau
acggagggugcaagcguuaaucggaauuacugggcguaaagcgcacgcag
gcgguuuguuaagucagaugugaaauccccgggcucaaccugggaacugc
aucugauacuggcaagcuugagucucguagagggggguagaauuccaggu
guagcggugaaaugcguagagaucuggaggaauaccgguggcgaaggcgg
cccccuggacgaagacugacgcucaggugcgaaagcguggggagcaaaca
ggauuagauacccugguaguccacgccguaaacgaugucgacuuggaggu
ugugucucguggcuuccggagcuaacgcguuaagucgaccgccuggggag
uacggccgcaagguuaaaacucaaaugaauugacgggggcccgcacaagc
gguggagcaugugguuuaauucgaugcaacgcgaagaaccuuaccugguc
uugacauccacggaaguuuucagagaugagaaugugccuucgggaaccgu
gagacaggugcugcauggcugucgucagcucguguugugaaauguugggu
uaagucccgcaacgagcgcaacccuuauccuuuguugccagcgguccggc
cgggaacucaaaggagacugccagugauaacuggaggaagguggggauga
cgucaagucaucauggcccuuacgaccagggcuacacacgugcuacaaug
gcgacuacaaagagaagcgaccucgcgagagcaagcggaccucauaaagu
gcgucguaguccggauuggagucugcaacucgacuccaugaagucggaau
cgcuaguaaucguggaucagaaugccacggugaauacguucccgggccuu
guacacaccgcccgucacaccaugggaguggguugcaaaagaaguaggua
gcaaccuucggggcgcuuaccacuuugugauucaugacuggggugaaguc
guaacaagguaaccguaggggaaccugcgguuggauca
....<<<<....((((.>>>>.<<<<..<......<<<<<<<.....<<<
.<<<..<<<..<<.<<<<<<<<<<.....>>>>>>>>>>.>>>>>.....
.<<.......<<<<<<<..<<...<<<<<<<.<.<<.....<<<<<....
..>>>>>......>>.>.....<<<....>>>....<<<<...>>>>.>>
>>>>>..>>.>>>>>>><<<....<<<..<<<<<<<.........>>>>>
>>>>>......>>>..<<<<<<<<....>>>...>>>>>.>>.<<<<<.<
.........>>>>>>.<<<<....>>>>...>>>>>>.........<<<.
..<<<<<....>>>>.>>>>..>>.>>>>>...<<<<......<<<<<..
>>>>>.....>>>>..<<<<<<<.......<<<<<.....>>>>.>....
....>>>>>>>....<<<<<(((...<<<<<.....<<.)))>>......
.>>>>>>>>>>......>>>>>..........<<<((.....<<<<...<
<<.<<<<<<<.<<<<<<<<<<......<<<<<<.....>>>>>>....>>
>>>>>>..>>>>>>>>>...<<<<<<<<...<<<<<<<....<<<<<<<<
.<.<<<......>>>.....>>>>>>>>>...........<<....>>.>
>>>>>>..>>>>.>>>>...>>>...>>>>....<<<<<<...<<...<<
<<.<.....>.>>>>...>>>>>>>>..........<<<<<<.<<<<<<<
<<<<...>>>>>>>>>>>..<<..))>>.....>>>>>>.>>>..<<...
...<<<<....>>>>....>>...))))..<<<<<.<<<<<<<.....<<
<<<..<<<<<<<<<<......<<........>>..........<<<<<<<
......<<.......<<<<<<<....>>>>>>>...<......>......
..>>.<<<.<<<..<<<<<<.......<<<<<<<<<....>>>..<<<<.
.....>>>>..>>>>>>.....<<<..<<<<<<<...<...<<<.....>
>>.>....>>>>>>>.....<<<<<....>>>>>.........>>>....
.....>>>...>>>>>>>>>...>>>>>>>...>>.>>>>>>>>......
<<<........<<<..<....<<<....>>>....>....>>>.......
.>>>............<<<<<<<........>>>>>>>..........>>
>>>.....<<<<<<<.........>>>>>>>...........>>>>>>>>
>>.>>.......<<.<.<<<<.<<<..<<<<<<<<<<<<....<<<<<<.
....<<....>>..>>>>>>...>>>>>>>>>>>>..>>>.>>>>..>.>
>.........<<<<<<<<<....>>>>>>>>>......
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB4v4w Elongation arrest by SecM via a cascade of ribosomal RNA rearrangements
Resolution15.0 Å
Binding residue
(original residue number in PDB)		P1 R2 S3 L4 K5 K6 G7 P8 F9 R36 F40 P41 V66 K69
Binding residue
(residue number reindexed from 1)		P1 R2 S3 L4 K5 K6 G7 P8 F9 R36 F40 P41 V66 K69
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0000049 tRNA binding
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
Biological Process
GO:0000028 ribosomal small subunit assembly
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
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:4v4w, PDBe:4v4w, PDBj:4v4w
PDBsum4v4w
PubMed16713583
UniProtP0A7U3|RS19_ECOLI Small ribosomal subunit protein uS19 (Gene Name=rpsS)

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