Structure of PDB 4v95 Chain AM Binding Site BS01

Receptor Information
>4v95 Chain AM (length=115) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
RIAGVEIPRNKRVDVALTYIYGIGKARAKEALEKTGINPATRVKDLTEAE
VVRLREYVENTWKLEGELRAEVAANIKRLMDIGCYRGLRHRRGLPVRGQR
TRTNARTRKGPRKTV
Ligand information
>4v95 Chain AA (length=1466) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uuggagaguuugauccuggcucagggugaacgcuggcggcgugccuaaga
caugcaagucgugcgggccgcggccguggucagcggcggacgggugagua
acgcgugggugaccuacccggaagagggggacaacccggggaaacucggg
cuaaucccccauguggacccgccccuugggguguguccaaagggcuuugc
ccgcuuccggaugggcccgcgucccaucagcuaguuggugggguaauggc
ccaccaaggcgacgacggguagccggucugagaggauggccggccacagg
ggcacugagacacgggccccacuccuacgggaggcagcaguuaggaaucu
uccgcaaugggcgcaagccugacggagcgacgccgcuuggaggaagaagc
ccuucgggguguaaacuccugaacccgggacgaaacccccgacgagggga
cugacgguaccgggguaauagcgccggccaacuccgugccagcagccgcg
guaauacggagggcgcgagcguuacccggauucacugggcguaaagggcg
uguaggcggccuggggcgucccaugugaaagaccacggcucaaccguggg
ggagcgugggauacgcucaggcuagacggugggagagggugguggaauuc
ccggaguagcggugaaaugcgcagauaccgggaggaacgccgauggcgaa
ggcagccaccugguccacccgugacgcugaggcgcgaaagcguggggagc
aaaccggauuagauacccggguaguccacgcccuaaacgaugcgcgcuag
gucucugggucuccugggggccgaagcuaacgcguuaagcgcgccgccug
gggaguacggccgcaaggcugaaacucaaaggaauugacgggggcccgca
caagcgguggagcaugugguuuaauucgaagcaacgcgaagaaccuuacc
aggccuugacaugcccgggugaaagccugggcacaggugcugcauggccg
ucgucagcucgugccgugagguguuggguuaagucccgcaacgagcgcaa
cccccgccguuaguugccagcgguucggccgggcacucuaacgggacugc
ccgcgaaagcgggaggaaggaggggacgacgucuggucagcauggcccuu
acggccugggcgacacacgugcuacaaugcccacuacaaagcgaugccac
ccggcaacggggagcuaaucgcaaaaaggugggcccaguucggauugggg
ucugcaacccgaccccaugaagccggaaucgcuaguaaucgcggaucagc
caugccgcggugaauacguucccgggccuuguacacaccgcccgucacgc
caugggagcgggcucuacccgaagucgccgggagccuacgggcaggcgcc
gaggguagggcccgugacuggggcgaagucguaacaagguagcuguaccg
gaaggugcggcuggau
.....<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<..<..<<
<.<<<..<<<..<<.<<<<<<<..>>>>>>>.>>>>>......<<.....
..<<<<<<<<..<<...<<<<<<<.<<<<<...<<<<<<......>>>>>
.>...>>>>>...<<<<<.<<<<<....>>>>>.>>>>>..<<<<...>>
>>.>>>>>>>..>>>>>>>>>><<<....<<<..<<<<<<<<.......>
>>>>>>>>>>......>>>..<<<<<<<<....>>>>...>>>>.>>.<<
<<<.<.........>>>>>>.<<<<....>>>>...>>>>>>>.......
.<<<....<<<<....>>>>..>>>..>>.>>>>>>..<<<<......<<
<<....>>>>.....>>>>....<<<<<........<<<<.....>>>>.
.........>>>>>......<<<<<(((...<<<<<.....<<.)))>>.
......>>>>>>>>>>..>>>>>>>>>..........<<<((.....<<<
<...<<<.<<<<<<<.<<<<<<<<<<......<<<<<<.....>>>>>>.
...>>>>>>>>..>>>>>>>>>...<<<<<<<<...<<<<<<<....<<<
<<<<.<..<<<......>>>.....>.>>>>>>>...........<<...
.>>.>>>>>>>..>>>>>.>>>...>>>...>>>>....<<<<<<...<<
...<<<<.<.....>.>>>>...>>>>>>>>..........<<<<<<..<
<<<<<<<<<...>>>>>>>>>>...<<..))>>.....>>>>>>.>>>.<
<<......<<<<....>>>>....>>>..)))).]<<<<<.<<<<<<<.<
<.<<<<<<..<<<<<<<<<<......<<........>>..........<<
<<<<<......<<<<<<<<<....>>>>>>>>>.<<<.<<<..<<<<<<.
......<<<<<<<<<....>>>..<<<<......>>>>..>>>>>>....
.<<<<.<<<<<<<...<...<<<.....>>>>.....>>>>>>>.....<
<<<<....>>>>>........>>>>.........>>>...>>>>>>>>>.
..>>>>>>>...>>.>>>>>>>>.....<<<<<<<.....<<<..<<..<
<<<....>>>>..>>....>>>.....>>>>>>>......<....<<<<<
<<........>>>>>>>....>.....>>>>>>....<<<<<<<......
....>>>>>>>......>>...>>>>>>>>>>.>>....<..<<.<.<<<
<.<<<..<<<<<<<<<<<<<...<.<<<<....<<<....>>>.>>>>.>
..>>>>>>>>>>>>>..>>>.>>>>..>.>>...>.....<<<<<<<<<.
...>>>>>>>>>....
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB4v95 Structural basis for the rescue of stalled ribosomes: structure of YaeJ bound to the ribosome.
Resolution3.2 Å
Binding residue
(original residue number in PDB)		R14 Y21 Y23 G24 I25 G26 A28 R29 V74 N77 I78 Y87 R88 R91 H92 L96 P97 V98 R99 Q101 R102 T103 R104 T105 N106 A107 R108 T109 K111 R114 K115 T116
Binding residue
(residue number reindexed from 1)		R12 Y19 Y21 G22 I23 G24 A26 R27 V72 N75 I76 Y85 R86 R89 H90 L94 P95 V96 R97 Q99 R100 T101 R102 T103 N104 A105 R106 T107 K109 R112 K113 T114
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:0019843 rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005829 cytosol
GO:0005840 ribosome
GO:0015935 small ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:4v95, PDBe:4v95, PDBj:4v95
PDBsum4v95
PubMed22422986
UniProtP80377|RS13_THET8 Small ribosomal subunit protein uS13 (Gene Name=rpsM)

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