Structure of PDB 4v9k Chain AM Binding Site BS01

Receptor Information
>4v9k Chain AM (length=125) Species: 262724 (Thermus thermophilus HB27) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ARIAGVEIPRNKRVDVALTYIYGIGKARAKEALEKTGINPATRVKDLTEA
EVVRLREYVENTWKLEGELRAEVAANIKRLMDIGCYRGLRHRRGLPVRGQ
RTRTNARTRKGPRKTVAGKKKAPRK
Ligand information
>4v9k Chain AA (length=1511) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uggagaguuugauccuggcucagggugaacgcuggcggcgugccuaagac
augcaagucgugcgggccgcgggguuuuacuccguggucagcggcggacg
ggugaguaacgcgugggugaccuacccggaagagggggacaacccgggga
aacucgggcuaaucccccauguggacccgccccuugggguguguccaaag
ggcuuugcccgcuuccggaugggcccgcgucccaucagcuaguugguggg
guaauggcccaccaaggcgacgacggguagccggucugagaggauggccg
gccacaggggcacugagacacgggccccacuccuacgggaggcagcaguu
aggaaucuuccgcaaugggcgcaagccugacggagcgacgccgcuuggag
gaagaagcccuucgggguguaaacuccugaacccgggacgaaacccccga
ggaggggacugacgguaccgggguaauagcgccggccaacuccgugccag
cagccgcgguaauacggagggcgcgagcguuacccggauucacugggcgu
aaagggcguguaggcggccuggggcgucccaugugaaagaccacggcuca
accgugggggagcgugggauacgcucaggcuagacggugggagagggugg
uggaauucccggaguagcggugaaaugcgcagauaccgggaggaacgccg
auggcgaaggcagccaccugguccacccgugacgcugaggcgcgaaagcg
uggggagcaaaccggauuagauacccggguaguccacgcccuaaacgaug
cgcgcuaggucucugggucuccugggggccgaagcuaacgcguuaagcgc
gccgccuggggaguacggccgcaaggcugaaacucaaaggaauugacggg
ggcccgcacaagcgguggagcaugugguuuaauucgaagcaacgcgaaga
accuuaccaggccuugacaugcuagggaacccgggugaaagccuggggug
ccccgcgaggggagcccuagcacaggugcugcauggccgucgucagcucg
ugccgugagguguuggguuaagucccgcaacgagcgcaacccccgccguu
aguugccagcgguucggccgggcacucuaacgggacugcccgcgaaagcg
ggaggaaggaggggacgacgucuggucagcauggcccuuacggccugggc
gacacacgugcuacaaugcccacuacaaagcgaugccacccggcaacggg
gagcuaaucgcaaaaaggugggcccaguucggauuggggucugcaacccg
accccaugaagccggaaucgcuaguaaucgcggaucagccaugccgcggu
gaauacguucccgggccuuguacacaccgcccgucacgccaugggagcgg
gcucuacccgaagucgccgggagccuacgggcaggcgccgaggguagggc
ccgugacuggggcgaagucguaacaagguagcuguaccggaaggugcggc
uggaucaccuc
....<<<<..{.((((.>>>>.<<<<.<<<<<..<<<<<<<<..<..<<<
.<<<..<<<..<<.<<<<<<<.<<.....>>.>>>>>>>.>>>>>.....
.<<..<....<<<<<<<<..<<...<<<<<<<.<<<<<....<<<<<...
...>>>>>.....>>>>>....<<<<.<<<<<....>>>>>.>>>>...<
<<<...>>>>.>>>>>>>..>>>>>>>>>><<<....<<<..<<<<<<<<
.......>>>>>>>>>>>......>>>..<<<<<<<<.[[.>>>>...>>
>>>>>.<<<<<.<.........>>>>>>.<<<<....>>>>...>>>>>>
>........<<<....<<<<....>>>>..>>>..>>.>>>>>>..<<<<
......<<<<<..>>>>>.....>>>>....<<<<<......<.<<<<..
...>>>>..>.......>>>>>......<<<<<(((...<<<<<......
..))).........>>>>>>>>>>..>>>>>>>>>.......]].<<<((
.....<<<<...<<<.<<<<<<<.<<<<<<<<<<......<<<<<<....
.>>>>>>....>>>>>>>>..>>>>>>>>>...<<<<<<<<...<<<<<<
<....<<<<<<<....<<<......>>>.......>>>>>>>........
...<<....>>.>>>>>>>..>>>>>.>>>...>>>...>>>>....<<<
<<<...<<...<<<<.<.....>.>>>>...>>>>>>>>..........<
<<<<<..<<<<<<<<<<...>>>>>>>>>>...<<..))>>.....>>>>
>>.>>>.<<<......<<<<....>>>>....>>>..)))).}<<<<<.<
<<<<<<.<<.<<<<<<..<<<<<<<<<<......<<........>>....
......<<<<<<<.......<<<<<<...<<<<<<<....>>>>>>>...
<<<......>>>...>>>>>>..<<<.<<<..<<<<<<<......<<<<<
<<<<....>>>..<<<<......>>>>..>>>>>>.....<<<<.<<<<<
<<...<...<<<.....>>>.>....>>>>>>>.....<<<<<....>>>
>>........>>>>.......>.>>>...>>>>>>>>>...>>>>>>>..
.>>.>>>>>>>>.....<<<<<<<.....<<<..<<..<<<<....>>>>
..>>....>>>.....>>>>>>>......<....<<<<<<<........>
>>>>>>....>.....>>>>>>....<<<<<<<..........>>>>>>>
......>>...>>>>>>>>>>.>>....<..<<.<.<<<<.<<<..<<<<
<<<<<<<<<...<.<<<<....<<<....>>>.>>>>.>..>>>>>>>>>
>>>>..>>>.>>>>..>.>>...>.....<<<<<<<<<....>>>>>>>>
>..........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB4v9k Crystal structures of EF-G-ribosome complexes trapped in intermediate states of translocation.
Resolution3.5 Å
Binding residue
(original residue number in PDB)		R14 V17 Y21 Y23 G24 I25 G26 A28 R29 R44 N77 I78 Y87 R91 H92 L96 P97 R99 G100 Q101 R102 T103 R104 T105 N106 A107 R108 T109 K111 R114 K115 T116 V117 K122 R125
Binding residue
(residue number reindexed from 1)		R13 V16 Y20 Y22 G23 I24 G25 A27 R28 R43 N76 I77 Y86 R90 H91 L95 P96 R98 G99 Q100 R101 T102 R103 T104 N105 A106 R107 T108 K110 R113 K114 T115 V116 K121 R124
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
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:4v9k, PDBe:4v9k, PDBj:4v9k
PDBsum4v9k
PubMed23812722
UniProtP62655|RS13_THET2 Small ribosomal subunit protein uS13 (Gene Name=rpsM)

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