Structure of PDB 1vvj Chain XC Binding Site BS01

Receptor Information
>1vvj Chain XC (length=205) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GNKIHPIGFRLGITRDWESRWYAGKKQYRHLLLEDQRIRGLLEKELYSAG
LARVDIERAADNVAVTVHVAKPGVVIGRGGERIRVLREELAKLTGKNVAL
NVQEVQNPNLSAPLVAQRVAEQIERRFAVRRAIKQAVQRVMESGAKGAKV
IVSGRIGGAEQARTEWAAQGRVPLHTLRANIDYGFALARTTYGVLGVKAY
IFLGE
Ligand information
>1vvj Chain XA (length=1501) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uggagaguuugauccuggcucagggugaacgcuggcggcgugccuaagac
augcaagucgugcgggccgcgggguacuccguggucagcggcggacgggu
gaguaacgcgugggugaccuacccggaagagggggacaacccggggaaac
ucgggcuaaucccccauguggacccgccccuugggguguguccaaagggc
uuugcccgcuuccggaugggcccgcgucccaucagcuaguugguggggua
auggcccaccaaggcgacgacggguagccggucugagaggauggccggcc
acaggggcacugagacacgggccccacuccuacgggaggcagcaguuagg
aaucuuccgcaaugggcgcaagccugacggagcgacgccgcuuggaggaa
gaagcccuucgggguguaaacuccugaacccgggacgaaacccccgacga
ggggacugacgguaccgggguaauagcgccggccaacuccgugccagcag
ccgcgguaauacggagggcgcgagcguuacccggauucacugggcguaaa
gggcguguaggcggccuggggcgucccaugugaaagaccacggcucaacc
gugggggagcgugggauacgcucaggcuagacggugggagaggguggugg
aauucccggaguagcggugaaaugcgcagauaccgggaggaacgccgaug
gcgaaggcagccaccugguccacccgugacgcugaggcgcgaaagcgugg
ggagcaaaccggauuagauacccggguaguccacgcccuaaacgaugcgc
gcuaggucucugggucuccugggggccgaagcuaacgcguuaagcgcgcc
gccuggggaguacggccgcaaggcugaaacucaaaggaauugacgggggc
ccgcacaagcgguggagcaugugguuuaauucgaagcaacgcgaagaacc
uuaccaggccuugacaugcuagggaacccgggugaaagccuggggugccc
cgcgaggggagcccuagcacaggugcugcauggccgucgucagcucgugc
cgugagguguuggguuaagucccgcaacgagcgcaacccccgccguuagu
ugccagcgguucggccgggcacucuaacgggacugcccgcgaaagcggga
ggaaggaggggacgacgucuggucagcauggcccuuacggccugggcgac
acacgugcuacaaugcccacuacaaagcgaugccacccggcaacggggag
cuaaucgcaaaaaggugggcccaguucggauuggggucugcaacccgacc
ccaugaagccggaaucgcuaguaaucgcggaucagccaugccgcggugaa
uacguucccgggccuuguacacaccgcccgucacgccaugggagcgggcu
cuacccgaagucgccgggagccuacgggcaggcgccgaggguagggcccg
ugacuggggcgaagucguaacaagguagcuguaccggaaggugcggcugg
a
....<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<..<..<<<
.<<<..<<<..<<.<<<<<<<<<....>>>>>>>>>.>>>>>......<<
.......<<<<<<<<..<<...<<<<<<<.<<<<<....<<<<<......
>>>>>.....>>>>>....<<<<.<<<<<....>>>>>.>>>>...<<<<
...>>>>.>>>>>>>..>>>>>>>>>><<<....<<<..<<<<<<<<...
....>>>>>>>>>>>......>>>..<<<<<<<<....>>>>...>>>>.
>>.<<<<<.<.........>>>>>>.<<<<....>>>>...>>>>>>>..
......<<<....<<<<....>>>>..>>>..>>.>>>>>>..<<<<...
...<<<<<..>>>>>.....>>>>....<<<<<........<<<<.....
>>>>..........>>>>>......<<<<<(((...<<<<<.....<<.)
))>>.......>>>>>>>>>>..>>>>>>>>>..........<<<((...
..<<<<...<<<.<<<<<<<.<<<<<<<<<<......<<<<<<.....>>
>>>>....>>>>>>>>..>>>>>>>>>...<<<<<<<<...<<<<<<<..
..<<<<<<<.<..<<<......>>>.....>.>>>>>>>...........
<<....>>.>>>>>>>..>>>>>.>>>...>>>...>>>>....<<<<<<
...<<...<<<<.........>>>>...>>>>>>>>..........<<<<
<<..<<<<<<<<<<...>>>>>>>>>>...<<..))>>.....>>>>>>.
>>>.<<<......<<<<....>>>>....>>>..)))).]<<<<<.<<<<
<<<.<<.<<<<<<..<<<<<<<<<<......<<........>>.......
...<<<<<<<......<<<<<<<<..<<<<<<<....>>>>>>>...<<<
......>>>..>>>>>>>>.<<<.<<<..<<<<<<.......<<<<<<<<
<....>>>..<<<<......>>>>..>>>>>>.....<<<<.<<<<<<<.
..<...<<<.....>>>.>....>>>>>>>.....<<<<<....>>>>>.
.......>>>>.........>>>...>>>>>>>>>...>>>>>>>...>>
.>>>>>>>>.....<<<<<<<.....<<<..<<..<<<<....>>>>..>
>....>>>.....>>>>>>>......<....<<<<<<<........>>>>
>>>....>.....>>>>>>....<<<<<<<..........>>>>>>>...
...>>...>>>>>>>>>>.>>....<..<<.<.<<<<.<<<..<<<<<<<
<<<<<<...<.<<<<....<<<....>>>.>>>>.>..>>>>>>>>>>>>
>..>>>.>>>>..>.>>...>.....<<<<<<<<<....>>>>>>>>>..
.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB1vvj Structural insights into +1 frameshifting promoted by expanded or modification-deficient anticodon stem loops.
Resolution3.44 Å
Binding residue
(original residue number in PDB)		G2 N3 K4 I5 F10 K26 S154 R156 E161 Q162 A163 R172 P174 L175 H176 T177 L178 R179 F186 R190 T192 G194 V195 G197 K199
Binding residue
(residue number reindexed from 1)		G1 N2 K3 I4 F9 K25 S153 R155 E160 Q161 A162 R171 P173 L174 H175 T176 L177 R178 F185 R189 T191 G193 V194 G196 K198
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0003729 mRNA binding
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
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:1vvj, PDBe:1vvj, PDBj:1vvj
PDBsum1vvj
PubMed25128388
UniProtP80372|RS3_THET8 Small ribosomal subunit protein uS3 (Gene Name=rpsC)

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