Structure of PDB 1vvj Chain XB Binding Site BS01

Receptor Information
>1vvj Chain XB (length=237) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
EITVKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELER
TFRFIEDLAMRGGTILFVGTKKQAQDIVRMEAERAGMPYVNQRWLGGMLT
NFKTISQRVHRLEELEALFASPEIEERPKKEQVRLKHELERLQKYLSGFR
LLKRLPDAIFVVDPTKEAIAVREARKLFIPVIALADTDSDPDLVDYIIPG
NDDAIRSIQLILSRAVDLIIQARGGVVEPSPSYALVQ
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

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
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)		W24 P26 R96 G99 G100 T103 N104 R111 K133 E176
Binding residue
(residue number reindexed from 1)		W21 P23 R93 G96 G97 T100 N101 R108 K130 E173
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
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:1vvj, PDBe:1vvj, PDBj:1vvj
PDBsum1vvj
PubMed25128388
UniProtP80371|RS2_THET8 Small ribosomal subunit protein uS2 (Gene Name=rpsB)

[Back to BioLiP]