Structure of PDB 6gsk Chain 42 Binding Site BS01

Receptor Information
>6gsk Chain 42 (length=150) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TDFEEKMILIRRTARMQAGGRRFRFGALVVVGDRQGRVGLGFGKAPEVPL
AVQKAGYYARRNMVEVPLQNGTIPHEIEVEFGASKIVLKPAAPGTGVIAG
AVPRAILELAGVTDILTKELGSRNPINIAYATMEALRQLRTKADVERLRK
Ligand information
>6gsk Chain 1G (length=1490) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uuguuggagaguuugauccuggcucagggugaacgcuggcggcgugccua
agacaugcaagucgugcgggccgcgggguacuccguggucagcggcggac
gggugaguaacgcgugggugaccuacccggaagagggggacaacccgggg
aaacucgggcuaaucccccauguggacccgccccuugggguguguccaaa
gggcuuugcccgcuuccggaugggcccgcgucccaucagcuaguuggugg
gguaauggcccaccaaggcgacgacggguagccggucugagaggauggcc
ggccacaggggcacugagacacgggccccacuccuacgggaggcagcagu
uaggaaucuuccgcaaugggcgcaagccugacggagcgacgccgcuugga
ggaagaagcccuucgggguguaaacuccugaacccgggacgaaacccccg
acgaggggacugacgguaccgggguaauagcgccggccaacuccgugcca
gcagccgcgguaauacggagggcgcgagcguuacccggauucacugggcg
uaaagggcguguaggcggccuggggcgucccaugugaaagaccacggcuc
aaccgugggggagcgugggauacgcucaggcuagacggugggagagggug
guggaauucccggaguagcggugaaaugcgcagauaccgggaggaacgcc
gauggcgaaggcagccaccugguccacccgugacgcugaggcgcgaaagc
guggggagcaaaccggauuagauacccggguaguccacgcccuaaacgau
gcgcgcuaggucucugggucuccugggggccgaagcuaacgcguuaagcg
cgccgccuggggaguacggccgcaaggcugaaacucaaaggaauugacgg
gggcccgcacaagcgguggagcaugugguuuaauucgaagcaacgcgaag
aaccuuaccaggccuugacaugcuagggaacccgggugaaagccuggggu
gcccuagcacaggugcugcauggccgucgucagcucgugccgugaggugu
uggguuaagucccgcaacgagcgcaacccccgccguuaguugccagcggu
ucggccgggcacucuaacgggacugcccgcgaaagcgggaggaaggaggg
gacgacgucuggucagcauggcccuuacggccugggcgacacacgugcua
caaugcccacuacaaagcgaugccacccggcaacggggagcuaaucgcaa
aaaggugggcccaguucggauuggggucugcaacccgaccccaugaagcc
ggaaucgcuaguaaucgcggaucagccaugccgcggugaauacguucccg
ggccuuguacacaccgcccgucacgccaugggagcgggcucuacccgaag
ucgccgggagccuacgggcaggcgccgaggguagggcccgugacuggggc
gaagucguaacaagguagcuguaccggaaggugcggcugg
........<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<..<.
.<<<.<<<..<<<..<<.<<<<<<<<<<..>>>>>>>>>>.>>>>>....
..<<.......<<<<<<<<..<<...<<<<<<<.<<<<<....<<<<<..
....>>>>>.....>>>>>...<<<<<.<<<<<....>>>>>.>>>>>..
<<<<...>>>>.>>>>>>>..>>>>>>>>>><<<....<<<..<<<<<<<
<.......>>>>>>>>>>>......>>>..<<<<<<<<....>>>>...>
>>>.>>.<<<<<.<.........>>>>>>.<<<<....>>>>...>>>>>
>>........<<<....<<<<....>>>>..>>>..>>.>>>>>>..<<<
<......<<<<....>>>>.....>>>>....<<<<<......<.<<<<.
....>>>>..>.......>>>>>......<<<<<(((...<<<<<.....
<<.)))>>.......>>>>>>>>>>..>>>>>>>>>..........<<<(
(.....<<<<...<<<.<<<<<<<.<<<<<<<<<<......<<<<<<...
..>>>>>>....>>>>>>>>..>>>>>>>>>...<<<<<<<<...<<<<<
<<....<<<<<<<.<..<<<......>>>.....>.>>>>>>>.......
....<<....>>.>>>>>>>..>>>>>.>>>...>>>...>>>>....<<
<<<<...<<...<<<<.<.....>.>>>>...>>>>>>>>..........
<<<<<<..<<<<<<<<<<...>>>>>>>>>>...<<..))>>.....>>>
>>>.>>>.<<<......<<<<....>>>>....>>>..)))).]<<<<<.
<<<<<<<.<<.<<<<<<..<<<<<<<<<<.......<........>....
.......<<<<<<<......<<<<<<<....<.<<<<....>>>>.>...
..>>>>>>>.<<<.<<<..<<<<<<.......<<<<<<<<<....>>>..
<<<<......>>>>..>>>>>>.....<<<<.<<<<<<...<<...<<<.
....>>>.>>....>>>>>>.....<<<<<....>>>>>........>>>
>.........>>>...>>>>>>>>>...>>>>>>>...>>.>>>>>>>>.
....<<<<<<<.....<<<..<<..<<<<....>>>>..>>....>>>..
...>>>>>>>...........<<<<<<<........>>>>>>>.......
...>>>>>>....<<<<<<<..........>>>>>>>......>>...>>
>>>>>>>>.>>.......<<.<.<<<<.<<<..<<<<<<<<<<<<<...<
.<<<<....<<<....>>>.>>>>.>..>>>>>>>>>>>>>..>>>.>>>
>..>.>>.........<<<<<<<<<....>>>>>>>>>..
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]
PDB6gsk Tautomeric G•U pairs within the molecular ribosomal grip and fidelity of decoding in bacteria.
Resolution3.36 Å
Binding residue
(original residue number in PDB)		R14 T16 A17 R18 M19 Q20 A21 G22 R24 R25 K47 P49 K57 G85 A86 I101 A102 L119 T120 K121 E122 S125 R126 N127 N130
Binding residue
(residue number reindexed from 1)		R11 T13 A14 R15 M16 Q17 A18 G19 R21 R22 K44 P46 K54 G82 A83 I98 A99 L116 T117 K118 E119 S122 R123 N124 N127
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005737 cytoplasm
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:6gsk, PDBe:6gsk, PDBj:6gsk
PDBsum6gsk
PubMed29931292
UniProtQ5SHQ5|RS5_THET8 Small ribosomal subunit protein uS5 (Gene Name=rpsE)

[Back to BioLiP]