Structure of PDB 6sw9 Chain J Binding Site BS01

Receptor Information
>6sw9 Chain J (length=126) Species: 272844 (Pyrococcus abyssi GE5) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AIWQGRSLRKPSGGRIVLARKKRKRELGREPSNTRVAEQDKRKIIRTYGG
NKKVRLTAAAYANVFDKSGKGRKVRIIRVIENPANRQFARRNIITKGAII
ETEIGKAKVTSRPGQDGVVNAILLEE
Ligand information
>6sw9 Chain 2 (length=1497) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
auuccgguugauccugccggaggccacugcuauggggguccgacuaagcc
augcgagucaagggggcgucccuucugggacgccaccggcggacggcuca
guaacacgucgguaaccuacccucgggagggggauaaccccgggaaacug
gggcuaaucccccauaggccugggguacuggaagguccccaggccgaaag
ggagccguaaggcuccgcccgaggaugggccggcggccgauuagguaguu
ggugggguaacggcccaccaagccgaagaucgguacgggccgugagagcg
ggagcccggagauggacacugagacacggguccaggcccuacggggcgca
gcaggcgcgaaaccuccgcaaugcgggaaaccgcgacggggggaccccca
gugccgugccucuggcacggcuuuuccggaguguaaaaagcuccgggaau
aagggcugggcaaggccgguggcagccgccgcgguaauaccggcggcccg
agugguggccacuauuauugggccuaaagcggccguagccgggcccguaa
gucccuggcgaaaucccacggcucaaccguggggcucgcuggggauacug
cgggccuugggaccgggagaggccggggguacccccgggguaggggugaa
auccuauaaucccggggggaccgccaguggcgaaggcgcccggcuggaac
ggguccgacggugagggccgaaggccaggggagcgaaccggauuagauac
ccggguaguccuggcuguaaaggaugcgggcuaggugucgggcgagcuuc
gagcucgcccggugccguagggaagccguuaagcccgccgccuggggagu
acggccgcaaggcugaaacuuaaaggaauuggcgggggagcacuacaagg
gguggagcgugcgguuuaauuggauucaacgccgggaaccucaccggggg
cgacggcaggaugaaggccaggcugaaggucuugccggacgcgccgagag
gaggugcauggccgccgucagcucguaccgugaggcguccacuuaagugu
gguaacgagcgagacccgcgcccccaguugccagucccucccgcucggga
gggaggcacucuggggggacugccggcgauaagccggaggaaggggcggg
cgacgguaggucaguaugccccgaaacccccgggcuacacgcgcgcuaca
augggcgggacaaugggugccgaccccgaaagggggagguaauccccuaa
acccgcccucaguucggaucgcgggcugcaacucgcccgcgugaagcugg
aaucccuaguacccgcgcgucaucaucgcgcggcgaauacgucccugcuc
cuugcacacaccgcccgucacuccacccgagcggggccuaggugaggccc
gaucuccuucgggaggucgggucgagccuaggcuccgugaggggggagaa
gucguaacaagguagccguaggggaaccuacggcucgaucaccuccu
...<<<<<.[.((((>>>>>.<<<<<<<<<..<<<<<<.<<......<<<
.<<<..<<<..<<.<<<<<<<<....>>>>>>>>.>>>>>......<<..
......<<<<<<<..<<...<<<<<<<.<<<<<....<<<<<<....>>>
>>>.....>>>>>...<<<<<<<<<.<<......>>>>>>>>>>>.....
<<<<<<....>>>>>>.>>>>>>>..>>>>>>>>>.<<<....<<<...<
<<<<<.........>>>>>>.>>>......>>>..<<<<<<<<....>>>
>...>>>>.>>.<<<<<............>>>>>.<<<<<..>>>>>...
>>>>>>.........<<<....<<<<....>>>>..>>>..>>.>>>>>>
..<<<<<<<<...>>>>>>>>...<<<<<<<<.......>>>>>>>>...
..<<<<<((......<<<<.....<<..))>>.......>>>>.>>>>>.
.>>>>>>>>>..........<<<((.....<<<<...<<<.<<<<<<<.<
<<<<<<<<<....<<<<<<<<.....>>>>>>>>...>>>>>>>>..>>>
>>>>>>...<<<<<.<....<<<<<<<.<..<<<<<<<<<..<<<.....
.>>>.....>>>>>>>>>..>........<<....>>.>>>>>>>....>
>>.>>>...>>>...>>>>...<<<<<<<...<<...<<<<.<.....>.
>>>>...>>>>>>>>>.........<<<<<<..<<<<<<<<<<<<<<...
..>>>>>>>>>>>>>>...<<..))>>.....>>>>>>.>>>.<<<....
..<<<<....>>>>....>>>..)))).]<<<<<.<<<<<<<..<<.<<<
<<<..<<<<<<<<<<......<<........>>..........<<<<<<<
...<<<<........<<<.<<<.......>>>.>>>......>>>>...<
<.<<<..<<<<<<<<.....<<<<<<.<<....>>...<<<<......>>
>>..>>>>>>....<<<<<.<<<<<<<..<<<..<<<<<<<<....>>>>
>>>>>>>...>>>>>>>.....<<<<<.....>>>>>........>>>>>
.....>>.>>>...>>>>>>>>....>>>>>>>...>>.>>>>>>>>...
..<<<<<<<.....<<<..<...<<<<....>>>>...>....>>>....
.>>>>>>>......<....<<<<<<<........>>>>>>>....>....
.>>>>>>.....<<<<<<<.......>>>>>>>.......>>...>>>>>
>>>>>.>>.......<<.<.<<<<.<<...<...<<<<<<<<<..<<<<<
<<<<<<<....>>>>>>>>>>>>..>>>>>>>>>...>...>.>>>>>..
>.>>..........<<<<<<<<....>>>>>>>>.............
Receptor-Ligand Complex Structure
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PDB6sw9 Cryo-EM study of an archaeal 30S initiation complex gives insights into evolution of translation initiation.
Resolution4.2 Å
Binding residue
(original residue number in PDB)		R7 S8 R10 K11 S13 A20 K22 R24 K25 R30 E31 R43 T48 Y49 G50 K54 R56 N64 A85 N86 R87 T96 K97 T111 S112 R113 D117 N121
Binding residue
(residue number reindexed from 1)		R6 S7 R9 K10 S12 A19 K21 R23 K24 R29 E30 R42 T47 Y48 G49 K53 R55 N63 A84 N85 R86 T95 K96 T110 S111 R112 D116 N120
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:0022627 cytosolic 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:6sw9, PDBe:6sw9, PDBj:6sw9
PDBsum6sw9
PubMed32029867
UniProtQ9UZL4|RS8E_PYRAB Small ribosomal subunit protein eS8 (Gene Name=rps8e)

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