Structure of PDB 6d90 Chain OO Binding Site BS01

Receptor Information
>6d90 Chain OO (length=149) Species: 9986 (Oryctolagus cuniculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIG
VILRDSHGVAQVRFVTGNKILRILKSKGLAPDLPEDLYHLIKKAVAVRKH
LERNRKDKDAKFRLILIESRIHRLARYYKTKRVLPPNWKYESSTASALV
Ligand information
>6d90 Chain 2 (length=1697) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucgacuuggauaacugugguaau
ucuagagcuaauacaugccgacgggcgcugacccccuucgcgggggggau
gcgugcauuuaucaguggugacucuagauaaccucgggccgaucgcacgc
ccggcggcgacgacccauucgaacgucugcccuaucaacuuucgauggua
gucgccgugccuaccauggugaccacgggugacggggaaucaggguucga
uuccggagagggagccugagaaacggcuaccacauccaaggaaggcagca
ggcgcgcaaauuacccacucccgacccggggagguagugacgaaaaauaa
caauacaggacucuuucgaggcccuguaauuggaaugaguccacuuuaaa
uccuuuaacgaggauccauuggagggcaagucuggugccagcagccgcgg
uaauuccagcuccaauagcguauauuaaaguugcugcaguuaaaaagcuc
guaguuggaucuugggagcggccguccccugcucggcgccggcccgaagc
guuuacuuugaaaaaauuagaguguucaaagcaggccgccuggauaccgc
agcuaggaauaauggaauaggaccgcgguucuauuuuguugguuuucgga
acugaggccaugauuaagagggacggccgggggcauucguauugcgccgc
uagaggugaaauucuuggaccggcgcaagacggaccagagcgaaagcauu
ugccaagaauguuuucauuaaucaagaacgaaagucggagguucgaagac
gaucagauaccgucguaguuccgaccauaaacgaugccgaccggcgaugc
ggcggcguuauucccaugacccgccgggcagcuuccgggaaaccaaaguc
uuuggguuccggggggaguaugguugcaaagcugaaacuuaaaggaauug
acggaagggcaccaccaggaguggagccugcggcuuaauuugacucaaca
cgggaaaccucacccggcccggacacggacaggauugacagauugauagc
ucuuucucgauuccgugggugguggugcauggccguucuuaguuggugga
gcgauuugucugguuaauuccgauaacgaacgagacucuggcaugcuaac
uaguuacgcgaccccggucggcguaacuucuuagagggacaaguggcguu
cagccacccgagauugagcaauaacaggucugugaugcccuuagaugucc
ggggcugcacgcgcgcuacacugacuggcucagcgugugccuacccuacg
ccggcaggcgcggguaacccguugaaccccauucgugauggggaucgggg
auugcaauuauuccccaugaacgaggaauucccaguaagugcgggucaua
agcuugcguugauuaagucccugcccuuuguacacaccgcccgucgcuac
uaccgauuggaugguuuagugaggcccucggaucggccccgccggggugc
ccuggcggagcgcugagaagacggucgaacuugacuaucuagaggaagua
aaagucguaacaagguuuccguaggugaaccugcggaaggaucauua
...<<<<<.[.((((>>>>><<<.<<<<<<...<.<<..<......<<<.
<<<..<<....<<....<<..........>>...>>.>>......<<...
.....<<<.<....<<....<<<<.........<<.....<<.<<.....
..>>.>>......>>.........<<<<...<<<<<<....>>>>>>...
>>>><<..<<<<<...<......>..>>>>>......>>...<<<<.<<<
<.>>>>>>>>..>.>>>...>>..>.>>>.<<<....<<<....<<<<<<
<.........>>>>>>>>>>......>>>...<<<.<<<<....>>>>..
..>>>.>>.<<.<<<..........>>>.>>.<.<<....>>.>...>>>
>>>.........<<<....<<<<...>>>>..>>>..>...>>.>.....
<<<.<<<<..<<<....>>>...>>>>..>>>......<<..<.......
....>..>>.........<<<<<((......<<<<.....<<..))>>..
.....>>>>.>>>>>..>>>>>>.>>>.........<.<((.....<.<<
...<<<.<<.....<<.<<<..>>>.>>....<<<<.<<..>>>>>>...
..<<<<<<.<.......<<...<.......>.<<<<.>>>>...>>....
..>.>>>..>>>..........<<.<<<<<<<...............>>>
>>>>.>>......>>....<<<<<<..<...<<<<..<<..<<<<<<<<.
..<<<......>>>......>>>>>>>.>.>>.......<<....>>...
>>>>..>..>>>.>>>...>>>...>>.>....<<<<<<<...<...<<<
<.<.....>.>>>>...>>>>>>>>..........<<<.<<.<<<..<.<
<<<<<.<<<<......>>>>>>>>>>.>..>>>...<<..))>>...>>.
....>>>.>.>.<<<......<<<<....>>>>....>>>..)))).]<<
<<<.<<<<<<<..<<..<<<<<..<<<.<<<<<.......<<........
>>..........<<<<<......<<<<<<.......<<.<<<........
>>>.>>.....>>>>>>...<<.<<<..<<.<<<<<<....<<<.<<<<.
.....>>...<<<......>>>...>>.>>>....<<<...<...<<<<.
.<<<<<<<<<<<<..>>>>.>>>>>>>>..>>>>..>.....<<<<<...
..>>>>>........>>>....>>>.>>>.....>>>>>>>.......>>
>>>....>.>>>>.>>>.....<<.<<<........<.......<<<.<<
<<....>>>>.>>>....>.........>>>.>>......<.....<<<<
<..........>>>>>.....>.....>>>>>.....<<<<<<<<.....
..>>>>>>>>......>>...>>>>>>>>>>.>>....<..<<.<..<<<
<.<<....<<<<<<<<.<<<..<<<<.<<...<<<<<.<<<<<<<<<..>
>>>>>>>>...>>>>>...>>.>>>>..>>>.>>>>>>>>...>>.>>>>
...>.>>...>.....<<<<<<<<<....>>>>>>>>>.........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6d90 Dual tRNA mimicry in the Cricket Paralysis Virus IRES uncovers an unexpected similarity with the Hepatitis C Virus IRES.
Resolution3.2 Å
Binding residue
(original residue number in PDB)		R3 M4 G8 K9 G10 L11 Q13 S14 A15 R20 P47 S48 G51 V52 R55 Q62 R64 K70 L72 R73 D87 H90 K94 N105 K107 D108 K112 F113 R114 I116 S120 R121 R124 Y128
Binding residue
(residue number reindexed from 1)		R2 M3 G7 K8 G9 L10 Q12 S13 A14 R19 P46 S47 G50 V51 R54 Q61 R63 K69 L71 R72 D86 H89 K93 N104 K106 D107 K111 F112 R113 I115 S119 R120 R123 Y127
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0070181 small ribosomal subunit rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005840 ribosome
GO:0022626 cytosolic 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:6d90, PDBe:6d90, PDBj:6d90
PDBsum6d90
PubMed29856316
UniProtG1SP51|RS13_RABIT Small ribosomal subunit protein uS15 (Gene Name=RPS13)

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