Structure of PDB 6w2t Chain D Binding Site BS01

Receptor Information
>6w2t Chain D (length=221) Species: 9986 (Oryctolagus cuniculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KEWLPVTKLGRLVKDMKIKSLEEIYLFSLPIKESEIIDFFLGAALKDEVL
KIMPVQKQTRAGQRTRFKAFVAIGDYNGHVGLGLKCSKEVATAIRGAIIL
AKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGSVLVRLIPAPRGTGIVSA
PVPKKLLLMAGIDDCYTSARGCTATLGNFAKATFDAISKTYSYLTPDLWK
ETVFTKSPYQEFTNHLMKTHT
Ligand information
>6w2t Chain a (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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PDB6w2t A complex IRES at the 5'-UTR of a viral mRNA assembles a functional 48S complex via an uAUG intermediate.
Resolution3.36 Å
Binding residue
(original residue number in PDB)		K89 V112 Q113 K114 Q115 T116 R117 K125 T185 G189 S190 R194 V205 S206 Y223 T224 A226 R227 C229 T230 T232 N235 Y250
Binding residue
(residue number reindexed from 1)		K32 V55 Q56 K57 Q58 T59 R60 K68 T128 G132 S133 R137 V148 S149 Y166 T167 A169 R170 C172 T173 T175 N178 Y193
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:0015935 small ribosomal subunit

View graph for
Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6w2t, PDBe:6w2t, PDBj:6w2t
PDBsum6w2t
PubMed32286223
UniProtG1SWM1|RS2_RABIT Small ribosomal subunit protein uS5 (Gene Name=RPS2)

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