Structure of PDB 7syu Chain K Binding Site BS01

Receptor Information

>7syu Chain K (length=185) Species: 9986 (Oryctolagus cuniculus)

PVARSWVCRKTYVTPRRPFEKSRLDQELKLIGEYGLRNKREVWRVKFTLA
KIRKAARELLTLDEKDPRRLFEGNALLRRLVRIGVLDEGKMKLDYILGLK
IEDFLERRLQTQVFKLGLAKSIHHARVLIRQRHIRVRKQVVNIPSFIVRL
DSQKHIDFSLRSPYGGGRPGRVKRKNAKKGQGGAG

Ligand information

>7syu Chain 2 (length=1697)

uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucgacuuggauaacugugguaau
ucuagagcuaauacaugccgacgggcgcugacccccuucgcgggggggau
gcgugcauuuaucaguggugacucuagauaaccucgggccgaucgcacgc
ccggcggcgacgacccauucgaacgucugcccuaucaacuuucgauggua
gucgccgugccuaccauggugaccacgggugacggggaaucaggguucga
uuccggagagggagccugagaaacggcuaccacauccaaggaaggcagca
ggcgcgcaaauuacccacucccgacccggggagguagugacgaaaaauaa
caauacaggacucuuucgaggcccuguaauuggaaugaguccacuuuaaa
uccuuuaacgaggauccauuggagggcaagucuggugccagcagccgcgg
uaauuccagcuccaauagcguauauuaaaguugcugcaguuaaaaagcuc
guaguuggaucuugggagcggccguccccugcucggcgccggcccgaagc
guuuacuuugaaaaaauuagaguguucaaagcaggccgccuggauaccgc
agcuaggaauaauggaauaggaccgcgguucuauuuuguugguuuucgga
acugaggccaugauuaagagggacggccgggggcauucguauugcgccgc
uagaggugaaauucuuggaccggcgcaagacggaccagagcgaaagcauu
ugccaagaauguuuucauuaaucaagaacgaaagucggagguucgaagac
gaucagauaccgucguaguuccgaccauaaacgaugccgaccggcgaugc
ggcggcguuauucccaugacccgccgggcagcuuccgggaaaccaaaguc
uuuggguuccggggggaguaugguugcaaagcugaaacuuaaaggaauuu
ggcgaagggcaccaccaggaguggagccugcggcuuaauuugacucaaca
cgggaaaccucacccggcccggacacggacaggauugacagauugauagc
ucuuucucgauuccgugggugguggugcauggccguucuuaguuggugga
gcgauuugucugguuaauuccgauaacgaacgagacucuggcaugcuaac
uaguuacgcgaccccggucggcguaacuucuuagagggacaaguggcguu
cagccacccgagauugagcaauaacaggucugugaugcccuuagaugucc
ggggcugcacgcgcgcuacacugacuggcucagcgugugccuacccuacg
ccggcaggcgcggguaacccguugaaccccauucgugauggggaucgggg
auugcaauuauuccccaugaacgaggaauucccaguaagugcgggucaua
agcuugcguugauuaagucccugcccuuuguacacaccgcccgucgcuac
uaccgauuggaugguuuagugaggcccucggaucggccccgccggggugc
ccuggcggagcgcugagaagacggucgaacuugacuaucuagaggaagua
aaagucguaacaagguuuccguaggugaaccugcggaaggaucauua

...<<<<<...((((>>>>><<<.<<<<<<...<.<<.........<<<.
<<<..<<....<<....<<..........>>...>>.>>......<<...
.....<<<.<....<<....<<<<<........<<.....<<..<.....
..>..>>......>>.........<<<<...<<<<<......>>>>>...
>>>><<..<<<<<...<......>..>>>>>......>>...<<<<.<<<
...>>>>>>>.>>.>>>...>>..>.>>>.<<<....<<<....<<<<<<
<.........>>>>>>>>>>......>>>...<<<.<<<<....>>>>..
..>>>.>>.<<.<<<..........>>>.>>...<<<..>>>.....>>>
>>>.........<<<...<<<<.....>>>.>>>>......>>.>.....
<<<.<<<<<.............>>>>>..>>>......<<..<.......
....>..>>.........<<<<<((......<<<<.....<<..))>>..
.....>>>>.>>>>>..>>>>>>.>>>.........<.<((.....<.<<
...<<<.<<....<<<.<<<..>>>.>>><<<<<<<.<<..>>>>>>.>>
>.<<<.<<.<.......<<...<.......>.<<<<.>>>>...>>....
..>.>>...>>>........<.<<.<<<<<<.................>>
>>>>.>>.>....>>....<<<<<<..<...<<<<..<<..<<<<<<<<.
..<<<......>>>......>>>>>>>>..>>.......<<....>>...
>>>>..>..>>>.>>>...>>>...>>.>....<<<<<<....<...<<<
<.<.....>.>>>>...>.>>>>>>..........<<<.<<.<<<..<.<
<<<<<.<<<........>>>>>>>>>.>..>>>...<<..))>>...>>.
....>>>.>.>.<<<......<<<<....>>>>....>>>..))))....
<...<<<<<<<..<<..<<<<<..<<<.<<<<<<......<<........
>>..........<<<<<......<<<<<<.......<<.<<<........
>>>.>>.....>>>>>>...<<.<<<..<<.<<<<<.....<<<.<<<<<
....>>>...<<<......>>>...>>.>>>....<<<...<...<<<<.
.<<<<<<<<<<<<..>>>>.>>>>>>>>..>>>>..>.....<<<<<...
..>>>>>........>>>.....>>.>>>.....>>>>>>>.......>>
>>>...>>.>>>>.>>>.....<<.<<<........<.......<<<.<<
<<....>>>>.>>>....>.........>>>.>>......<.....<<<<
<..........>>>>>.....>.....>>>>>.....<<<<<<<<.....
..>>>>>>>>......>>...>>>>>>>..>.......<..<<.<..<<<
<.<<....<<<<<<<<.<<<..<<<<.<<...<<<<<..<<.<<.<<..>
>.>>.>>....>>>>>...>>.>>>>..>>>.>>>>>>>>...>>.>>>>
...>.>>...>.....<<<<<<<<<....>>>>>>>>>.........

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7syu Molecular architecture of 40S translation initiation complexes on the hepatitis C virus IRES.
• Resolution: 4.6 Å
• Binding residue (original residue number in PDB): P2 V3 R5 W7 V8 C9 R10 K11 T12 T15 R17 P19 F20 L25 R38 N39 K40 R41 R45 F72 A76 R80 K121 H125 R127 R131 Q132 H134 R138 Q140 I144 P145 S146 F147 R150 R162 R169 G171 R172 V173 K174 N177
• Binding residue (residue number reindexed from 1): P1 V2 R4 W6 V7 C8 R9 K10 T11 T14 R16 P18 F19 L24 R37 N38 K39 R40 R44 F71 A75 R79 K120 H124 R126 R130 Q131 H133 R137 Q139 I143 P144 S145 F146 R149 R161 R168 G170 R171 V172 K173 N176

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation
• GO:0042274 ribosomal small subunit biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0043226 organelle
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7syu, PDBe:7syu, PDBj:7syu
• PDBsum: 7syu
• PubMed: 35822879
• UniProt: B7NZS8|RS9_RABIT Small ribosomal subunit protein uS4 (Gene Name=RPS9)