Structure of PDB 8civ Chain e Binding Site BS01

Receptor Information

>8civ Chain e (length=212) Species: 4932 (Saccharomyces cerevisiae)

VVDPFTRKEWFDIKAPSTFENRNVGKTLVNKSTGLKSASDALKGRVVEVC
LADLQGSEDHSFRKIKLRVDEVQGKNLLTNFHGMDFTTDKLRSMVRKWQT
LIEANVTVKTSDDYVLRIFAIAFTRKQANQVKRHSYAQSSHIRAIRKVIS
EILTKEVQGSTLAQLTSKLIPEVINKEIENATKDIFPLQNIHVRKVKLLK
QPKFDVGALMAL

Ligand information

>8civ Chain c (length=1622)

uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauacagugaaacugcgaauggcucauuaa
aucaguuaucguuuauuugauaguucccuacaugguauaacugugguaau
ucuagagcuaauacaugcuuaaaaucucagauguauuuauuagauaauga
ugauucauaauaacuuuucgaaucgcauggccuugugcuggcgaugguuc
auucaaauuucugcccuaucaacuuucgaugguaggauaguggccuacca
ugguuucaacggguaacggggaauaaggguucgauuccggagagggagcc
ugagaaacggcuaccacauccaaggaaggcagcaggcgcgcaaauuaccc
aauccuaauucagggagguagugacaauaaauaacgauacauguaauugg
aaugaguacaauguaaauaccuuaacgaggaacaauuggagggcaagucu
ggugccagcagccgcgguaauuccagcuccaauagcguauauuaaaguug
uugcaguuaaaaagcucguaguugaacuuugggcccgguugcaacggggc
cuuucuuuuacuuugaaaaaauuagaguguucaaagcaggcguauugcuc
gaauauauuagcauggaauaauagaauaggacguuugguucuaggaccau
cguaaugauuaauagggacggucgggggcaucaguauucaauugucagag
gugaaauucuuggauuuauugaagacuaacuacugcgaaagcauuugcca
aggacguuuucauuaaucaagaacgaaaguuaggggaucgaagaugauca
gauaccgucguagucuuaaccauaaacuaugccgacuagggaucgggugg
uguuuuuuuaaugacccacucggcaccuuacgagaaaucaaagucuuugg
guucuggggggaguauggucgcaaggcugaaacuuaaaggaauugacgga
agggcaccaccaggaguggagccugcggcuuaauuugacucaacacgggg
aaacucaccagguccagacacaauaaggauugacagauugagagcucuuu
cuugauuuugugggugguggugcauggccguucuuaguugguggagugau
uugucugcuuaauugcgauaacgaacgagaccuuaaccuacuaaauagug
gugcuagcauuugcugguuauccacuucuuagagggacuaucgguuucaa
gccgauggaaguuugaggcaauaacaggucugugaugcccuuagacguuc
ugggccgcacgcgcgcuacacugacggagccagcgagucuaaccuuggcc
gagaggucuugguaaucuugugaaacuccgucgugcuggggauagagcau
uguaauuauugcucuucaacgaggaauuccuaguaagcgcaagucaucag
cuugcguugauuacgucccugcccuuuguacacaccgcccgucgcuagua
ccgauugaauggcuuagugaggccucaggaucugcuagcggagaauuugg
acaaacuuggucauuuagaggaacuaaaagucguaacaagguuuccguag
gugaaccugcggaaggaucauu

...<<<<<.[.((((>>>>><<<<.<<<<<<...<.<...<......<<<
.<<<..<<....<<....<<......>>...>>.>>......<<......
..<<<..<<..<<....<<<............<<......<<.<<.....
..>>.>>......>>........<<<<.>>>><...<<<<<<........
.......>>>>>>.....>...<<<<..<<<.....>>>.>>>>....>>
>...>>>>..>>>.<<<....<<<....<<<<<<<<.......>>>>>>>
>>>>......>>>...<<<.<<<<....>>>>....>>>.>>.<<.<<<.
.........>>>.>>.<.<<....>>.>...>>>>>>.........<<<.
...<<<.....>>>..>>>..>....>.>.....<<<<<<..>>>.>>>.
.....<<..<...........>..>>.........<<<<<((....<.<<
<<.....<<..))>>.......>>>>>>>>>>..>>>>>>>>>>......
...<<<((.....<.<<...<<<.<<....<<<<<<.<<<..>>>.>>>>
>>.....<<<<<.<<.......<<...<.......>..<<<.....>>>.
...>>......>>.>>..>>>.........<<<..<<<<<<<>>>>>>>.
>>>.....>>....<<<<<<.<<...<<<<..<<..<<<<<<.<...<<<
......>>>......>.>>>>>>..>>......<<<....>>>..>>>>.
..>>>>>.>>>...>>>...>>.>....<<<<<<<...<...<<<<.<..
...>.>>>>...>>>>>>>>..........<<<.<<.<<<..<<<<<<<<
.<<<........>>>>>>>>>>>..>>>...<<..))>>...>>.....>
>>.>>>.<<<......<<<......>>>....>>>..)))).]<<<<<.<
<<<<<<..<<.<<<<<<..<<<.<<<<<<......<<........>>...
.......<<<<<......<<<<<........<<.<<<........>>>.>
>......>>>>>...<<.<<<..<<.<<<<<<....<<<.<<<<<....>
>>...<<<......>>>...>>.>>>....<<<<<.<<..<<<<..<<<<
<.....<<....>>.......>>>>>..>>>>.>>....<<<<<<.....
>>>>>>.......>>>>>....>>>.>>>.....>>>>>>>.......>>
>>>...>>.>>>>.>>>.....<<<<<<<......<<.....<<..<<<<
....>>>>..>>....>>.......>>>>>>>...........<<<<<<.
.........>>>>>>..........>>>>>>....<<<<<<<<.......
>>>>>>>>......>>...>>>>>>>>>>.>>....<..<<.<..<<<<.
<<....<<<<<<<<.<<<..<.<<..<...<<<<<..>>>>>...>..>>
.>..>>>.>>>>>>>>...>>.>>>>...>.>>...>.....<<<<<<<<
<....>>>>>>>>>........

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8civ mRNA reading frame maintenance during eukaryotic ribosome translocation
• Resolution: 2.47 Å
• Binding residue (original residue number in PDB): P23 R26 K27 V65 H101 V114 R115 K116 W117 Q118 L120 E122 R136 F138 Q146 N148 Q149 V150 K151 R152 H153 Y155 Q157 S159 H160 R165 D203 I204 F205 K214 K216
• Binding residue (residue number reindexed from 1): P4 R7 K8 V46 H82 V95 R96 K97 W98 Q99 L101 E103 R117 F119 Q127 N129 Q130 V131 K132 R133 H134 Y136 Q138 S140 H141 R146 D184 I185 F186 K195 K197

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:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0030686 90S preribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8civ, PDBe:8civ, PDBj:8civ
• PDBsum: 8civ
• PubMed: 38030725
• UniProt: P33442|RS3A1_YEAST Small ribosomal subunit protein eS1A (Gene Name=RPS1A)