Structure of PDB 8civ Chain o Binding Site BS01

Receptor Information

>8civ Chain o (length=142) Species: 4932 (Saccharomyces cerevisiae)

ELTVQSERAFQKQPHIFNNPKVKTSKRTKRWYKNAGLGFKTPKTAIEGSY
IDKKCPFTGLVSIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKR
HKNVPVHVSPAFRVQVGDIVTVGQCRPISKTVRFNVVKVSAA

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): E10 R11 A12 P17 H18 F20 W34 K36 N37 G39 L40 K56 K57 L63 S65 I66 R67 K69 S77 K79 M80 H81 T83 R87 Y90 H92 K96 Y97 R99 K102 R103 H104 K105 N106 Q127 R129 P130 I131 S132 K133 T134 R136 F137
• Binding residue (residue number reindexed from 1): E7 R8 A9 P14 H15 F17 W31 K33 N34 G36 L37 K53 K54 L60 S62 I63 R64 K66 S74 K76 M77 H78 T80 R84 Y87 H89 K93 Y94 R96 K99 R100 H101 K102 N103 Q124 R126 P127 I128 S129 K130 T131 R133 F134

Gene Ontology

Molecular Function

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

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• 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: P0CX47|RS11A_YEAST Small ribosomal subunit protein uS17A (Gene Name=RPS11A)