Structure of PDB 8cgn Chain j Binding Site BS01

Receptor Information

>8cgn Chain j (length=223) Species: 4932 (Saccharomyces cerevisiae)

MKLNISYPVNGSQKTFEIDDEHRIRVFFDKRIGQEVDGEAVGDEFKGYVF
KISGGNDKQGFPMKQGVLLPTRIKLLLTKNVSCYRPRRDGERKRKSVRGA
IVGPDLAVLALVIVKKGEQELEGLTDTTVPKRLGPKRANNIRKFFGLSKE
DDVRDFVIRREVTKGEKTYTKAPKIQRLVTPQRLQRKRHQRALKVRNAQA
QREAAAEYAQLLAKRLSERKAEK

Ligand information

>8cgn Chain c (length=1624)

uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauacagugaaacugcgaauggcucauuaa
aucaguuaucguuuauuugauaguucccuacaugguauaacugugguaau
ucuagagcuaauacaugcuuaaaaucucagauguauuuauuagauaauga
ugauucauaauaacuuuucgaaucgcauggccuugugcuggcgaugguuc
auucaaauuucugcccuaucaacuuucgaugguaggauaguggccuacca
ugguuucaacggguaacggggaauaaggguucgauuccggagagggagcc
ugagaaacggcuaccacauccaaggaaggcagcaggcgcgcaaauuaccc
aauccuaauucagggagguagugacaauaaauaacgauacauguaauugg
aaugaguacaauguaaauaccuuaacgaggaacaauuggagggcaagucu
ggugccagcagccgcgguaauuccagcuccaauagcguauauuaaaguug
uugcaguuaaaaagcucguaguugaacuuugggcccgguugcaacggggc
cuuucuuuuacuuugaaaaaauuagaguguucaaagcaggcguauugcuc
gaauauauuagcauggaauaauagaauaggacguuugguucuauaggacc
aucguaaugauuaauagggacggucgggggcaucaguauucaauugucag
aggugaaauucuuggauuuauugaagacuaacuacugcgaaagcauuugc
caaggacguuuucauuaaucaagaacgaaaguuaggggaucgaagaugau
cagauaccgucguagucuuaaccauaaacuaugccgacuagggaucgggu
gguguuuuuuuaaugacccacucggcaccuuacgagaaaucaaagucuuu
ggguucuggggggaguauggucgcaaggcugaaacuuaaaggaauugacg
gaagggcaccaccaggaguggagccugcggcuuaauuugacucaacacgg
ggaaacucaccagguccagacacaauaaggauugacagauugagagcucu
uucuugauuuugugggugguggugcauggccguucuuaguugguggagug
auuugucugcuuaauugcgauaacgaacgagaccuuaaccuacuaaauag
uggugcuagcauuugcugguuauccacuucuuagagggacuaucgguuuc
aagccgauggaaguuugaggcaauaacaggucugugaugcccuuagacgu
ucugggccgcacgcgcgcuacacugacggagccagcgagucuaaccuugg
ccgagaggucuugguaaucuugugaaacuccgucgugcuggggauagagc
auuguaauuauugcucuucaacgaggaauuccuaguaagcgcaagucauc
agcuugcguugauuacgucccugcccuuuguacacaccgcccgucgcuag
uaccgauugaauggcuuagugaggccucaggaucugcuagcggagaauuu
ggacaaacuuggucauuuagaggaacuaaaagucguaacaagguuuccgu
aggugaaccugcggaaggaucauu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8cgn mRNA reading frame maintenance during eukaryotic ribosome translocation
• Resolution: 2.28 Å
• Binding residue (original residue number in PDB): K2 N4 S6 P8 Q13 T15 R31 S53 N56 Q59 G60 F61 P62 Q65 G66 V67 L68 R72 K74 L75 L76 S82 C83 Y84 R85 R87 R88 G90 R92 K93 R94 K95 S96 V108 K131 R132 L133 G134 P135 K136 R137 N139 N140 K143 R154 I158 R159 R160 K164 K167 Y169 K171 A172 P173 K174 I175 Q176 R177 L178 V179 Q182 R183 L184 Q185 R186 K187 R188 H189 Q190 R191 K194 V195 R196 A198 Q199 Q201 R202
• Binding residue (residue number reindexed from 1): K2 N4 S6 P8 Q13 T15 R31 S53 N56 Q59 G60 F61 P62 Q65 G66 V67 L68 R72 K74 L75 L76 S82 C83 Y84 R85 R87 R88 G90 R92 K93 R94 K95 S96 V108 K131 R132 L133 G134 P135 K136 R137 N139 N140 K143 R154 I158 R159 R160 K164 K167 Y169 K171 A172 P173 K174 I175 Q176 R177 L178 V179 Q182 R183 L184 Q185 R186 K187 R188 H189 Q190 R191 K194 V195 R196 A198 Q199 Q201 R202

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:0006364 rRNA processing
• GO:0006412 translation
• GO:0042254 ribosome biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0030686 90S preribosome
• GO:0032040 small-subunit processome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8cgn, PDBe:8cgn, PDBj:8cgn
• PDBsum: 8cgn
• PubMed: 38030725
• UniProt: P0CX37|RS6A_YEAST Small ribosomal subunit protein eS6A (Gene Name=RPS6A)