Structure of PDB 8cg8 Chain r Binding Site BS01

Receptor Information

>8cg8 Chain r (length=91) Species: 4932 (Saccharomyces cerevisiae)

SYRGVDFVKLAPARVRRRFMKKLRAAKLAAPENEKPAPVRTHMRNMIIVP
EMIGSVVGIYNGKAFNQVEIRPEMLGHYLGEFSITYTPVRH

Ligand information

>8cg8 Chain c (length=1608)

uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauacagugaaacugcgaauggcucauuaa
aucaguuaucguuuauuugauaguucccuacaugguauaacugugguaau
ucuagagcuaauacaugcuuaaaaucucagauguauuuauuagauugaug
auucauaauaacuuuucgaaucgcauggccuugugcuggcgaugguucau
ucaaauuucugcccuaucaacuuucgaugguaggauaguggccuaccaug
guuucaacggguaacggggaauaaggguucgauuccggagagggagccug
agaaacggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaa
uccuaauucagggagguagugacaauaaauaacgauacauguaauuggaa
ugaguacaauguaaauaccuuaacgaggaacaauuggagggcaagucugg
ugccagcagccgcgguaauuccagcuccaauagcguauauuaaaguuguu
gcaguuaaaaagcucguaguugaacuuugggcccgguugcaacggggccu
uucuuuuacuuugaaaaaauuagaguguucaaagcaggcguauugcucga
auauauuagcauggaauaauagaauaggacguuuaucguaaugauuaaua
gggacggucgggggcaucaguauucaauugucagaggugaaauucuugga
uuuauugaagacuaacuacugcgaaagcauuugccaaggacguuuucauu
aaucaagaacgaaaguuaggggaucgaagaugaucagauaccgucguagu
cuuaaccauaaacuaugccgacuagggaucgggugguguuuuuuuaauga
cccacucggcaccuuacgagaaaucaaagucuuuggguucuggggggagu
auggucgcaaggcugaaacuuaaaggaauugacggaagggcaccaccagg
aguggagccugcggcuuaauuugacucaacacggggaaacucaccagguc
cagacacaauaaggauugacagauugagagcucuuucuugauuuuguggg
ugguggugcauggccguucuuaguugguggagugauuugucugcuuaauu
gcgauaacgaacgagaccuuaaccuacuaaauaguggugcuagcauuugc
ugguuauccacuucuuagagggacuaucgguuucaagccgauggaaguuu
gaggcaauaacaggucugugaugcccuuagacguucugggccgcacgcgc
gcuacacugacggagccagcgagucuaaccuuggccgagaggucuuggua
aucuugugaaacuccgucgugcuggggauagagcauuguaauuauugcuc
uucaacgaggaauuccuaguaagcgcaagucaucagcuugcguugauuac
gucccugcccuuuguacacaccgcccgucgcuaguaccgauugaauggcu
uagugaggccucaggaucugcuagcggagaauuuggacaaacuuggucau
uuagaggaacuaaaagucguaacaagguuuccguaggugaaccugcggaa
ggaucauu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8cg8 Cryo-EM analysis of eukaryotic ribosome translocation intermediates
• Resolution: 2.57 Å
• Binding residue (original residue number in PDB): P38 A39 R40 R42 R43 R44 R77 T78 H79 R81 N82 Y97 N98 G99 K100 Y115 E118 T122 Y123 T124 V126 H128
• Binding residue (residue number reindexed from 1): P12 A13 R14 R16 R17 R18 R40 T41 H42 R44 N45 Y60 N61 G62 K63 Y78 E81 T85 Y86 T87 V89 H91

Gene Ontology

Molecular Function

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

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0000054 ribosomal subunit export from nucleus
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0042254 ribosome biogenesis

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8cg8, PDBe:8cg8, PDBj:8cg8
• PDBsum: 8cg8
• PubMed: 38030725
• UniProt: Q01855|RS15_YEAST Small ribosomal subunit protein uS19 (Gene Name=RPS15)