Structure of PDB 5tga Chain D0 Binding Site BS01

Receptor Information

>5tga Chain D0 (length=107) Species: 4932 (Saccharomyces cerevisiae)

QQQQIIKIRITLTSTKVKQLENVSSNIVKNAEQHNLVKKGPVRLPTKVLK
ISTRKTPNGEGSKTWETYEMRIHKRYIDLEAPVQIVKRITQITIEPGVDV
EVVVASN

Ligand information

>5tga Chain 2 (length=1781)

uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcuca
uuaaaucaguuaucguuuauuugauaguuccuuuacuacaugguauaacu
gugguaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaaga
gauguauuuauuagauaaaaaaucaaugucuucggacucuuugaugauuc
auaauaacuuuucgaaucgcauggccuugugcuggcgaugguucauucaa
auuucugcccuaucaacuuucgaugguaggauaguggccuaccaugguuu
caacggguaacggggaauaaggguucgauuccggagagggagccugagaa
acggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaauccu
aauucagggagguagugacaauaaauaacgauacagggcccauucggguc
uuguaauuggaaugaguacaauguaaauaccuuaacgaggaacaauugga
gggcaagucuggugccagcagccgcgguaauuccagcuccaauagcguau
auuaaaguuguugcaguuaaaaagcucguaguugaacuuugggcccgguu
ggccggucggauuuccaacggggccuuuccuucuggcuaaccuugagucc
uuguggcucuuggcgaaccaggacuuuuacuuugaaaaaauuagaguguu
caaagcaggcguauugcucgaauauauuagcauggaauaauagaauagga
cguuugguucuauuuuguugguuucuaggaccaucguaaugauuaauagg
gacggucgggggcaucaguauucaauugucagaggugaaauucuuggauu
uauugaagacuaacuacugcgaaagcauuugccaaggacguuuucauuaa
ucaagaacgaaaguuaggggaucgaagaugaucagauaccgucguagucu
uaaccauaaacuaugccgacuagggaucgggugguguuuuuuuaaugacc
cacucggcaccuuacgagaaaucaaagucuuuggguucuggggggaguau
ggucgcaaggcugaaacuuaaaggaauugacggaagggcaccaccaggag
uggagccugcggcuuaauuugacucaacacggggaaacucaccaggucca
gacacaauaaggauugacagauugagagcucuuucuugauuuugugggug
guggugcauggccguucuuaguugguggagugauuugucugcuuaauugc
gauaacgaacgagaccuuaaccuacuaaauaguggugcuagcauuugcug
guuauccacuucuuagagggacuaucgguuucaagccgauggaaguuuga
ggcaauaacaggucugugaugcccuuagacguucugggccgcacgcgcgc
uacacugacggagccagcgagucuaaccuuggccgagaggucuugguaau
cuugugaaacuccgucgugcuggggauagagcauuguaauuauugcucuu
caacgaggaauuccuaguaagcgcaagucaucagcuugcguugauuacgu
cccugcccuuuguacacaccgcccgucgcuaguaccgauugaauggcuua
gugaggccucaggaucugggagaauuuggacaaacuuggucauuuagagg
aacuaaaagucguaacaagguuuccguaggugaaccugcggaaggaucau
cuuagagaagggggcaacuccaucucagagc

...<<<<<...[[[[>>>>>[[[[.((((((................[[[
.[[[..<<....<<....<<..........>>...>>.>>......{{..
......[[[..{{..{{....[[[..................<.....<<
.<<<.....>>>.>>......>.........<<<<<..<......>..>>
>>>[...((((((......<<<<<<<<<<......>>.............
.)))))).....]...<<<<..<<<.....>>>.>>>>....]]]...}}
}}..]]].<<<....<<<....<<<<<<<<.......>>>>>>>>>>>..
....>>>...<<<.<<<<....>>>>....>>>.}}.<<.<<<.......
...>>>.>>.<.<<....>>.>...]]]]]].........<<<....<<<
.....>>>..>>>...............<<<<<.<<.<..........>.
>>.>>.>>>......<<..<...........>..>>.........<<<<<
((......<<<<.....<<..))>>.......>>>>.>>>>>..))))))
]]]].........[[[{{.......{{...[[[.[[....<<<<<<.<<<
<<....<..>....>>>>>.>>>>>>....<<<<<<...........<..
.....>...........>>>>>>...<<<<<.<<.......<<...<...
....>..<<<.....>>>....>>......>>.>>..>>>.........[
[...((((((((....>>>>>>>>.))))))))..]].....]]....<<
<<<<.<<...<<<<..<<..<<<<<<.<...<<<......>>>......>
.>>>>>>..>>.......<<....>>...>>>>...>>>>>.>>>...]]
]...}}......<<<<<<<...<...<<<<.<.....>.>>>>...>>>>
>>>>..........<<<.<<.<<<..<<<<<<<<.<<<........>>>>
>>>>>>>..>>>...<<..}}>>...>>.....>>>.]]].<<<......
<<<......>>>....>>>..]]]]..<<<<<.<<<<<<<..<<.<<<<<
<..<<<.<<<<<.......<<........>>..........<<<<<.<..
..<<<<<........<<.<<<........>>>.>>......>>>>>.<.<
<.<<<..<<.<<<<<<....<<<.<<<<......>>...<<<......>>
>...>>.>>>....<<<<<.<<..<<<<..<<<<<.<<<<<<....>>>>
>>...>>>>>..>>>>.>>....<<<<<<.....>>>>>>.......>>>
>>....>>>.>>>.....>>>>>>>>....>.>>>>>....>.>>>>.>>
>.....<<<<<<<......<<.....<<..<<<<....>>>>..>>....
>>.......>>>>>>>...........<<<<<<..........>>>>>>.
.........>>>>>>....<<<<<<<<.......>>>>>>>>......>>
...>>>>>>>>>>.>>....<..<<.<..<<<<.<<....<<<<<<<<.<
<<..<.<<......<<...>>......>>.>..>>>.>>>>>>>>...>>
.>>>>...>.>>...>.....<<<<<<<<<<..>>>>>>>>>>.......
<<<.<<...<.........>....>>.>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5tga Molecular insights into protein synthesis with proline residues.
• Resolution: 3.3 Å
• Binding residue (original residue number in PDB): R23 V31 E35 G54 R57 L58 P59 T60 S66 T67 R68 K69 P71 N72 G73 E74 G75 S76 K77 T78 W79 H87 K88 R89 Y90
• Binding residue (residue number reindexed from 1): R9 V17 E21 G40 R43 L44 P45 T46 S52 T53 R54 K55 P57 N58 G59 E60 G61 S62 K63 T64 W65 H73 K74 R75 Y76

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• 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:0015935 small ribosomal subunit
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5tga, PDBe:5tga, PDBj:5tga
• PDBsum: 5tga
• PubMed: 27827794
• UniProt: P38701|RS20_YEAST Small ribosomal subunit protein uS10 (Gene Name=RPS20)