Structure of PDB 4v8y Chain AP Binding Site BS01

Receptor Information

>4v8y Chain AP (length=124) Species: 4932 (Saccharomyces cerevisiae)

KKRVFKTHSYRGVDLEKLLEMSTEDFVKLAPARVRRRFARGMTSKPAGFM
KKLRAAKLAAPENEKPAPVRTHMRNMIIVPEMIGSVVGIYNGKAFNQVEI
RPEMLGHYLGEFSITYTPVRHGRA

Ligand information

>4v8y Chain B2 (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
gugaggccucaggaucugcuuagagauuuuuuuuuuuuuuucucagagcg
gagaauuuggacaaacuuggucauuuagaggaacuaaaagucguaacaag
guuuccguaggugaaccugcggaaggaucau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v8y Molecular architecture of a eukaryotic translational initiation complex.
• Resolution: 4.3 Å
• Binding residue (original residue number in PDB): R18 P38 A39 R40 R42 R43 R44 R47 K59 R77 H79 R81 N82 Y97 N98 G99 K100 Y115 G117 T122 T124 V126 H128
• Binding residue (residue number reindexed from 1): R11 P31 A32 R33 R35 R36 R37 R40 K52 R70 H72 R74 N75 Y90 N91 G92 K93 Y108 G110 T115 T117 V119 H121

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:4v8y, PDBe:4v8y, PDBj:4v8y
• PDBsum: 4v8y
• PubMed: 24200810
• UniProt: Q01855|RS15_YEAST Small ribosomal subunit protein uS19 (Gene Name=RPS15)