Structure of PDB 6woo Chain DD Binding Site BS01

Receptor Information

>6woo Chain DD (length=223) Species: 4932 (Saccharomyces cerevisiae)

ALISKKRKLVADGVFYAELNEFFTRELAEEGYSGVEVRVTPTKTEVIIRA
TRTQDVLGENGRRINELTLLVQKRFKYAPGTIVLYAERVQDRGLSAVAQA
ESMKFKLLNGLAIRRAAYGVVRYVMESGAKGCEVVVSGKLRAARAKAMKF
ADGFLIHSGQPVNDFIDTATRHVLMRQGVLGIKVKIMRDPAKSRTGPKAL
PDAVTIIEPKEEEPILAPSVKDY

Ligand information

>6woo Chain 2 (length=1780)

aucugguugauccugccaguagucauaugcuugucucaaagauuaagcca
ugcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcucau
uaaaucaguuaucguuuauuugauaguuccuuuacuacaugguauaacug
ugguaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaagag
auguauuuauuagauaaaaaaucaaugucuucggacucuuugaugauuca
uaauaacuuuucgaaucgcauggccuugugcuggcgaugguucauucaaa
uuucugcccuaucaacuuucgaugguaggauaguggccuaccaugguuuc
aacggguaacggggaauaaggguucgauuccggagagggagccugagaaa
cggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaauccua
auucagggagguagugacaauaaauaacgauacagggcccauucgggucu
uguaauuggaaugaguacaauguaaauaccuuaacgaggaacaauuggag
ggcaagucuggugccagcagccgcgguaauuccagcuccaauagcguaua
uuaaaguuguugcaguuaaaaagcucguaguugaacuuugggcccgguug
gccggucgauuuuccaacggggccuuuccuucuggcuaaccuugaguccu
uguggcucuuggcgaaccaggacuuuuacuuugaaaaaauuagaguguuc
aaagcaggcguauugcucgaauauauuagcauggaauaauagaauaggac
guuugguucuauuuuguugguuucuaggaccaucguaaugauuaauaggg
acggucgggggcaucaguauucaauugucagaggugaaauucuuggauuu
auugaagacuaacuacugcgaaagcauuugccaaggacguuuucauuaau
caagaacgaaaguuaggggaucgaagaugaucagauaccgucguagucuu
aaccauaaacuaugccgacuagggaucgggugguguuuuuuuaaugaccc
acucggcaccuuacgagaaaucaaagucuuuggguucuggggggaguaug
gucgcaaggcugaaacuuaaaggaauugacggaagggcaccaccaggagu
ggagccugcggcuuaauuugacucaacacggggaaacucaccagguccag
acacaauaaggauugacagauugagagcucuuucuugauuuugugggugg
uggugcauggccguucuuaguugguggagugauuugucugcuuaauugcg
auaacgaacgagaccuuaaccuacuaaauaguggugcuagcauuugcugg
uuauccacuucuuagagggacuaucgguuucaagccgauggaaguuugag
gcaauaacaggucugugaugcccuuagacguucugggccgcacgcgcgcu
acacugacggagccagcgagucuaaccuuggccgagaggucuugguaauc
uugugaaacuccgucgugcuggggauagagcauuguaauuauugcucuuc
aacgaggaauuccuaguaagcgcaagucaucagcuugcguugauuacguc
ccugcccuuuguacacaccgcccgucgcuaguaccgauugaauggcuuag
ugaggccucaggaucugcuuagagaagggggcaacuccaucucagagcgg
agaauuuggacaaacuuggucauuuagaggaacuaaaagucguaacaagg
uuuccguaggugaaccugcggaaggaucau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6woo An active role of the eukaryotic large ribosomal subunit in translation initiation fidelity.
• Resolution: 2.9 Å
• Binding residue (original residue number in PDB): L4 I5 S6 K8 R9 G140 K141 A145 R146 A147 K151 F156 L157 I158 H159 S160 G161 Q162 P163 H174 Q179 V181 G183 P203 D204
• Binding residue (residue number reindexed from 1): L2 I3 S4 K6 R7 G138 K139 A143 R144 A145 K149 F154 L155 I156 H157 S158 G159 Q160 P161 H172 Q177 V179 G181 P201 D202

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0003906 DNA-(apurinic or apyrimidinic site) endonuclease activity
• GO:0005515 protein binding

Biological Process

• GO:0000054 ribosomal subunit export from nucleus
• GO:0000056 ribosomal small subunit export from nucleus
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0070651 nonfunctional rRNA decay
• GO:1990145 maintenance of translational fidelity

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0030686 90S preribosome
• GO:0030688 preribosome, small subunit precursor
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6woo, PDBe:6woo, PDBj:6woo
• PDBsum: 6woo
• UniProt: P05750|RS3_YEAST Small ribosomal subunit protein uS3 (Gene Name=RPS3)