Structure of PDB 6gq1 Chain t Binding Site BS01

Receptor Information

>6gq1 Chain t (length=223) Species: 559292 (Saccharomyces cerevisiae S288C)

ALISKKRKLVADGVFYAELNEFFTRELAEEGYSGVEVRVTPTKTEVIIRA
TRTQDVLGENGRRINELTLLVQKRFKYAPGTIVLYAERVQDRGLSAVAQA
ESMKFKLLNGLAIRRAAYGVVRYVMESGAKGCEVVVSGKLRAARAKAMKF
ADGFLIHSGQPVNDFIDTATRHVLMRQGVLGIKVKIMRDPAKSRTGPKAL
PDAVTIIEPKEEEPILAPSVKDY

Ligand information

>6gq1 Chain 2 (length=1776)

uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcuca
uuaaaucaguuaucguuuauuugauaguuccuuuacuacaugguauaacu
gugguaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaaga
gauguauuuauuagauaaaaaaucaaugucuucggacucuuugaugauuc
auaauaacuuuucgaaucgcauggccuugugcuggcgaugguucauucaa
auuucugcccuaucaacuuucgaugguaggauaguggccuaccaugguuu
caacggguaacggggaauaaggguucgauuccggagagggagccugagaa
acggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaauccu
aauucagggagguagugacaauaaauaacgauacagggcccauucggguc
uuguaauuggaaugaguacaauguaaauaccuuaacgaggaacaauugga
gggcaagucuggugccagcagccgcgguaauuccagcuccaauagcguau
auuaaaguuguugcaguuaaaaagcucguaguugaacuuugggcccgguu
ggccggucggauuuccaacggggccuuuccuucuggcuaaccuugagucc
uuguggcucuuggcgaaccaggacuuuuacuuugaaaaaauuagaguguu
caaagcaggcguauugcucgaauauauuagcauggaauaauagaauagga
cguuugguucuauuuuguugguuucuaggaccaucguaaugauuaauagg
gacggucgggggcaucaguauucaauugucagaggugaaauucuuggauu
uauugaagacuaacuacugcgaaagcauuugccaaggacguuuucauuaa
ucaagaacgaaaguuaggggaucgaagaugaucagauaccgucguagucu
uaaccauaaacuaugccgacuagggaucgggugguguuuaugacccacuc
ggcaccuuacgagaaaucaaagucuuuggguucuggggggaguauggucg
caaggcugaaacuuaaaggaauugacggaagggcaccaccaggaguggag
ccugcggcuuaauuugacucaacacggggaaacucaccagguccagacac
aauaaggauugacagauugagagcucuuucuugauuuugugggugguggu
gcauggccguucuuaguugguggagugauuugucugcuuaauugcgauaa
cgaacgagaccuuaaccuacuaaauaguggugcuagcauuugcugguuau
ccacuucuuagagggacuaucgguuucaagccgauggaaguuugaggcaa
uaacaggucugugaugcccuuagacguucugggccgcacgcgcgcuacac
ugacggagccagcgagucuaaccuuggccgagaggucuugguaaucuugu
gaaacuccgucgugcuggggauagagcauuguaauuauugcucuucaacg
aggaauuccuaguaagcgcaagucaucagcuugcguugauuacgucccug
cccuuuguacacaccgcccgucgcuaguaccgauugaauggcuuagugag
gccucaggaucugcuuagagaagggggcaacuccaucucagagcggagaa
uuuggacaaacuuggucauuuagaggaacuaaaagucguaacaagguuuc
cguaggugaaccugcggaaggaucau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6gq1 Structural Insights into the Role of Diphthamide on Elongation Factor 2 in mRNA Reading-Frame Maintenance.
• Resolution: 4.4 Å
• Binding residue (original residue number in PDB): A3 L4 S6 K7 R9 S139 G140 K141 R146 K151 F156 I158 H159 S160 G161 Q162 P163 R178 Q179 G180 V181 L182 G183 K185
• Binding residue (residue number reindexed from 1): A1 L2 S4 K5 R7 S137 G138 K139 R144 K149 F154 I156 H157 S158 G159 Q160 P161 R176 Q177 G178 V179 L180 G181 K183

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:6gq1, PDBe:6gq1, PDBj:6gq1
• PDBsum: 6gq1
• PubMed: 29886014
• UniProt: P05750|RS3_YEAST Small ribosomal subunit protein uS3 (Gene Name=RPS3)