Structure of PDB 6zqe Chain DF Binding Site BS01

Receptor Information

>6zqe Chain DF (length=213) Species: 559292 (Saccharomyces cerevisiae S288C)

DFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLVDYV
QVRQPIFVAHTAGRYANKRFRKAQCPIIERLTNSLMMNGRNNGKKLKAVR
IIKHTLDIINVLTDQNPIQVVVDAITNTGPREDTTRVGGGGAARRQAVDV
SPLRRVNQAIALLTIGAREAAFRNIKTIAETLAEELINAAKGSSTSYAIK
KKDELERVAKSNR

Ligand information

>6zqe Chain D3 (length=1447)

ucugguugauccugccaguagucauaugcuugucucaaagauuaagccau
gcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcucauu
aaaucaguuaucguuuauuugauagucaugguauaacugugguaauucua
gagcuaauacaugcuaucucgacccuuuggaagagauguauuuauuagau
aaaaaaucaaugucuucggacucuuugaugauucauaauaacuuuucgaa
ucgcauggccuugugcuggcgaugguucauucaaauuucugcccuaucaa
cuuucgaugguaggauaguggccuaccaugguuucaacggguaacgggga
auaaggguucgauuccggagagggagccugagaaacggcuaccacaucca
aggaaggcagcaggcgcgcaaauuacccaauccuaauucagggagguagu
gacaauaaauaacgauacagggcccauucgggucuuguaauuggaaugag
uacaauguaaauaccuuaacgaggaacaauuggagggcaagucuggugcc
agcagccgcgguaauuccagcuccaauagcguauauuguuguugcaguua
aaaagcucguaguugaacuuugggcccgguuggccggucggauuuccaac
ggggccuuuccuucuggcuaaccuugaguccuuguggcucuuggcgaacc
aggacuuuuacuuugaaaaaauuagaguguucaaagcaggcguauugcuc
gaauauauuagcauggaauaauagaauaggacguuugguucuauuuuguu
gguuucuaggaccaucguaaugauuaauagggacggucgggggcaucagu
auucaauugucagaggugaaauucuuggauuuauugaagacuaacuacug
cgaaagcauuugccaaggacguuuucauuaaucaagaacgaaaguuaggg
gaucgaagaugaucagauaccgucguagucuuaaccauaaacuaugccga
cuagggaucgggugguguuuuuuuaaugacccacucggcaccuuacgaga
aaucaaagucuuuggguucugggggaguauggucgcaaggcuaaaaaagg
aauugacggaagggcaccaccaggaguggagccugcggcgcgcuacacug
acggagccagcgagaccuuggccgagaggucuugggaaacuccgucgugc
uggggauagagcauuguaauuauugcucuucaacgaggaauuccuaguaa
gcgcaagucaucagcuugcguugauuacgucccugcccuuuguacacacc
gcccgucgcuaguaccgauugaauggcuuagugaggccucaggaucugcu
uagagaagggggcaacuccaucucagagcggagauuuggacaaacuuggu
cauuuaggaacuaauuccguaggugaaccugcggaaggaucauuaaa

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6zqe 90 S pre-ribosome transformation into the primordial 40 S subunit.
• Resolution: 7.1 Å
• Binding residue (original residue number in PDB): N95 L97 G105 L108 K109 A183 F184 N186 I187 T189
• Binding residue (residue number reindexed from 1): N83 L85 G93 L96 K97 A171 F172 N174 I175 T177

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0019843 rRNA binding

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0000054 ribosomal subunit export from nucleus
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0006450 regulation of translational fidelity
• GO:0030490 maturation of SSU-rRNA

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:0022627 cytosolic small ribosomal subunit
• GO:0030686 90S preribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6zqe, PDBe:6zqe, PDBj:6zqe
• PDBsum: 6zqe
• PubMed: 32943521
• UniProt: P26783|RS5_YEAST Small ribosomal subunit protein uS7 (Gene Name=RPS5)