Structure of PDB 6zqb Chain DO Binding Site BS01

Receptor Information

>6zqb Chain DO (length=120) Species: 559292 (Saccharomyces cerevisiae S288C)

SQVFGVARIYASFNDTFVHVTDLSGKETIARVTGGMKVKADRDESSPYAA
MLAAQDVAAKCKEVGITAVHVKIRATGGTRTKTPGPGGQAALRALARSGL
RIGRIEDVTPVPSDSTRKKG

Ligand information

>6zqb Chain D3 (length=1198)

aagauaguuaucugguugauccugccagucauaugcuugucucagccaug
cagucuaaguauaagcaauuuauacagugaaacugcgaaugcucauuaaa
ucaguuaucguuuauuugauagucaugguauaacugugguaauucuagag
cuaaaaucucgacccuuuggaagagauguauuuauuagaucaaugucuuc
ggacucuuugaugaauaacuuuucgaaucgcauggccuugugcuggcgau
gguucauucaaauuucugcccuaucaacuuucgaugguaggauaguggcc
uaccaugguuucaacggguaacggggaauaaggguucgauuccggagagg
gagccugagaaacggcuaccacauccaaggaagggcaggcuuacccaauc
cuaauucagggagguagugacaauaaauaacgauacagggcccauucggg
ucuuguaauuggaaugaguacaauguaaauaccuuaacgaggaacaauug
gagggcaagucuggugccagcagccgcgguaauuccagcuccaauagcgu
auauugcucguaguugaacuuugggcccgguuggccggucggauuuccaa
cggggccuuuauuaauagggacggucgggggcaucaguauucaauuguca
gaggugaaauucuuggauuuauugaagacuaacuacugcgaaagcauuug
ccaaggacguuuucauuaaucaagaacgaaaaacuaugccgacuagggau
cgggugguguuuuuuuaaugacccacucggcaccuuacgaggaguauggu
cgcaaggcugaaacuuaaaggaauugacggaagggcaccaccaggagugg
agccugcggaaacucaccagguccagacacaauauuugugggugguggug
caugugaugcccuuguucuggcgcgcgcuacacugacggagccagcgagu
cuaaccuuggccgagaggucuugguaaaaacuccgucggggaacgaggaa
uuccuaguaagcgcaagucaucagcuugcguugauuacgucccugcccuu
uguacacaccgcccgucgcuaguaccgauugaauggcuuagugaggccuc
aggaucugcuuagagaagggggcaacuccucucagagcggagauuuggac
aaacuuggucauuuagaggaacuaaguuuccguaggugaaccugcgga

..............................<<<<<<...<....<<<.<<
<.<<....<.....<............>....>.>>.....<<<......
.<<<..<<..<<....<<<..............<<.<<<.....>>>.>>
.....<<<<<..<......>..>>>>>....<<<<...<<<<<.<<<...
.>>>...>>>>>..>>>>.........<<<<..<<<.....>>>.>>>>.
...>>>...>>>>..>>>.<<<....<<.....<<<<<<<<.......>>
>>>>>>.>>......>>>.....<<...............>>..>>>.<<
.<<<..........>>>.>>.<.<<....>>.>.>>>>>>..<<<....<
<<.....>>>..>>>.........>.....<<<<<<<.<<<<<....>>>
>>.>>>.>>>>......<<..<...........>..>>.........<<<
<<<.......<<<....>>>..................>>>>>>..>>>>
>>...<.<<...<<<.<<.....<<<<<.<<<<<............>>>>
>.>>>>>....>>....<<<<<<.<<...<<<<..<<..<<<<<<.<...
<<<......>>>......>.>>>>>>..>>.......<<....>>...>>
>>...>>>>>.>>>...>>>...>>.>............<<...<<<..<
<<<<<<<.<<<........>>>>>>>>>>>..>>>..>>...........
.......<<.........>>.....<<<<<<<<<<<<..<<.<<<<<<..
<<<.<<<<........<<<<..<....<<<<<...>>>>>......<<<<
.......>>>>...>..>>>>>>>>.>>>.....<<<<<<<.........
...<<<..<<<<....>>>>..>>>.....>>>>>>>............>
>>>>>....<<<<<<<<.......>>>>>>>>......>>...>>>>>>>
............>>>>>..<<<<.<<....<<<<<<<<.<<.....<<..
....<<<<<<<.<<<<.<.<......>.>>>>>.>>>>>>>.....>>..
...>>.>>>>>>>>...>>.>>>>....<<<<<<<<....>>>>>>>>

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6zqb 90 S pre-ribosome transformation into the primordial 40 S subunit.
• Resolution: 3.9 Å
• Binding residue (original residue number in PDB): R18 N24 D25 H29 G35 K36 E37 T38 R41 G45 M46 D51 R52 E54 S123 D124
• Binding residue (residue number reindexed from 1): R8 N14 D15 H19 G25 K26 E27 T28 R31 G35 M36 D41 R42 E44 S113 D114

Gene Ontology

Molecular Function

• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0002181 cytoplasmic translation
• GO:0006364 rRNA processing
• GO:0006412 translation
• GO:0042254 ribosome biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0030686 90S preribosome
• GO:0032040 small-subunit processome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6zqb, PDBe:6zqb, PDBj:6zqb
• PDBsum: 6zqb
• PubMed: 32943521
• UniProt: P06367|RS14A_YEAST Small ribosomal subunit protein uS11A (Gene Name=RPS14A)