Structure of PDB 6lqq Chain Sd Binding Site BS01

Receptor Information

>6lqq Chain Sd (length=63) Species: 559292 (Saccharomyces cerevisiae S288C)

TPVTLAKVIKVLGRTGSRGGVTQVRVEFLEDTSRTIVRNVKGPVRENDIL
VLMESEREARRLR

Ligand information

>6lqq Chain SA (length=1323)

aagauaguuaucugguugauccugccaguagucauaugcuugucucagcc
augcaugucuaaguauaagcaauuuauacagugaaacugcgaaggcucau
uaaaucaguuaucguuuauuugauaguuccaugguauaacugugguaauu
cuagagcuaauacaugcuaaucucgacccuuuggaagagauguauuuauu
agaucaaugucuucggacucuuugaugaaauaacuuuucgaaucgcaugg
ccuugugcuggcgaugguucauucaaauuucugcccuaucaacuuucgau
gguaggauaguggccuaccaugguuucaacggguaacggggaauaagggu
ucgauuccggagagggagccugagaaacggcuaccacauccaaggaaggc
agcaggccaaauuacccaauccuaauucagggagguagugacaauaaaua
acgauacagggcccauucgggucuuguaauuggaaugaguacaauguaaa
uaccuuaacgaggaacaauuggagggcaagucuggugccagcagccgcgg
uaauuccagcuccaauagcguauauuaaaguuguugcagaagcucguagu
ugaacuggcccgguuggccgguccggauuuccaacggggccuugguucua
uuuucuaggacugauuaauagggacggucgggggcaucaguauucaauug
ucagaggugaaauucuuggauuuauugaagacuaacuacugcgaaagcau
uugccaaggacguuuucauuaaucaagaacgaccauaaacuaugccgacu
agggaucgggugguguuuuuuuaaugacccacucggcaccuuacgagaac
uggggggaguauggucgcaaggcugaaacuuaaaggaauugacggaaggg
caccaccaggaguggagccugcggcucaacacggggaaacucaccagguc
cagacacaauaaggauugacauucuugauuuugugggugguggugcauug
augcccuuguucugggccacgcgcgcuacacugacggagccagcgagucu
aaccuuggccgagaggucuugguaaucuugugaaacuccgucgugcuggc
aacgaggaauuccuaguaagcgcaagucaucagcuugcguugauuacguc
ccugcccuuuguacacaccgcccgucgcuaguaccgauugaauggcuuag
ugaggccucaggaucugcuuagagaagggggcaacuccaucucagagcgg
agaauuuggacaaacuuggucauuuagaggaacuaaaagucguaacaagg
uuuccguaggugaaccugcggaa

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6lqq Cryo-EM structure of 90 S small ribosomal subunit precursors in transition states.
• Resolution: 4.1 Å
• Binding residue (original residue number in PDB): R18 G20 S21 R22 G23 G24 P47
• Binding residue (residue number reindexed from 1): R14 G16 S17 R18 G19 G20 P43

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000028 ribosomal small subunit assembly
• GO:0000054 ribosomal subunit export from nucleus
• GO:0006412 translation
• GO:0030490 maturation of SSU-rRNA
• GO:1900153 positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6lqq, PDBe:6lqq, PDBj:6lqq
• PDBsum: 6lqq
• PubMed: 32943522
• UniProt: Q3E7X9|RS28A_YEAST Small ribosomal subunit protein eS28A (Gene Name=RPS28A)