Structure of PDB 6lqt Chain SC Binding Site BS01

Receptor Information

>6lqt Chain SC (length=232) Species: 559292 (Saccharomyces cerevisiae S288C)

KKGQKKRVVDPFTRKEWFDIKAPSTFENRNVGKTLVNKSTGLKSASDALK
GRVVEVCLADLQGSEDHSFRKIKLRVDEVQGKNLLTNFHGMDFTTDKLRS
MVRKWQTLIEANVTVKTSDDYVLRIFAIAFTRKQANQVKRHSYAQSSHIR
AIRKVISEILTKEVQGSTLAQLTSKLIPEVINKEIENATKDIFPLQNIHV
RKVKLLKQPKFDVGALMALHGEGSGEEKGKKV

Ligand information

>6lqt Chain SA (length=1155)

aagauaguuaucugguugauccugccaguagucauaugcuugucucaaag
ccaugcaugucuaaguauaagcaauuuauacagugaaacugcgaaucagu
uaucguuuauuugauagcaugguauaacugugguaauucuagagcuaaua
caugcuaaucucgacccuuuggaagagauguauuuauuagagucuucgga
cucuuugaugauucauaauaacuuuucgaaucgcauggccuugugcuggc
gaugguucauucaaauuucugcccuaucaacuuucgaugguaggauagug
gccuaccaugguuucaacggggcaggcgcgcaaauuacccaauccuaauu
cagggagguagugacaauaaauaacgauacagggcccauucgggucuugu
aauuggaaugaguacaauguaaauaccuuaacgaggaacaauuggagggc
aagucuggugccagcagccgcgguaauuccagcuccaauagcguauauug
cucguaguugaacuuugggcccgguuggccgguccggauuuccaacgggg
ccuuuccuuuuuacuuugaaaaaauuagaguguucaaagcaggcguauug
cucgaauauauuagcauggaauaauagaauagguugguucuauuucuagg
accugauuaauagggacggucgggggcaucaguauucaauugucagaggu
gaaauucuuggauuuauugaagacuaacuacugcgaaagcauuugccaag
gacguuuucauuaaucaagaacguagggaucgggugguguuuuuuuaaug
acccacucggcaccuugggggaguauggucgcaaggcugaaacuuaaagg
aauugacggaagggcaccaccaggaguggagccugcggcgcgcgcuacac
ugacggagccagcgaguaacuccgucgugcugacgaggaauuccuaguaa
gcgcaagucaucagcuugcguugauuacgucccugcccuuuguacacacc
gcccgucgcuaguaccgauugaauggcuuagugaggccucaggaucugcu
uagagaagggggcaacuccaucucagagcggagaauuuggacaaacuugg
ucauuuagaggaacuaaaaggguuuccguaggugaaccugcggaaggauc
auuaa

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6lqt Cryo-EM structure of 90 S small ribosomal subunit precursors in transition states.
• Resolution: 4.9 Å
• Binding residue (original residue number in PDB): K13 K17 V21 P23 V65 V114 K116 W117 Q118 L120 R136 F138 Q146 N148 Q149 K151 Y155 Q157 S158 S159 H160 R165 K202 D203 K214 K216
• Binding residue (residue number reindexed from 1): K1 K5 V9 P11 V53 V102 K104 W105 Q106 L108 R124 F126 Q134 N136 Q137 K139 Y143 Q145 S146 S147 H148 R153 K190 D191 K202 K204

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:6lqt, PDBe:6lqt, PDBj:6lqt
• PDBsum: 6lqt
• PubMed: 32943522
• UniProt: P33442|RS3A1_YEAST Small ribosomal subunit protein eS1A (Gene Name=RPS1A)