Structure of PDB 6rbe Chain S Binding Site BS01

Receptor Information

>6rbe Chain S (length=145) Species: 559292 (Saccharomyces cerevisiae S288C)

SLVVQEQGSFQHILRLLNTNVDGNIKIVYALTTIKGVGRRYSNLVCKKAD
VDLHKRAGELTQEELERIVQIMQNPTHYKIPAWFLNRQNDITDGKDYHTL
ANNVESKLRDDLERLKKIRAHRGIRHFWGLRVRGQHTKTTGRRRA

Ligand information

>6rbe Chain 2 (length=1750)

uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcuca
uuaaaucaguuaucguuuauuugauaguuccuuuacuacaugguauaacu
gugguaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaaga
gauguauuuauuagauaaaaaaucaaugucuucggacucuuugaugauuc
auaauaacuuuucgaaucgcauggccuugugcuggcgaugguucauucaa
auuucugcccuaucaacuuucgaugguaggauaguggccuaccaugguuu
caacggguaacggggaauaaggguucgauuccggagagggagccugagaa
acggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaauccu
aauucagggagguagugacaauaaauaacgauacagggcccauucggguc
uuguaauuggaaugaguacaauguaaauaccuuaacgaggaacaauugga
gggcaagucuggugccagcagccgcgguaauuccagcuccaauagcguau
auuaaaguuguugcaguuaaaaagcucguaguugaacuuugggcccgguu
ggccggucggauuuccaacggggccuuuccuucuggcuaaccuugagucc
uuguggcucuuggcgaaccaggacuuuuacuuugaaaaaauuagaguguu
caaagcaggcguauugcucgaauauauuagcauggaauaauagaauagga
cguuugguucuauuuuguugguuucuaggaccaucguaaugauuaauagg
gacggucgggggcaucaguauucaagugaaauucuuggaagacuaacuac
ugcgaaagcauuugccaaggacguuuucauuaaucaagaacgaaaguuag
gggaucgaagaugaucagauaccgucguagucuuaaccauaaacuaugcc
gacuagggaucgggugguguuuuuuuaaugacccacucggcaccuuacga
gaaaucaaagucuuuggguucuggggggaguauggucgcaaggcugaaac
uuaaaggaauugacggaagggcaccaccaggaguggagccugcggcuuaa
uuugacucaacacggggaaacucaccagguccagacacaauaaggauuga
cagauugagagcucuuucuugauuuugugggugguggugcauggccguuc
uuaguugguggagugauuugucugcuuaauugcgauaacgaacgagaccu
uaaccuacuaaauaguggugcuagcauuugcugguuauccacuucuuaga
gggacuaucgguuucaagccgauggaaguuugaggcaauaacaggucugu
gaugcccuuagacguucugggccgcacgcgcgcuacacugacggagccag
cgagucuaaccuuggccgagaggucuugguaaucuugugaaacuccgucg
ugcuggggauagagcauuguaauuauugcucuucaacgaggaauuccuag
uaagcgcaagucaucagcuugcguugauuacgucccugcccuuuguacac
accgcccgucgcuaguaccgauugaauggcuuagugaggccucaggaucu
gcuuagagaucucagagcggagaauuuggacaaacuuggucauuuagagg
aacuaaaagucguaacaagguuuccguaggugaaccugcggaaggaucau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6rbe Conformational proofreading of distant 40S ribosomal subunit maturation events by a long-range communication mechanism.
• Resolution: 3.8 Å
• Binding residue (original residue number in PDB): K27 Y30 K36 G37 V38 G39 R40 R41 Y42 H55 R57 W84 F85 L86 N87 R88 Q89 L109 D112 H122 R123 R126 L131 R132 R134 G135 H137 T138 K139 T140 T141 R143 R144
• Binding residue (residue number reindexed from 1): K26 Y29 K35 G36 V37 G38 R39 R40 Y41 H54 R56 W83 F84 L85 N86 R87 Q88 L108 D111 H121 R122 R125 L130 R131 R133 G134 H136 T137 K138 T139 T140 R142 R143

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0000054 ribosomal subunit export from nucleus
• GO:0000447 endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-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:0005739 mitochondrion
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6rbe, PDBe:6rbe, PDBj:6rbe
• PDBsum: 6rbe
• PubMed: 31227701
• UniProt: P0CX55|RS18A_YEAST Small ribosomal subunit protein uS13A (Gene Name=RPS18A)