Structure of PDB 6rbd Chain X Binding Site BS01

Receptor Information
>6rbd Chain X (length=144) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GKGKPRGLNSARKLRVHRRNNRWAENNYKKRLLGTAFKSSPFGGSSHAKG
IVLEKLGIESKQPNSAIRKCVRVQLIKNGKKVTAFVPNDGCLNFVDENDE
VLLAGFGRKGKAKGDIPGVRFKVVKVSGVSLLALWKEKKEKPRS
Ligand information
>6rbd Chain 2 (length=1777) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
aucugguugauccugccaguagucauaugcuugucucaaagauuaagcca
ugcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcucau
uaaaucaguuaucguuuauuugauaguuccuuuacuacaugguauaacug
ugguaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaagag
auguauuuauuagauaaaaaaucaaugucuucggacucuuugaugauuca
uaauaacuuuucgaaucgcauggccuugugcuggcgaugguucauucaaa
uuucugcccuaucaacuuucgaugguaggauaguggccuaccaugguuuc
aacggguaacggggaauaaggguucgauuccggagagggagccugagaaa
cggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaauccua
auucagggagguagugacaauaaauaacgauacagggcccauucgggucu
uguaauuggaaugaguacaauguaaauaccuuaacgaggaacaauuggag
ggcaagucuggugccagcagccgcgguaauuccagcuccaauagcguaua
uuaaaguuguugcaguuaaaaagcucguaguugaacuuugggcccgguug
gccggucggauuuccaacggggccuuuccuucuggcuaaccuugaguccu
uguggcucuuggcgaaccaggacuuuuacuuugaaaaaauuagaguguuc
aaagcaggcguauugcucgaauauauuagcauggaauaauagaauaggac
guuugguucuauuuuguugguuucuaggaccaucguaaugauuaauaggg
acggucgggggcaucaguauucaauugucagaggugaaauucuuggauuu
auugaagacuaacuacugcgaaagcauuugccaaggacguuuucauuaau
caagaacgaaaguuaggggaucgaagaugaucagauaccgucguagucuu
aaccauaaacuaugccgacuagggaucgggugguguuuuuuuaaugaccc
acucggcaccuuacgagaaaucaaagucuuuggguucuggggggaguaug
gucgcaaggcugaaacuuaaaggaauugacggaagggcaccaccaggagu
ggagccugcggcuuaauuugacggggaaacucaccagguccagacacaau
aaggauugacagauugagagcucuuucuugauuuugugggugguggugca
uggccguucuuaguugguggagugauuugucugcuuaauugcgauaacga
acgagaccuuaaccuacuaaauaguggugcuagcauuugcugguuaucca
cuucuuagagggacuaucgguuucaagccgauggaaguuugaggcaauaa
caggucugugaugcccuuagacguucugggccgcacgcgcgcuacacuga
cggagccagcgagucuaaccuuggccgagaggucuugguaaucuugugaa
acuccgucgugcuggggauagagcauuguaauuauugcucuucaacgagg
aauuccuaguaagcgcaagucaucagcuugcguugauuacgucccugccc
uuuguacacaccgcccgucgcuaguaccgauugaauggcuuagugaggcc
ucaggaucugcuuagagaagggggcaacuccaucucagagcggagaauuu
ggacaaacuuggucauuuagaggaacuaaaagucguaacaagguuuccgu
aggugaaccugcggaaggaucauuaaa
..<<<<<...[[[[>>>>>[[[[.((((((................[[[.
[[[..<<....<<....<<..........>>...>>.>>......{{...
.....[[[..{{..{{....[[[..................<.....<<.
<<.......>>.>>......>.........<<<<<..<<....>>..>>>
>>[...((((((......<<<<<<<<<<<....>>>....<<......>>
)))))).....]...<<<<..<<<.....>>>.>>>>....]]]...}}}
}..]]].<<<....<<<....<<<<<<<<.......>>>>>>>>>>>...
...>>>...<<<.<<<<....>>>>....>>>.}}.<<.<<<........
..>>>.>>.<.<<<..>>>.>...]]]]]].........<<<....<<<.
....>>>..>>>...............<<<<<<<<<<<<<....>>>>>>
>>>>.>>>......<<..<...........>..>>.........<<<<<(
(......<<<<.........)).........>>>>.>>>>>..))))))]
]]].........[[[{{.......{{...[[[.{{....<<<<<<.<<<<
<....<..>....>>>>>.>>>>>>.....<<<<<....<<..<<<<<..
...>>>>>..>>....>>>>>....<<<<<.<<.......<<...<....
...>..<<<.....>>>....>>......>>.>>..>>>.........[[
[..(((((((.....>>>>>>>>..))))))).]]].....}}....<<<
<<<.<<...<<<<..<<..<<<<<<.<...<<<......>>>......>.
>>>>>>..>>.......<<....>>...>>>>...>>>>>.>>>...]]]
...}}......<<<<<<<...<...<<<<.........>>>>...>>>>>
>>>..........<<<.<<.<<<..<<<<<<<<.<<<........>>>>>
>>>>>>..>>>...<<..}}>>...>>.....>>>.]]].<<<......<
<<<....>>>>....>>>..]]]]........<<<<<<<..<<.<<<<<<
..<<<.<<<<<<......<<.>>..((......<<<<<.<....<<<<<.
.......<<.<<<........>>>.>>......>>>>>......<<<.<<
<.<<........<<<.<<.<<....>>....<<<......>>>...>>.>
>>....<<<<..<<..<<<<..<<<<<.<<<<<<....>>>>>>...>>>
>>..>>>>.>>....<<<<<<.....>>>>>>........>>>>......
...>>..>>>..>>>.......>.>>>>>...>>.>>>>.>>>.....<<
<<<<<......<<.....<<..<<<<....>>>>..>>....>>......
.>>>>>>>......<....<<<<<<..........>>>>>>....>....
.>>>>>>....<<<<<<<<...))..>>>>>>>>......>>...>>>>>
>>.......<<<...<<.<..<<<<.<<..<<<<<<<<<<.<<<..<.<<
..<...<<<<<<<.<<<<.<<<<....>>>>.>>>>.>>>>>>>...>..
>>.>..>>>.>>>>>>>>>>.>>.>>>>...>.>>......>>><<<<<<
<<<....>>>>>>>>>...........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6rbd Conformational proofreading of distant 40S ribosomal subunit maturation events by a long-range communication mechanism.
Resolution3.47 Å
Binding residue
(original residue number in PDB)
G2 K3 G4 K5 P6 R7 G8 N10 R13 K14 R19 R20 N22 R23 W24 A25 E26 R32 F38 S46 S47 H48 A49 K50 N65 S66 R73 K78 K82 G91 G106 G108 R109 K110 G111 K112 A113 R121 K123 K126 S131 K139
Binding residue
(residue number reindexed from 1)
G1 K2 G3 K4 P5 R6 G7 N9 R12 K13 R18 R19 N21 R22 W23 A24 E25 R31 F37 S45 S46 H47 A48 K49 N64 S65 R72 K77 K81 G90 G105 G107 R108 K109 G110 K111 A112 R120 K122 K125 S130 K138
Enzymatic activity
Enzyme Commision number ?
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:0006412 translation
GO:0006450 regulation of translational fidelity
GO:1990145 maintenance of translational fidelity
Cellular Component
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005840 ribosome
GO:0015935 small ribosomal subunit
GO:0022627 cytosolic small ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:6rbd, PDBe:6rbd, PDBj:6rbd
PDBsum6rbd
PubMed31227701
UniProtP0CX29|RS23A_YEAST Small ribosomal subunit protein uS12A (Gene Name=RPS23A)

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