Structure of PDB 8cdr Chain 2 Binding Site BS01

Receptor Information
>8cdr Chain 2 (length=97) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PKKRASNGRNKKGRGHVKPVRCVNCSKSIPKDKAIKRMAIRNIVEAAAVR
DLSEASVYPEYALPKTYNKLHYCVSCAIHARIVRVRSREDRKNRAPP
Ligand information
>8cdr Chain c (length=1608) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauacagugaaacugcgaauggcucauuaa
aucaguuaucguuuauuugauaguucccuacaugguauaacugugguaau
ucuagagcuaauacaugcuuaaaaucucagauguauuuauuagauugaug
auucauaauaacuuuucgaaucgcauggccuugugcuggcgaugguucau
ucaaauuucugcccuaucaacuuucgaugguaggauaguggccuaccaug
guuucaacggguaacggggaauaaggguucgauuccggagagggagccug
agaaacggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaa
uccuaauucagggagguagugacaauaaauaacgauacauguaauuggaa
ugaguacaauguaaauaccuuaacgaggaacaauuggagggcaagucugg
ugccagcagccgcgguaauuccagcuccaauagcguauauuaaaguuguu
gcaguuaaaaagcucguaguugaacuuugggcccgguugcaacggggccu
uucuuuuacuuugaaaaaauuagaguguucaaagcaggcguauugcucga
auauauuagcauggaauaauagaauaggacguuuaucguaaugauuaaua
gggacggucgggggcaucaguauucaauugucagaggugaaauucuugga
uuuauugaagacuaacuacugcgaaagcauuugccaaggacguuuucauu
aaucaagaacgaaaguuaggggaucgaagaugaucagauaccgucguagu
cuuaaccauaaacuaugccgacuagggaucgggugguguuuuuuuaauga
cccacucggcaccuuacgagaaaucaaagucuuuggguucuggggggagu
auggucgcaaggcugaaacuuaaaggaauugacggaagggcaccaccagg
aguggagccugcggcuuaauuugacucaacacggggaaacucaccagguc
cagacacaauaaggauugacagauugagagcucuuucuugauuuuguggg
ugguggugcauggccguucuuaguugguggagugauuugucugcuuaauu
gcgauaacgaacgagaccuuaaccuacuaaauaguggugcuagcauuugc
ugguuauccacuucuuagagggacuaucgguuucaagccgauggaaguuu
gaggcaauaacaggucugugaugcccuuagacguucugggccgcacgcgc
gcuacacugacggagccagcgagucuaaccuuggccgagaggucuuggua
aucuugugaaacuccgucgugcuggggauagagcauuguaauuauugcuc
uucaacgaggaauuccuaguaagcgcaagucaucagcuugcguugauuac
gucccugcccuuuguacacaccgcccgucgcuaguaccgauugaauggcu
uagugaggccucaggaucugcuagcggagaauuuggacaaacuuggucau
uuagaggaacuaaaagucguaacaagguuuccguaggugaaccugcggaa
ggaucauu
...<<<<<.[.((((>>>>><<<<.<<<<<<...<.<...<......<<<
.<<<..<<....<<....<<......>>...>>.>>......<<......
..<<<..<<..<<....<<<............<<......<<.<<.....
..>>.>>......>>........<<<<.>>>><...<<<<<<........
.....>>>>>>.....>...<<<<.<<<<.....>>>>>>>>....>>>.
..>>>>..>>>.<<<....<<<....<<<<<<<<.......>>>>>>>>>
>>......>>>...<<<.<<<<....>>>>....>>>.>>.<<.<<<...
.......>>>.>>.<.<<....>>.>...>>>>>>.........<<<...
.<<<.....>>>..>>>..>....>.>.....<<<<<<..>>>.>>>...
...<<.................>>.........<<<<<((....<.<<<<
.....<<..))>>.......>>>>>>>>>>..>>>>>>>>>>........
.<<<((.....<.<<...<<<.<<....<<<<<<.<<<..>>>.>>>>>>
.....<<<<<.<<.......<<...<.......>..<<<.....>>>...
.>>......>>.>>..>>>.........<<<.<.>.>>>.....>>....
<<<<<<.<<...<<<<..<<..<<<<<<.<...<<<......>>>.....
.>.>>>>>>..>>.......<<....>>...>>>>...>>>>>.>>>...
>>>...>>.>....<<<<<<<...<...<<<<.<.....>.>>>>...>>
>>>>>>..........<<<.<<.<<<..<<<<<<<<.<<<<.....>.>>
>>>>>>>>>..>>>...<<..))>>...>>.....>>>.>>>.<<<....
..<<<<....>>>>....>>>..)))).]<<<<<.<<<<<<<..<<.<<<
<<<..<<<.<<<<<.......<<........>>..........<<<<<.<
....<<<<<........<<.<<<........>>>.>>......>>>>>..
.<<.<<<..<<<<<<<<<....<<<.<<<<<....>>>...<<<......
>>>...>>.>>>....<<<<<.<<..<<<<..<<<<<.<..<<<....>>
>..>...>>>>>..>>>>.>>....<<<<<<.....>>>>>>.......>
>>>>....>>>.>>>...>.>>>>>>>.....>.>>>>>....>.>>>>.
>>>.....<<<<<<<......<<.....<<..<<<<....>>>>..>>..
..>>.......>>>>>>>......<....<<<<<<..........>>>>>
>....>.....>>>>>>....<<<<<<<<.......>>>>>>>>......
>>...>>>>>>>>>>.>>....<..<<.<..<<<<.<<....<<<<<<<<
.<<<..<.<<..<...<<<<<..>>>>>...>..>>.>..>>>.>>>>>>
>>...>>.>>>>...>.>>...>.....<<<<<<<<<<..>>>>>>>>>>
........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8cdr mRNA reading frame maintenance during eukaryotic ribosome translocation
Resolution2.04 Å
Binding residue
(original residue number in PDB)		P2 K3 K4 R5 A6 N8 G9 R10 N11 K12 K13 G14 R15 H17 K19 K28 K32 K34 K37 R38 K70 V75 S76 I79 H80 R82 R85 V86 R87 S88 R89 R92 K93 R95 P97
Binding residue
(residue number reindexed from 1)		P1 K2 K3 R4 A5 N7 G8 R9 N10 K11 K12 G13 R14 H16 K18 K27 K31 K33 K36 R37 K69 V74 S75 I78 H79 R81 R84 V85 R86 S87 R88 R91 K92 R94 P96
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003729 mRNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0008270 zinc ion binding
Biological Process
GO:0000054 ribosomal subunit export from nucleus
GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0002181 cytoplasmic translation
GO:0006412 translation
GO:0042255 ribosome assembly
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

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8cdr, PDBe:8cdr, PDBj:8cdr
PDBsum8cdr
PubMed38030725
UniProtP39938|RS26A_YEAST Small ribosomal subunit protein eS26A (Gene Name=RPS26A)

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