Structure of PDB 5obm Chain d6 Binding Site BS01

Receptor Information
>5obm Chain d6 (length=97) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PKKRASNGRNKKGRGHVKPVRCVNCSKSIPKDKAIKRMAIRNIVEAAAVR
DLSEASVYPEYALPKTYNKLHYCVSCAIHARIVRVRSREDRKNRAPP
Ligand information
>5obm Chain 6 (length=1739) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcuca
uuaaaucaguuaucguuuauuugauaguucccuacaugguauaacugugg
uaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaagagaug
uauuuauuagauaaaaaaucaaugucuucggacucuuugaugauucauaa
uaacuuuucgaaucgcauggccuugugcuggcgaugguucauucaaauuu
cugcccuaucaacuuucgaugguaggauaguggccuaccaugguuucaac
ggguaacggggaauaaggguucgauuccggagagggagccugagaaacgg
cuaccacauccaaggaaggcagcaggcgcgcaaauuacccaauccuaauu
cagggagguagugacaauaaauaacgauacaguuguaauuggaaugagua
caauguaaauaccuuaacgaggaacaauuggagggcaagucuggugccag
cagccgcgguaauuccagcuccaauagcguauauuaaaguuguugcaguu
aaaaagcucguaguugaacuuugggcccgguuggccgguacuggauuucc
aacggggccuuuccuucuggcuaacuggcgaaccaggacuuuuacuuuga
aaaaauuagaguguucaaagcaggcguauugcucgaauauauuagcaugg
aauaauagaauaggacguuugguucuauuuuguugguuucuaggaccauc
guaaugauuaauagggacggucgggggcaucaguauucaauugucagagg
ugaaauucuuggauuuauugaagacuaacuacugcgaaagcauuugccaa
ggacguuuucauuaaucaagaacgaaaguuaggggaucgaagaugaucag
auaccgucguagucuuaaccauaaacuaugccgacuagggaucggguggu
guuuuuuuaaugacccacucggcaccuuacgagaaaucaaagucuuuggg
uucuggggggaguauggucgcaaggcugaaacuuaaaggaauugacggaa
gggcaccaccaggaguggagccugcggcuuaauuugacucaacacgggga
aacucaccagguccagacacaauaaggauugacagauugagagcucuuuc
uugauuuugugggugguggugcauggccguucuuaguugguggagugauu
ugucugcuuaauugcgauaacgaacgagaccuuaaccuacuaaauagugg
ugcuagcauuugcugguuauccacuucuuagagggacuaucgguuucaag
ccgauggaaguuugaggcaauaacaggucugugaugcccuuagacguucu
gggccgcacgcgcgcuacacugacggagccagcgagucuaaccuuggccg
agaggucuugguaaucuugugaaacuccgucgugcuggggauagagcauu
guaauuauugcucuucaacgaggaauuccuaguaagcgcaagucaucagc
uugcguugauuacgucccugcccuuuguacacaccgcccgucgcuaguac
cgauugaauggcuuagugaggccucaggaucugcuuagagaagccaucuc
agagcggagaauuuggacaaacuuggucauuuagaggaacuaaaagucgu
aacaagguuuccguaggugaaccugcggaaggaucauua
...<<<<<.{.[[[[>>>>><<<<.<<<<<<...<.<...<......<<<
.<<<..<<....<<....<<..........>>...>>.>>......<<..
......<<<..<<..<<....<<<..............<.....<<.<<.
......>>.>>......>.........<<<<<..<<....>>..>>>>>.
...<<<<<<......(((((((....<..>.................>>>
>>>.........<<<<..<<<.....>>>.>>>>....>>>...>>>>..
>>>.<<<....<<<....<<<<<<<<.......>>>>>>>>>>>......
>>>...<<<.<<<<....>>>>....>>>.>>.<<.<<<..........>
>>.>>.<.<<....>>.>...>>>>>>.........<<<....<<<....
.>>>..>>>..>....>.>.....<<<<<<<..>>>>.>>.>.....<<.
.<...........>..>>.........<<<<<((....<.<<<<.....<
<..))>>.......>>>>>>>>>>..>>>>>>>>>>.........<<<[[
.....<.<<...<<<.<<....<<<<<<.<<<..<<<<..>>>>......
>>>.>>>>>>....<<<<<<............>>>>>>...<<<<<.<<.
......<<...<.......>..<<<.....>>>....>>......>>.>>
..>>>.........<<<..<<<<<<<<.....))))))).>>>>>>>>.>
>>.....>>....<<<<<<.<<...<<<<..<<..<<<<<<.<...<<<.
.....>>>......>.>>>>>>..>>......<<<....>>>..>>>>..
.>>>>>.>>>...>>>...>>.>....<<<<<<<...<...<<<<.....
....>>>>...>>>>>>>>..........<<<.<<.<<<..<<<<<<<<.
<<<<.....>.>>>>>>>>>>>..>>>...<<..]]>>...>>.....>>
>.>>>.<<<......<<<......>>>....>>>..]]]].}<<<<<.<<
<<<<<..<<.<<<<<<..<<<.<<<<<<......<<........>>....
......<<<<<.<....<<<<<........<<.<<<........>>>.>>
......>>>>>...<<.<<<..<<.<<<<<<....<<<.<<<<<....>>
>...<<<......>>>...>>.>>>....<<<<<.<<..<<<<..<<<<<
.<<<<<<....>>>>>>...>>>>>..>>>>.>>....<<<<<<.....>
>>>>>.......>>>>>....>>>.>>>.....>>>>>>>.....>.>>>
>>...>>.>>>>.>>>.....<<<<<<<......<<.....<<..<<<<.
...>>>>..>>....>>.......>>>>>>>...........<<<<<<..
........>>>>>>..........>>>>>>....<<<<<<<<.......>
>>>>>>>......>>...>>>>>>>>>>.>>....<..<<.<..<<<<.<
<....<<<<<<<<.<<<..<.<<......<<<<<<<.<<<<.....>>>>
.>>>>>>>......>>.>..>>>.>>>>>>>>...>>.>>>>...>.>>.
..>.....<<<<<<<<<....>>>>>>>>>.........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5obm Aminoglycoside interactions and impacts on the eukaryotic ribosome.
Resolution3.4 Å
Binding residue
(original residue number in PDB)		P2 K3 K4 R5 A6 S7 N8 G9 R10 K12 K13 G14 R15 H17 K19 P20 K32 K34 K37 R38 K70 V75 S76 I79 H80 R82 V84 R85 V86 R87 S88 R92 R95 P98
Binding residue
(residue number reindexed from 1)		P1 K2 K3 R4 A5 S6 N7 G8 R9 K11 K12 G13 R14 H16 K18 P19 K31 K33 K36 R37 K69 V74 S75 I78 H79 R81 V83 R84 V85 R86 S87 R91 R94 P97
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5obm, PDBe:5obm, PDBj:5obm
PDBsum5obm
PubMed29208708
UniProtP39939|RS26B_YEAST Small ribosomal subunit protein eS26B (Gene Name=RPS26B)

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