Structure of PDB 5ndg Chain l5 Binding Site BS02

Receptor Information
>5ndg Chain l5 (length=294) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
QKDAKSSAYSSRFQTPFRRRREGKTDYYQRKRLVTQHKAKYNTPKYRLVV
RFTNKDIICQIISSTITGDVVLAAAYSHELPRYGITHGLTNWAAAYATGL
LIARRTLQKLGLDETYKGVEEVEGEYELTEAVEDGPRPFKVFLDIGLQRT
TTGARVFGALKGASDGGLYVPHSENRFPGWDFETEEIDPELLRSYIFGGH
VSQYMEELADDDEERFSELFKGYLADDIDADSLEDIYTSAHEAIRADPAF
KPTEKKFTKEQYAAESKKYRQTKLSKEERAARVAAKIAALAGQQ
Ligand information
>5ndg Chain 7 (length=121) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gguugcggccauaucuaccagaaagcaccguuucccguccgaucaacugu
aguuaagcugguaagagccugaccgaguaguguagugggugaccauacgc
gaaacucaggugcugcaaucu
<<<<<<<<<....<<<<<<<<.....<<.<<..............>>...
.>>....>>>>>>.>><<<<<<.......<<<<<..<<....>>.>>>>>
.....>>>>>>>>>>>>>>>.
Receptor-Ligand Complex Structure
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PDB5ndg Aminoglycoside interactions and impacts on the eukaryotic ribosome.
Resolution3.7 Å
Binding residue
(original residue number in PDB)		K8 S10 S13 S14 F16 T18 F20 R21 R22 R24 K27 T28 Y30 R33 R50 R54 T56 N57 K58 Q63 I69 D72 V73 V74 Y79 G91 N94 W95 Q151 R152 T154 T155 G156 A157 R158 Y198 H203 V204 Y207 E221 L222 T256 F260 K262 Y265 A266 E268 S269 K270 Y272 Q274 K276 L277 K279 R282 R285 K289
Binding residue
(residue number reindexed from 1)		K5 S7 S10 S11 F13 T15 F17 R18 R19 R21 K24 T25 Y27 R30 R47 R51 T53 N54 K55 Q60 I66 D69 V70 V71 Y76 G88 N91 W92 Q148 R149 T151 T152 G153 A154 R155 Y195 H200 V201 Y204 E218 L219 T253 F257 K259 Y262 A263 E265 S266 K267 Y269 Q271 K273 L274 K276 R279 R282 K286
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0008097 5S rRNA binding
GO:0019843 rRNA binding
Biological Process
GO:0000027 ribosomal large subunit assembly
GO:0002181 cytoplasmic translation
GO:0006412 translation
Cellular Component
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005840 ribosome
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5ndg, PDBe:5ndg, PDBj:5ndg
PDBsum5ndg
PubMed29208708
UniProtP26321|RL5_YEAST Large ribosomal subunit protein uL18 (Gene Name=RPL5)

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