Structure of PDB 5zc9 Chain A Binding Site BS01

Receptor Information
>5zc9 Chain A (length=378) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
EIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQS
GTGKTATFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMG
ASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKM
FVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFM
RDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIF
INTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLIT
TDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTE
EDKRTLRDIETFYNTSIEEMPLNVADLI
Ligand information
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5zc9 The Translation Inhibitor Rocaglamide Targets a Bimolecular Cavity between eIF4A and Polypurine RNA.
Resolution2.0 Å
Binding residue
(original residue number in PDB)		P108 T109 R110 G136 G137 V140 T158 P159 G160 R161 D164 R168 R190 G191 F192 Q195 N280 T281 R282 H303 G304 R311 T329 D330 L331
Binding residue
(residue number reindexed from 1)		P80 T81 R82 G108 G109 V112 T130 P131 G132 R133 D136 R140 R162 G163 F164 Q167 N252 T253 R254 H275 G276 R283 T301 D302 L303
Binding affinityPDBbind-CN: Kd=7.6uM
Enzymatic activity
Enzyme Commision number 3.6.4.13: RNA helicase.
Gene Ontology
Molecular Function
GO:0000339 RNA cap binding
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0003724 RNA helicase activity
GO:0003725 double-stranded RNA binding
GO:0003729 mRNA binding
GO:0003743 translation initiation factor activity
GO:0004386 helicase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008135 translation factor activity, RNA binding
GO:0016787 hydrolase activity
GO:0016887 ATP hydrolysis activity
Biological Process
GO:0002183 cytoplasmic translational initiation
GO:0006412 translation
GO:0006413 translational initiation
GO:0045944 positive regulation of transcription by RNA polymerase II
Cellular Component
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016281 eukaryotic translation initiation factor 4F complex
GO:0048471 perinuclear region of cytoplasm
GO:0070062 extracellular exosome
GO:0097165 nuclear stress granule

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5zc9, PDBe:5zc9, PDBj:5zc9
PDBsum5zc9
PubMed30595437
UniProtP60842|IF4A1_HUMAN Eukaryotic initiation factor 4A-I (Gene Name=EIF4A1)

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