Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit
collapse expand < >
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)

(-) Description

Title :  COMPLEX OF D. MELANOGASTER EIF4E WITH THE 4E-BINDING PROTEIN 4E-T
 
Authors :  D. Peter, O. Weichenrieder
Date :  16 Dec 14  (Deposition) - 25 Feb 15  (Release) - 15 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Translation, Gene Regulation, Cap Binding Protein, 4E Binding Protein, Translational Repression (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Peter, C. Igreja, R. Weber, L. Wohlbold, C. Weiler, L. Ebertsch, O. Weichenrieder, E. Izaurralde
Molecular Architecture Of 4E-Bp Translational Inhibitors Bound To Eif4E.
Mol. Cell V. 57 1074 2015
PubMed-ID: 25702871  |  Reference-DOI: 10.1016/J.MOLCEL.2015.01.017

(-) Compounds

Molecule 1 - EUKARYOTIC TRANSLATION INITIATION FACTOR 4E
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETMCN (PNEA)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: STAR
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 80-259
    Organism Common: FRUIT FLY
    Organism Scientific: DROSOPHILA MELANOGASTER
    Organism Taxid: 7227
    Synonym: EIF4E, EIF-4F 25 KDA SUBUNIT, MRNA CAP-BINDING PROTEIN
 
Molecule 2 - EUKARYOTIC TRANSLATION INITIATION FACTOR 4E TRANSPORTER
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETMCN (PNEA)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: STAR
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 9-44
    Organism Common: FRUIT FLY
    Organism Scientific: DROSOPHILA MELANOGASTER
    Organism Taxid: 7227

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4UE9)

(-) Sites  (0, 0)

(no "Site" information available for 4UE9)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4UE9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4UE9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4UE9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4UE9)

(-) Exons   (0, 0)

(no "Exon" information available for 4UE9)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:174
                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeeeeeeee.........eeeeeeeeehhhhhhhhhh...........eeeeee...............eeeeeee.......hhhhhhhhhhhhh.........eeeeeeee....eeeeeee.....hhhhhhhhhhhhhhh........eeeehhhh.......ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ue9 A  69 KHPLMNVWTLWYLENDRSWEDMQNEITSFDTVEDFWSLYNHIKPPSEIKLGSDYSLFKKNIRPMWEDAANKQGGRWVITLNKSSKTDLDNLWLDVLLCLIGEAFDHSDQICGAVINIRGKSNKISIWTADGNNEEAALEIGHKLRDALRLGRNNSLQYQLHKDTMVNVKSIYTL 248
                                    78      ||90       100       110       120       130       140       150       160       170       180       190       200       210       220       230     ||244    
                                           85|                                                                                                                                                 236|       
                                            88                                                                                                                                                  241       


Chain B from PDB  Type:PROTEIN  Length:36
                                                                    
               SCOP domains ------------------------------------ SCOP domains
               CATH domains ------------------------------------ CATH domains
               Pfam domains ------------------------------------ Pfam domains
         Sec.struct. author ......hhhhhhh....................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------ PROSITE
                 Transcript ------------------------------------ Transcript
                 4ue9 B   6 PHMRYSKVDLLALRYEGKSRQCSTRLELQTLGFWKI  44
                                    15        25|       38      
                                              25|               
                                               29
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4UE9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4UE9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4UE9)

(-) Gene Ontology  (38, 40)

Asymmetric/Biological Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric/Biological Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 4ue9)
 
  Sites
(no "Sites" information available for 4ue9)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 4ue9)
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  4ue9
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  IF4E_DROME | P48598
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
  Q8IH18_DROME | Q8IH18
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  IF4E_DROME | P48598
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)
  Q8IH18_DROME | Q8IH18
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        IF4E_DROME | P48598: 4axg 4ue8 4uea 4ueb 4uec 5abu 5abv 5t47 5t48

(-) Related Entries Specified in the PDB File

4ue8 COMPLEX OF D. MELANOGASTER EIF-4E WITH THE 4E BINDING PROTEIN THOR
4uea COMPLEX OF D. MELANOGASTER EIF-4E WITH A DESIGNED 4E BINDING PROTEIN (FORM I)
4ueb COMPLEX OF D. MELANOGASTER EIF-4E WITH A DESIGNED 4E BINDING PROTEIN (FORM II)
4uec COMPLEX OF D. MELANOGASTER EIF-4E WITH EIF-4G AND CAP ANALOG
4ued COMPLEX OF HUMAN EIF-4E WITH THE 4E BINDING PROTEIN 4E-BP1