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(-) Description

Title :  COMPLEX OF C. ELEGANS EIF4E-3 WITH THE 4E-BINDING PROTEIN MEXTLI
 
Authors :  D. Peter, O. Weichenrieder
Date :  09 Aug 15  (Deposition) - 02 Sep 15  (Release) - 23 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Keywords :  Translation, Gene Regulation, Cap Binding Protein, 4E Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Peter, R. Weber, C. Koene, M. -Y. Chung, L. Ebertsch, V. Truffault, O. Weichenrieder, C. Igreja, E. Izaurralde
Mextli Proteins Use Both Canonical Bipartite And Novel Tripartite Binding Modes To Form Eif4E Complexes That Display Differential Sensitivity To 4E-Bp Regulation
Genes Dev. V. 29 1835 2015
PubMed-ID: 26294658  |  Reference-DOI: 10.1101/GAD.269068.115

(-) Compounds

Molecule 1 - EUKARYOTIC TRANSLATION INITIATION FACTOR 4E-3
    Chains: A, C, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETMCN (PNYC)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: STAR
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 30-215
    Organism Common: ROUNDWORM
    Organism Scientific: CAENORHABDITIS ELEGANS
    Organism Taxid: 6239
    Synonym: EIF-4E-3, EIF4E-3, EIF-4F 25 KDA SUBUNIT, MRNA CAP-BINDING PROTEIN
 
Molecule 2 - 4E-BINDING PROTEIN MEXTLI
    Chains: B, D, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: STAR
    Expression System Vector: PETMCN (PNEA)
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 471-507
    Organism Common: ROUNDWORM
    Organism Scientific: CAENORHABDITIS ELEGANS
    Organism Taxid: 6239

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): AB    
Biological Unit 2 (1x):   CD  
Biological Unit 3 (1x):     EF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric Unit (2, 5)
No.NameCountTypeFull Name
1GOL3Ligand/IonGLYCEROL
2MG2Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP C:113 , HOH C:2073 , HOH C:2077 , HOH C:2117BINDING SITE FOR RESIDUE MG C1216
2AC2SOFTWAREARG A:107 , HIS A:198 , HOH A:2064 , HOH A:2076BINDING SITE FOR RESIDUE GOL A1216
3AC3SOFTWAREASP C:85 , TYR C:87 , PRO C:95 , ASN C:153 , TRP C:164 , HOH C:2062 , HOH C:2070BINDING SITE FOR RESIDUE GOL C1217
4AC4SOFTWARETRP E:51 , TYR E:87 , PRO E:95 , MET E:96 , ASN E:153 , HOH E:2049 , HOH E:2055 , HOH E:2064BINDING SITE FOR RESIDUE GOL E1216
5AC5SOFTWAREGLU C:98BINDING SITE FOR RESIDUE MG C1218

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5ABY)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5ABY)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5ABY)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5ABY)

(-) Exons   (0, 0)

(no "Exon" information available for 5ABY)

(-) Sequences/Alignments

Asymmetric 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:179
                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeee...........eeeeeeeeehhhhhhhhhh...........eeeeee...............eeeeeee....hhhhhhhhhhhhhhhhhhhh..........eeeeeee.....eeeeeee.....hhhhhhhhhhhhhh........eeeeehhhh....eee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5aby A  30 TRHPLQNRWALWYLKADRNKEWEDCLKMVSLFDTVEDFWSLYNHIQSAGGLNWGSDYYLFKEGIKPMWEDVNNVQGGRWLVVVDKQKLQRRTQLLDHYWLELLMAIVGEQFDEYGDYICGAVVNVRQKGDKVSLWTRDATRDDVNLRIGQVLKQKLSIPDTEILRYEVHKDSSKPRICL 215
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199  ||     
                                                                                                                                                                                                      202|     
                                                                                                                                                                                                       210     


Chain B from PDB  Type:PROTEIN  Length:39
                                                                       
               SCOP domains --------------------------------------- SCOP domains
               CATH domains --------------------------------------- CATH domains
               Pfam domains --------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhh.......hhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------- PROSITE
                 Transcript --------------------------------------- Transcript
                 5aby B 469 HMIRYNRDTLMTARDTKRAPIPDEMLQEINRVAPDILIA 507
                                   478       488       498         


Chain C from PDB  Type:PROTEIN  Length:181
                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeeeee.......hhhheeeeeeeeehhhhhhhhhh...........eeeeee...............eeeeeee....hhhhhhhhhhhhhhhhhhhh..........eeeeeee.....eeeeeee.....hhhhhhhhhhhhhh........eeeee.........eee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5aby C  29 MTRHPLQNRWALWYLKADRNKEWEDCLKMVSLFDTVEDFWSLYNHIQSAGGLNWGSDYYLFKEGIKPMWEDVNNVQGGRWLVVVDKQKLQRRTQLLDHYWLELLMAIVGEQFDEYGDYICGAVVNVRQKGDKVSLWTRDATRDDVNLRIGQVLKQKLSIPDTEILRYEVHKDSSVKPRICL 215
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198   ||  214 
                                                                                                                                                                                                       202|      
                                                                                                                                                                                                        209      


Chain D from PDB  Type:PROTEIN  Length:39
                                                                       
               SCOP domains --------------------------------------- SCOP domains
               CATH domains --------------------------------------- CATH domains
               Pfam domains --------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhh.......hhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------- PROSITE
                 Transcript --------------------------------------- Transcript
                 5aby D 469 HMIRYNRDTLMTARDTKRAPIPDEMLQEINRVAPDILIA 507
                                   478       488       498         


Chain E from PDB  Type:PROTEIN  Length:178
                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeee.......hhhheeeeeeeeehhhhhhhhhh...........eeeeee...............eeeeeee....hhhhhhhhhhhhhhhhhhhh..........eeeeeee.....eeeeeee.....hhhhhhhhhhhhhhh.......eeeee.......eee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5aby E  30 TRHPLQNRWALWYLKADRNKEWEDCLKMVSLFDTVEDFWSLYNHIQSAGGLNWGSDYYLFKEGIKPMWEDVNNVQGGRWLVVVDKQKLQRRTQLLDHYWLELLMAIVGEQFDEYGDYICGAVVNVRQKGDKVSLWTRDATRDDVNLRIGQVLKQKLSIPDTEILRYEVHKDSKPRICL 215
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199 ||     
                                                                                                                                                                                                     201|     
                                                                                                                                                                                                      210     


Chain F from PDB  Type:PROTEIN  Length:39
                                                                       
               SCOP domains --------------------------------------- SCOP domains
               CATH domains --------------------------------------- CATH domains
               Pfam domains --------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhh.......hhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------- PROSITE
                 Transcript --------------------------------------- Transcript
                 5aby F 468 PHMIRYNRDTLMTARDTKRAPIPDEMLQEINRVAPDILI 506
                                   477       487       497
   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 5ABY)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5ABY)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5ABY)

(-) Gene Ontology  (14, 20)

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  5aby
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 Related Entries

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

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        IF4E3_CAEEL | O61955: 5abx
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(-) Related Entries Specified in the PDB File

5abu COMPLEX OF D. MELANOGASTER EIF4E WITH THE 4E-BINDING PROTEIN MEXTLI AND CAP ANALOG
5abv COMPLEX OF D. MELANOGASTER EIF4E WITH THE 4E-BINDING PROTEIN MEXTLI
5abx COMPLEX OF C. ELEGANS EIF4E-3 WITH THE 4E-BINDING PROTEIN MEXTLI AND CAP ANALOG