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(-) Description

Title :  CRYSTAL STRUCTURE OF THE E2F5-DP1-P107 TERNARY COMPLEX
 
Authors :  T. J. Liban, S. M. Tripathi, S. M. Rubin
Date :  07 Nov 16  (Deposition) - 03 May 17  (Release) - 24 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  D,E,F  (1x)
Biol. Unit 3:  A,B,C,D,E,F  (1x)
Keywords :  Transcription Factor, Cell-Cycle Regulation, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. J. Liban, E. M. Medina, S. Tripathi, S. Sengupta, R. W. Henry, N. E. Buchler, S. M. Rubin
Conservation And Divergence Of C-Terminal Domain Structure In The Retinoblastoma Protein Family.
Proc. Natl. Acad. Sci. V. 114 4942 2017 U. S. A.
PubMed-ID: 28439018  |  Reference-DOI: 10.1073/PNAS.1619170114

(-) Compounds

Molecule 1 - TRANSCRIPTION FACTOR DP1
    Chains: A, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Fragment: UNP RESIDUES 199-350
    Gene: TFDP1, DP1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: DRTF1-POLYPEPTIDE 1,DRTF1,E2F DIMERIZATION PARTNER 1
 
Molecule 2 - TRANSCRIPTION FACTOR E2F5
    Chains: B, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Fragment: UNP RESIDUES 124-232
    Gene: E2F5
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: E2F-5
 
Molecule 3 - RETINOBLASTOMA-LIKE PROTEIN 1
    Chains: C, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Fragment: UNP RESIDUES 994-1031
    Gene: RBL1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: 107 KDA RETINOBLASTOMA-ASSOCIATED PROTEIN,P107,PRB1

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): ABC   
Biological Unit 2 (1x):    DEF
Biological Unit 3 (1x): ABCDEF

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5TUV)

(-) Sites  (0, 0)

(no "Site" information available for 5TUV)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Leu A:259 -Pro A:260
2Leu D:259 -Pro D:260

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5TUV)

(-) 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:107
                                                                                                                                            
               SCOP domains ----------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........ee..eeeeee.....eeeee......eeeee....eeeehhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                5tuv A  198 FAQECQNLEVERQRRLERIKQKQSQLQELILQQIAFKNLVQRNRHAEQQARPPPPNSVIHLPFIIVNTSKKTVIDCSISNDKFEYLFNFDNTFEIHDDIEVLKRMGM  305
                                   207       217       227       237       247|      258       268       278       288       298       
                                                                           247|                                                        
                                                                            249                                                        


Chain B from PDB  Type:PROTEIN  Length:104
                                                                                                                                         
               SCOP domains -------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eehhhhhhhhh...eeeeee.....eeeee........eeeeee.....eeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------- Transcript
                5tuv B  124 KEVIDRLRYLKAEIEDLELKERELDQQKLWLQQSIKNVMDDSINNRFSYVTHEDICNCFNGDTLLAIQAPSGTQLEVPIPEMGQKKYQINLKSHSGPIHVLLIN  230
                                   133       143       153       163       173       183       193       203  ||   216       226    
                                                                                                            206|                    
                                                                                                             210                    


Chain C from PDB  Type:PROTEIN  Length:29
                                                              
               SCOP domains ----------------------------- SCOP domains
               CATH domains ----------------------------- CATH domains
               Pfam domains ----------------------------- Pfam domains
         Sec.struct. author .eeeee....hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------- SAPs(SNPs)
                    PROSITE ----------------------------- PROSITE
                 Transcript ----------------------------- Transcript
                5tuv C 1000 SALLYKFNGSPSKSLKDINNMIRQGEQRT 1028
                                  1009      1019         


Chain D from PDB  Type:PROTEIN  Length:95
                                                                                                                                
               SCOP domains ----------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......eee...eeeee.....eeeee.....eeeeee...eeeeehhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                5tuv D  208 ERQRRLERIKQKQSQLQELILQQIAFKNLVQRNRHAEQPPPPNSVIHLPFIIVNTSKKTVIDCSISNDKFEYLFNFDNTFEIHDDIEVLKRMGMA  306
                                   217       227       237       251       261       271       281       291       301     
                                                               245|                                                        
                                                                250                                                        


Chain E from PDB  Type:PROTEIN  Length:103
                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhh.eeehhhhhhh....eeeeee.....eeee........eeeeee.....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                5tuv E  125 EVIDRLRYLKAEIEDLELKERELDQQKLWLQQSIKNVMDDSINNRFSYVTHEDICNCFNGDTLLAIQAPSGTQLEVPIPEMQKKYQINLKSHSGPIHVLLINK  231
                                   134       144       154       164       174       184       194       204||     218       228   
                                                                                                          205|                     
                                                                                                           210                     


Chain F from PDB  Type:PROTEIN  Length:24
                                                         
               SCOP domains ------------------------ SCOP domains
               CATH domains ------------------------ CATH domains
               Pfam domains ------------------------ Pfam domains
         Sec.struct. author .eeee.....hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------ SAPs(SNPs)
                    PROSITE ------------------------ PROSITE
                 Transcript ------------------------ Transcript
                5tuv F 1001 ALLYKFNGSPSKSLKDINNMIRQG 1024
                                  1010      1020
   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 5TUV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (31, 52)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Leu A:259 - Pro A:260   [ RasMol ]  
    Leu D:259 - Pro D:260   [ RasMol ]  
 
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  5tuv
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  E2F5_HUMAN | Q15329
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  RBL1_HUMAN | P28749
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    Genomic Information: Ensembl
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    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
  TFDP1_HUMAN | Q14186
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 Related Entries

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

UniProtKB/Swiss-Prot
        RBL1_HUMAN | P28749: 1h28 4yoo 4yos 4yoz
        TFDP1_HUMAN | Q14186: 2aze 5gow 5tuu

(-) Related Entries Specified in the PDB File

5tuu