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(-) Description

Title :  CRYSTAL STRUCTURE OF THE MITOCHONDRIAL DNA PACKAGING PROTEIN ABF2P IN COMPLEX WITH DNA AT 2.18 ANGSTROM RESOLUTION
 
Authors :  A. Chakraborty, S. Lyonnais, M. Sola
Date :  20 Apr 16  (Deposition) - 08 Feb 17  (Release) - 08 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.18
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Dna Binding Protein, Dna Packaging (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Chakraborty, S. Lyonnais, F. Battistini, A. Hospital, G. Medici, R. Prohens, M. Orozco, J. Vilardell, M. Sola
Dna Structure Directs Positioning Of The Mitochondrial Genome Packaging Protein Abf2P.
Nucleic Acids Res. V. 45 951 2017
PubMed-ID: 27899643  |  Reference-DOI: 10.1093/NAR/GKW1147

(-) Compounds

Molecule 1 - ARS-BINDING FACTOR 2, MITOCHONDRIAL
    Chains: A, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: PLYS
    Fragment: UNP RESIDUES 27-183
    Gene: ABF2, HIM1, YMR072W, YM9916.11
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / S288C)
    Organism Taxid: 559292
    Other Details: YEAST MITOCHONDRIAL DNA PACKAGING PROTEIN
 
Molecule 2 - DNA (5'- D(*AP*AP*TP*AP*AP*TP*AP*AP*AP*TP*TP*AP*TP*AP*TP*AP*AP*TP*AP*TP*AP*A)- 3')
    Chains: B, E
    Engineered: YES
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Synthetic: YES
 
Molecule 3 - DNA (5'- D(*TP*TP*AP*TP*AP*TP*TP*AP*TP*AP*TP*AP*AP*TP*TP*TP*AP*TP*TP*AP*TP*T)- 3')
    Chains: C, F
    Engineered: YES
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Other Details: DNA
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5JH0)

(-) Sites  (0, 0)

(no "Site" information available for 5JH0)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5JH0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5JH0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5JH0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5JH0)

(-) Exons   (0, 0)

(no "Exon" information available for 5JH0)

(-) 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:156
                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5jh0 A  27 KASKRTQLRNELIKQGPKRPTSAYFLYLQDHRSQFVKENPTLRPAEISKIAGEKWQNLEADIKEKYISERKKLYSEYQKAKKEFDEKLPPKKPAGPFIKYANEVRSQVFAQHPDKSQLDLMKIIGDKWQSLDQSIKDKYIQEYKKAIQEYNARYPL 182
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176      


Chain B from PDB  Type:DNA  Length:22
                                                      
                 5jh0 B   1 AATAATAAATTATATAATATAA  22
                                    10        20  


Chain C from PDB  Type:DNA  Length:22
                                                      
                 5jh0 C   1 TTATATTATATAATTTATTATT  22
                                    10        20  


Chain D from PDB  Type:PROTEIN  Length:157
                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5jh0 D  -1 HHKASKRTQLRNELIKQGPKRPTSAYFLYLQDHRSQFVKENPTLRPAEISKIAGEKWQNLEADIKEKYISERKKLYSEYQKAKKEFDEKLPPKKPAGPFIKYANEVRSQVFAQHPDKSQLDLMKIIGDKWQSLDQSIKDKYIQEYKKAIQEYNARYP 181
                             ||     34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       
                             0|                                                                                                                                                          
                             27                                                                                                                                                          


Chain E from PDB  Type:DNA  Length:22
                                                      
                 5jh0 E   1 AATAATAAATTATATAATATAA  22
                                    10        20  


Chain F from PDB  Type:DNA  Length:22
                                                      
                 5jh0 F   1 TTATATTATATAATTTATTATT  22
                                    10        20
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  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 5JH0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5JH0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5JH0)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

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  5jh0
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  ABF2_YEAST | Q02486
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 Related Entries

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        ABF2_YEAST | Q02486: 5jgh

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