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(-) Description

Title :  TRANSPOSASE TC3A1-65 FROM CAENORHABDITIS ELEGANS
 
Authors :  G. Van Pouderoyen, R. F. Ketting, A. Perrakis, R. H. A. Plasterk, T. K. Sixma
Date :  07 Jul 97  (Deposition) - 21 Nov 97  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.45
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Transposase, Dna Binding, Helix-Turn-Helix, Tc1/Mariner Family, Complex (Transposase/Dna), Dna Binding Protein/Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Van Pouderoyen, R. F. Ketting, A. Perrakis, R. H. Plasterk, T. K. Sixma
Crystal Structure Of The Specific Dna-Binding Domain Of Tc3 Transposase Of C. Elegans In Complex With Transposon Dna.
Embo J. V. 16 6044 1997
PubMed-ID: 9312061  |  Reference-DOI: 10.1093/EMBOJ/16.19.6044
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DNA (5'- D(*AP*GP*GP*GP*GP*GP*GP*GP*TP*CP*CP*TP*AP*TP*AP*GP*A P*AP*CP*TP*T)-3')
    Chains: A
    Engineered: YES
    Synthetic: YES
 
Molecule 2 - DNA (5'- D(*AP*GP*TP*TP*CP*TP*AP*TP*AP*GP*GP*AP*CP*CP*CP*CP*C P*CP*CP*T)-3')
    Chains: B
    Engineered: YES
    Synthetic: YES
 
Molecule 3 - PROTEIN (TC3 TRANSPOSASE)
    Chains: C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Cellular Location: CYTOPLASM
    Expression System Gene: TC3A N1-65
    Expression System Plasmid: PRP1200
    Expression System Strain: BL21 (DE3) PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PET3C
    Fragment: SPECIFIC DNA BINDING DOMAIN, RESIDUES 2 - 52
    Gene: TC3A
    Mutation: YES
    Organelle: NUCLEUS
    Organism Scientific: CAENORHABDITIS ELEGANS
    Organism Taxid: 6239
    Strain: BERGERAC
    Variant: TR679

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1TC3)

(-) Sites  (0, 0)

(no "Site" information available for 1TC3)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1TC3)

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1TC3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1TC3)

(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric/Biological Unit
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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:DNA  Length:21
                                                     
                 1tc3 A   1 AGGGGGGGTCCTATAGAACTT  21
                                    10        20 


Chain B from PDB  Type:DNA  Length:20
                                                    
                 1tc3 B 101 AGTTCTATAGGACCCCCCCT 120
                                   110       120


Chain C from PDB  Type:PROTEIN  Length:51
 aligned with TC3A_CAEEL | P34257 from UniProtKB/Swiss-Prot  Length:329

    Alignment length:51
                                    11        21        31        41        51 
           TC3A_CAEEL     2 PRGSALSDTERAQLDVMKLLNVSLHEMSRKISRSRHCIREYLKDPVSYGTS  52
               SCOP domains d1tc3c_ C: Transposase tc3a1-65                     SCOP domains
               CATH domains 1tc3C00 C:202-252 Homeodomain-like                  CATH domains
               Pfam domains -HTH_Tnp_Tc3_1-1tc3C01 C:203-252                    Pfam domains
         Sec.struct. author .......hhhhhhhhhhhh....hhhhhhhh...hhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------- Transcript
                 1tc3 C 202 PRGSALSDTERAQLDVMKLLNVSLHEMSRKISRSRHCIRVYLKDPVSYGTS 252
                                   211       221       231       241       251
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 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: HTH (544)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain C   (TC3A_CAEEL | P34257)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
    GO:0015074    DNA integration    The process in which a segment of DNA is incorporated into another, usually larger, DNA molecule such as a chromosome.
    GO:0006310    DNA recombination    Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Intrachromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.
    GO:0032502    developmental process    A biological process whose specific outcome is the progression of an integrated living unit: an anatomical structure (which may be a subcellular structure, cell, tissue, or organ), or organism over time from an initial condition to a later condition.
    GO:0006313    transposition, DNA-mediated    Any process involved in a type of transpositional recombination which occurs via a DNA intermediate.
cellular component
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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 Related Entries

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UniProtKB/Swiss-Prot
        TC3A_CAEEL | P34257: 1u78

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