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(-) Description

Title :  THE STRUCTURE OF PROTOZOAN PARASITE TRICHOMONAS VAGINALIS MYB2 IN COMPLEX WITH MRE-2F-13 DNA
 
Authors :  I. Jiang, C. K. Tsai, S. C. Chen, S. H. Wang, I. Amiraslanov, C. F. Chang, W J. H. Tai, Y. C. Liaw, T. H. Huang
Date :  09 Sep 10  (Deposition) - 03 Aug 11  (Release) - 28 Aug 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.03
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  D,E,F  (1x)
Keywords :  Transcription-Dna Complex, Myb2, R2R3 Domain, Dna Binding Protein, Transcription Factor, Nucleus (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  I. Jiang, C. K. Tsai, S. C. Chen, S. H. Wang, I. Amiraslanov, C. F. Chang, W. J. Wu, J. H. Tai, Y. C. Liaw, T. H. Huang
Molecular Basis Of The Recognition Of The Ap65-1 Gene Transcription Promoter Elements By A Myb Protein From The Protozoan Parasite Trichomonas Vaginalis.
Nucleic Acids Res. V. 39 8992 2011
PubMed-ID: 21771861  |  Reference-DOI: 10.1093/NAR/GKR558

(-) Compounds

Molecule 1 - MYB21
    ChainsA, D
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET-22B(+)
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentMYB2 R2R3 DOMAIN
    GeneTVAG_211210
    Organism ScientificTRICHOMONAS VAGINALIS
    Organism Taxid5722
    SynonymMYB-LIKE DNA-BINDING DOMAIN CONTAINING PROTEIN
 
Molecule 2 - 5'-D(*CP*TP*GP*TP*AP*TP*CP*GP*TP*CP*TP*TP*G)-3'
    ChainsB, E
    EngineeredYES
    SynonymMRE-2F
    SyntheticYES
 
Molecule 3 - 5'-D(*CP*AP*AP*GP*AP*CP*GP*AP*TP*AP*CP*AP*G)-3'
    ChainsC, F
    EngineeredYES
    SynonymMRE-2F
    SyntheticYES

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1IPA1Ligand/IonISOPROPYL ALCOHOL
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1IPA1Ligand/IonISOPROPYL ALCOHOL
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1IPA-1Ligand/IonISOPROPYL ALCOHOL

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:100 , THR A:101 , ARG D:62BINDING SITE FOR RESIDUE IPA A 1

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3OSF)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3OSF)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3OSF)

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 3OSF)

(-) 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:103
 aligned with Q58HP3_TRIVA | Q58HP3 from UniProtKB/TrEMBL  Length:179

    Alignment length:103
                                    57        67        77        87        97       107       117       127       137       147   
         Q58HP3_TRIVA    48 KKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYLAPSISHTPWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVTISNKLGI 150
               SCOP domains d3osfa1 A:48-96 automated matches                d3osfa2 A:97-150 automated matches                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhh.hhhhhhh.....hhhhhhhhhhhh..........hhhhhhhhhhhhhhhh.hhhhhhh.....hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 3osf A  48 KKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYLAPSISHTPWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVTISNKLGI 150
                                    57        67        77        87        97       107       117       127       137       147   

Chain B from PDB  Type:DNA  Length:13
                                             
                 3osf B   1 CTGTATCGTCTTG  13
                                    10   

Chain C from PDB  Type:DNA  Length:13
                                             
                 3osf C   1 CAAGACGATACAG  13
                                    10   

Chain D from PDB  Type:PROTEIN  Length:103
 aligned with Q58HP3_TRIVA | Q58HP3 from UniProtKB/TrEMBL  Length:179

    Alignment length:103
                                    57        67        77        87        97       107       117       127       137       147   
         Q58HP3_TRIVA    48 KKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYLAPSISHTPWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVTISNKLGI 150
               SCOP domains d3osfd1 D:48-96 automated matches                d3osfd2 D:97-150 automated matches                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhh.hhhhhhh.....hhhhhhhhhhhh..........hhhhhhhhhhhhhhhh.hhhhhhh.....hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 3osf D  48 KKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYLAPSISHTPWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVTISNKLGI 150
                                    57        67        77        87        97       107       117       127       137       147   

Chain E from PDB  Type:DNA  Length:13
                                             
                 3osf E   1 CTGTATCGTCTTG  13
                                    10   

Chain F from PDB  Type:DNA  Length:13
                                             
                 3osf F   1 CAAGACGATACAG  13
                                    10   

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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 4)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OSF)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3OSF)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,D   (Q58HP3_TRIVA | Q58HP3)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).

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 Related Entries

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

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        Q58HP3_TRIVA | Q58HP33osg

(-) Related Entries Specified in the PDB File

3osg