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(-) Description

Title :  THE N-TERMINAL DOMAIN OF MERR-LIKE PROTEIN TIPAL BOUND TO PROMOTER DNA
 
Authors :  M. G. Allan, J. Stetefeld, T. Schirmer
Date :  30 Jul 08  (Deposition) - 17 Nov 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Transcription, Resistance, Antibiotic, Dna-Binding, Streptomyces, Transcription Factor, Alternative Initiation, Transcription Regulation, Dna, Merr, Drug, Tipal, Tipan, Tipas, Activator (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. G. Allan, K. J. Newberry, J. Schuman, R. G. Brennan, J. Stetefeld, S. Grzesiek, T. Schirmer
Structure Of The Transcriptionally Inactive Merr Domain Tipan In Complex With Dna
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HTH-TYPE TRANSCRIPTIONAL ACTIVATOR TIPA
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: MODIFIED PET22B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: DNA-BINDING DOMAIN TIPAN, RESIDUES 2-109
    Organism Scientific: STREPTOMYCES LIVIDANS
    Organism Taxid: 1916
    Synonym: TIPAL
 
Molecule 2 - 5'-D(*CP*TP*CP*CP*TP*CP*AP*CP*GP*TP *CP*AP*CP*GP*TP*GP*AP*GP*GP*TP*G)-3'
    Chains: B
    Organism Scientific: STREPTOMYCES LIVIDANS
    Organism Taxid: 1916
    Synonym: TIPA PROMOTER
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

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

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 Sequence-Structure Mapping

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(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_MERR_1PS00552 MerR-type HTH domain signature.TIPA_STRLI6-28  1A:6-28
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_MERR_1PS00552 MerR-type HTH domain signature.TIPA_STRLI6-28  2A:6-28

(-) Exons   (0, 0)

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(-) Sequences/Alignments

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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:100
 aligned with TIPA_STRLI | P0A4T9 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:105
                                    11        21        31        41        51        61        71        81        91       101     
           TIPA_STRLI     2 SYSVGQVAGFAGVTVRTLHHYDDIGLLVPSERSHAGHRRYSDADLDRLQQILFYRELGFPLDEVAALLDDPAADPRAHLRRQHELLSARIGKLQKMAAAVEQAME 106
               SCOP domains d2vz4a_ A: automated matches                                                                              SCOP domains
               CATH domains 2vz4A00 A:2-106  [code=1.10.1660.10, no name defined]                                                     CATH domains
               Pfam domains --MerR-2vz4A01 A:4-41                   ----MerR-DNA-bind-2vz4A02 A:46     -104                        -- Pfam domains
         Sec.struct. author ..hhhhhhhhhh.hhhhhhhhhhh......ee.....ee.hhhhhhhhhhhhhhhhh..hhhhhhhhhh.-----.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----HTH_MERR_1  PDB: A:6-28------------------------------------------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 2vz4 A   2 SYSVGQVAGFAGVTVRTLHHYDDIGLLVPSERSHAGHRRYSDADLDRLQQILFYRELGFPLDEVAALLDD-----RAHLRRQHELLSARIGKLQKMAAAVEQAME 106
                                    11        21        31        41        51        61        71     |  81        91       101     
                                                                                                71    77                             


Chain B from PDB  Type:DNA  Length:21
                                                     
                 2vz4 B -11 CTCCTCACGTCACGTGAGGTG  11
                                    -2|       10 
                                    -2|          
                                      1
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 Classification and Annotation

(-) SCOP Domains  (1, 1)

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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (2, 2)

Asymmetric Unit
(-)
Clan: HTH (544)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (TIPA_STRLI | P0A4T9)
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:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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 Related Entries

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

UniProtKB/Swiss-Prot
        TIPA_STRLI | P0A4T9: 1ny9 2mbz 2mc0

(-) Related Entries Specified in the PDB File

1ny9 ANTIBIOTIC BINDING DOMAIN OF A TIPA-CLASS MULTIDRUGRESISTANCE TRANSCRIPTIONAL REGULATOR