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(-) Description

Title :  STRUCTURAL GENOMICS, THE CRYSTAL STRUCTURE OF A PUTATIVE TRANSCRIPTIONAL REPRESSOR (TETR/ACRR FAMILY) FROM SALMONELLA TYPHIMURIM LT2
 
Authors :  R. Zhang, M. Zhou, F. Collart, A. Joachimiak, Midwest Center For Str Genomics (Mcsg)
Date :  23 Apr 04  (Deposition) - 03 Aug 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Transcriptional Repressor, Tetr/Ccrr Family, Helix Turn Helix Dna Binding Domain, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Zhang, M. Zhou, F. Collart, A. Joachimiak
The Crystal Structure Of A Putative Transcriptional Repressor (Tetr/Acrr Family) From Salmonella Typhimurium
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE TRANSCRIPTIONAL REPRESSOR (TETR/ACRR FAMILY)
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PDM68
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: YBIH
    Organism Scientific: SALMONELLA TYPHIMURIUM
    Organism Taxid: 99287
    Strain: LT2

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1T33)

(-) Sites  (0, 0)

(no "Site" information available for 1T33)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1T33)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1T33)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1T33)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1T33)

(-) Exons   (0, 0)

(no "Exon" information available for 1T33)

(-) 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:220
 aligned with Q8ZQN9_SALTY | Q8ZQN9 from UniProtKB/TrEMBL  Length:224

    Alignment length:220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220
         Q8ZQN9_SALTY     1 MNIPTTTTKGEQAKSQLIAAALAQFGEYGLHATTRDIAALAGQNIAAITYYFGSKEDLYLACAQWIADFLGEKFRPHAEKAERLFSQPAPDRDAIRELILLACKNMIMLLTQEDTVNLSKFISREQLSPTSAYQLVHEQVIDPLHTHLTRLVAAYTGCDANDTRMILHTHALLGEVLAFRLGKETILLRTGWPQFDEEKAELIYQTVTCHIDLILHGLTQ 220
               SCOP domains d1t33a1 A:1-88 Putative transcriptional repressor YbiH                                  d1t33a2 A:89-220 Putative transcriptional repressor YbiH                                                                             SCOP domains
               CATH domains 1t33A01 A:1-62 Homeodomain-like                               1t33A02 A:63-220 Tetracycline Repressor, domain 2                                                                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1t33 A   1 MNIPTTTTKGEQAKSQLIAAALAQFGEYGLHATTRDIAALAGQNIAAITYYFGSKEDLYLACAQWIADFLGEKFRPHAEKAERLFSQPAPDRDAIRELILLACKNMIMLLTQEDTVNLSKFISREQLSPTSAYQLVHEQVIDPLHTHLTRLVAAYTGCDANDTRMILHTHALLGEVLAFRLGKETILLRTGWPQFDEEKAELIYQTVTCHIDLILHGLTQ 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220


Chain B from PDB  Type:PROTEIN  Length:214
 aligned with Q8ZQN9_SALTY | Q8ZQN9 from UniProtKB/TrEMBL  Length:224

    Alignment length:214
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216    
         Q8ZQN9_SALTY     7 TTKGEQAKSQLIAAALAQFGEYGLHATTRDIAALAGQNIAAITYYFGSKEDLYLACAQWIADFLGEKFRPHAEKAERLFSQPAPDRDAIRELILLACKNMIMLLTQEDTVNLSKFISREQLSPTSAYQLVHEQVIDPLHTHLTRLVAAYTGCDANDTRMILHTHALLGEVLAFRLGKETILLRTGWPQFDEEKAELIYQTVTCHIDLILHGLTQ 220
               SCOP domains d1t33b1 B:7-88 Putative transcriptional repressor YbiH                            d1t33b2 B:89-220 Putative transcriptional repressor YbiH                                                                             SCOP domains
               CATH domains 1t33B01 B:7-62 Homeodomain-like                         1t33B02 B:63-220 Tetracycline Repressor, domain 2                                                                                                              CATH domains
           Pfam domains (1) ----------TetR_N-1t33B01 B:17-62                        --------------------------------DUF1956-1t33B03 B:95-218                                                                                                    -- Pfam domains (1)
           Pfam domains (2) ----------TetR_N-1t33B02 B:17-62                        --------------------------------DUF1956-1t33B04 B:95-218                                                                                                    -- Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1t33 B   7 TTKGEQAKSQLIAAALAQFGEYGLHATTRDIAALAGQNIAAITYYFGSKEDLYLACAQWIADFLGEKFRPHAEKAERLFSQPAPDRDAIRELILLACKNMIMLLTQEDTVNLSKFISREQLSPTSAYQLVHEQVIDPLHTHLTRLVAAYTGCDANDTRMILHTHALLGEVLAFRLGKETILLRTGWPQFDEEKAELIYQTVTCHIDLILHGLTQ 220
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (2, 4)

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

(-) CATH Domains  (2, 4)

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

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Clan: HTH (544)
(-)
Clan: TetR_C (33)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q8ZQN9_SALTY | Q8ZQN9)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0003700    transcription factor activity, sequence-specific DNA binding    Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
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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  1t33
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 Related Entries

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