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(-) Description

Title :  PUTATIVE SUGAR-BINDING DOMAIN OF TRANSCRIPTIONAL REGULATOR DEOR FROM PSEUDOMONAS SYRINGAE PV. TOMATO
 
Authors :  M. E. Cuff, E. Duggan, S. Clancy, A. Joachimiak, Midwest Center For S Genomics (Mcsg)
Date :  03 Sep 07  (Deposition) - 18 Sep 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Transcription Regulator, Sugar-Binding Domain, Structural Genomics, Pfam04198, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. E. Cuff, E. Duggan, S. Clancy, A. Joachimiak
Putative Sugar-Binding Domain Of Trancsriptional Regulator Deor From Pseudomonas Syringae Pv. Tomato.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - TRANSCRIPTIONAL REGULATOR, PUTATIVE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: DEOR, PSPTO_2395
    Organism Scientific: PSEUDOMONAS SYRINGAE PV. TOMATO
    Organism Taxid: 223283
    Strain: DC3000

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric/Biological Unit (2, 7)
No.NameCountTypeFull Name
1MSE5Mod. Amino AcidSELENOMETHIONINE
2SO42Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:120 , SER A:121 , THR A:122 , LYS A:289 , HOH A:330 , HOH A:382BINDING SITE FOR RESIDUE SO4 A 1
2AC2SOFTWAREHIS A:62 , GLU A:64 , LEU A:65 , ARG A:68 , ARG A:313BINDING SITE FOR RESIDUE SO4 A 2

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2R5F)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2R5F)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2R5F)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2R5F)

(-) Exons   (0, 0)

(no "Exon" information available for 2R5F)

(-) 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:218
 aligned with Q883G8_PSESM | Q883G8 from UniProtKB/TrEMBL  Length:317

    Alignment length:258
                                    68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308        
         Q883G8_PSESM    59 QGLHLELETRLQKMYGIRQVIVVEATEPDDEESIKQAIGSAAAHYLETSLSAQDHIGISSWSSTIRAMVSHMHPQPGKQSAQEVVQLLGGVGNKGAFEATLLTQRLATLLNCPAFLLPSQSIEQSVESKQRIVEMEEVKEVLHRFDSITLAIVGIGELEPSQLLRNSGNYYTEDMLRVLAERGAVGDICLRYFDAQGKPVLEEDEEFVVSMGLGKLRSINRVLGLAGGVRKVQAIKGALLGGYLDVLITDVGTARGLG 316
               SCOP domains d2r5fa1 A:59-316 Transcriptional regulator PSPTO2395                                                                                                                                                                                                               SCOP domains
               CATH domains 2r5fA00 A:59-316  [code=3.40.50.1360, no name defined]                                                                                                                                                                                                             CATH domains
               Pfam domains Sugar-bind-2r5fA01 A:59-315                                                                                                                                                                                                                                      - Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhh..eeeee......hhhhhhhhhhhhhhhhhhhhh....eeee...hhhhhhhhhh...--......eeee.ee...--hhhhhhhhhhhhhhhhh..ee....----------..hhhhhhhhhhhhhh....eeee..ee..-------------------.......eee..eee.......-------.ee.hhhhhhh..eeeee..hhhhhhhhhhhhhh....eeeeehhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2r5f A  59 QGLHLELETRLQKmYGIRQVIVVEATEPDDEESIKQAIGSAAAHYLETSLSAQDHIGISSWSSTIRAmVSHmHP--GKQSAQEVVQLLGGVG--GAFEATLLTQRLATLLNCPAFLLPS----------QRIVEmEEVKEVLHRFDSITLAIVGIGELE-------------------LAERGAVGDICLRYFDAQGKPV-------VVSmGLGKLRSINRVLGLAGGVRKVQAIKGALLGGYLDVLITDVGTARGLG 316
                                    68   |    78        88        98       108       118       128 | |  |138       148 |  |  158       168        |-       188    |  198       208        |-         -       238       248       258       268|      278       288       298       308        
                                        72-MSE                                               126-MSE |  |            150  |                     177        188    |                     217                 237                  258     266  |                                               
                                                                                                 130-MSE|               153                                     193-MSE                                                                     269-MSE                                           
                                                                                                   132  |                                                                                                                                                                                     
                                                                                                      135
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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, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: ISOCOT_Fold (53)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q883G8_PSESM | Q883G8)
molecular function
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
    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.

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