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(-) Description

Title :  PUTATIVE XRE FAMILY TRANSCRIPTIONAL REGULATOR
 
Authors :  Y. Kim, A. Joachimiak, E. Evdokimova, O. Kagan, A. Edwards, A. Savchenk Center For Structural Genomics (Mcsg)
Date :  30 Nov 06  (Deposition) - 02 Jan 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.83
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Alpha-Beta, Helix-Turn-Helix, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Kim, E. Evdokimova, O. Kagan, A. Edwards, A. Savchenko, A. Joachimiak
The Crystal Structure Of Putative Xre Family Transcriptiona Regulator
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: MODIFIED PET
    Expression System Strain: BL21DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: RPA3824
    Organism Scientific: RHODOPSEUDOMONAS PALUSTRIS
    Organism Taxid: 258594
    Strain: CGA009
    Synonym: UNCHARACTERIZED CONSERVED SMALL PROTEIN COG560

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1ACY3Ligand/IonACETIC ACID
2MSE3Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:44 , ASP A:48 , TYR A:74 , ARG B:60BINDING SITE FOR RESIDUE ACY A 201
2AC2SOFTWAREALA A:56 , ALA A:59 , ARG A:60 , TYR B:41 , ASN B:44 , ASP B:48 , TYR B:74BINDING SITE FOR RESIDUE ACY B 201
3AC3SOFTWAREILE A:99 , ALA B:42 , VAL B:46 , ARG B:49 , GLN B:93 , ALA B:115 , HOH B:226BINDING SITE FOR RESIDUE ACY B 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2O38)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2O38)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2O38)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2O38)

(-) Exons   (0, 0)

(no "Exon" information available for 2O38)

(-) 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:89
 aligned with Q6N370_RHOPA | Q6N370 from UniProtKB/TrEMBL  Length:116

    Alignment length:89
                                    37        47        57        67        77        87        97       107         
         Q6N370_RHOPA    28 PDAEERQTKLRLAYALNAVIDRARLSQAAAAARLGINQPKVSALRNYKLEGFSVERLMTLLNALDQDVEIVIRKKPRSRAAARISVVAA 116
               SCOP domains d2o38a1 A:28-116 Hypothetical protein RPA3824                                             SCOP domains
               CATH domains 2o38A01 A:28-92 lambda repressor-like DNA-binding domains        ------------------------ CATH domains
               Pfam domains ----------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh.hhhhhhhhhh......hhhhhhhhhhhh.eeeeeeeee.........eeeeee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------- Transcript
                 2o38 A  28 PDAEERQTKLRLAYALNAVIDRARLSQAAAAARLGINQPKVSALRNYKLEGFSVERLmTLLNALDQDVEIVIRKKPRSRAAARISVVAA 116
                                    37        47        57        67        77       |87        97       107         
                                                                                    85-MSE                           


Chain B from PDB  Type:PROTEIN  Length:90
 aligned with Q6N370_RHOPA | Q6N370 from UniProtKB/TrEMBL  Length:116

    Alignment length:90
                                    36        46        56        66        76        86        96       106       116
         Q6N370_RHOPA    27 MPDAEERQTKLRLAYALNAVIDRARLSQAAAAARLGINQPKVSALRNYKLEGFSVERLMTLLNALDQDVEIVIRKKPRSRAAARISVVAA 116
               SCOP domains d2o38b_ B: Hypothetical protein RPA3824                                                    SCOP domains
               CATH domains -2o38B01 B:28-92 lambda repressor-like DNA-binding domains        ------------------------ CATH domains
           Pfam domains (1) HTH_37-2o38B01 B:27-100                                                   ---------------- Pfam domains (1)
           Pfam domains (2) HTH_37-2o38B02 B:27-100                                                   ---------------- Pfam domains (2)
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh.hhhhhhhhhh......hhhhhhhhhhhh.eeeeeeeee.........eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------ Transcript
                 2o38 B  27 mPDAEERQTKLRLAYALNAVIDRARLSQAAAAARLGINQPKVSALRNYKLEGFSVERLmTLLNALDQDVEIVIRKKPRSRAAARISVVAA 116
                            |       36        46        56        66        76        86        96       106       116
                           27-MSE                                                    85-MSE
   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  (1, 2)

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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

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

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q6N370_RHOPA | Q6N370)
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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  2o38
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