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(-) Description

Title :  CRYSTAL STRUCTURE OF THE PREDICTED DNA-BINDING TRANSCRIPTIONAL REGULATOR FROM E. COLI
 
Authors :  R. Zhang, E. Evdokimova, O. Kagan, A. Savchenko, A. M. Edwards, A. Joach Midwest Center For Structural Genomics (Mcsg)
Date :  16 Apr 08  (Deposition) - 17 Jun 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Dna-Binding Transcriptional Regulator, Structural Genomics, Psi, Mcsg, Protein Structure Initiative, Midwest Center For Structural Genomics, Transcription Regulation, Transcription Regulator (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Zhang, E. Evdokimova, O. Kagan, A. Savchenko, A. M. Edwards, A. Joachimiak
The Crystal Structure Of The Predicted Dna-Binding Transcriptional Regulator From E. Coli.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - UNCHARACTERIZED HTH-TYPE TRANSCRIPTIONAL REGULATOR YGAV
    Atcc: 47076
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Strain: BL21
    Expression System Vector Type: PLASMID
    Organism Scientific: ESCHERICHIA COLI K12
    Strain: K12 / MG1655

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3CUO)

(-) Sites  (0, 0)

(no "Site" information available for 3CUO)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 4)

Asymmetric Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_ARSR_2PS50987 ArsR-type HTH domain profile.YGAV_ECOLI7-99
 
 
 		  4A:7-98
B:7-98
C:7-97
D:7-96
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_ARSR_2PS50987 ArsR-type HTH domain profile.YGAV_ECOLI7-99
 
 
 		  2A:7-98
B:7-98
-
-
Biological Unit 2 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_ARSR_2PS50987 ArsR-type HTH domain profile.YGAV_ECOLI7-99
 
 
 		  2-
-
C:7-97
D:7-96

(-) Exons   (0, 0)

(no "Exon" information available for 3CUO)

(-) 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:98
 aligned with YGAV_ECOLI | P77295 from UniProtKB/Swiss-Prot  Length:99

    Alignment length:98
                                    10        20        30        40        50        60        70        80        90        
            YGAV_ECOLI    1 MTELAQLQASAEQAAALLKAMSHPKRLLILCMLSGSPGTSAGELTRITGLSASATSQHLARMRDEGLIDSQRDAQRILYSIKNEAVNAIIATLKNVYC 98
               SCOP domains -------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3cuoA00 A:1-98 'winged helix' repressor DNA binding domain                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh....eehhhhhhhhh.hhhhhhhhhhhhhhh..eeeee....eeeee.hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------HTH_ARSR_2  PDB: A:7-98 UniProt: 7-99                                                        PROSITE
                 Transcript -------------------------------------------------------------------------------------------------- Transcript
                  3cuo A  1 MTELAQLQASAEQAAALLKAMSHPKRLLILCMLSGSPGTSAGELTRITGLSASATSQHLARMRDEGLIDSQRDAQRILYSIKNEAVNAIIATLKNVYC 98
                                    10        20        30        40        50        60        70        80        90        


Chain B from PDB  Type:PROTEIN  Length:98
 aligned with YGAV_ECOLI | P77295 from UniProtKB/Swiss-Prot  Length:99

    Alignment length:98
                                    10        20        30        40        50        60        70        80        90        
            YGAV_ECOLI    1 MTELAQLQASAEQAAALLKAMSHPKRLLILCMLSGSPGTSAGELTRITGLSASATSQHLARMRDEGLIDSQRDAQRILYSIKNEAVNAIIATLKNVYC 98
               SCOP domains -------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3cuoB00 B:1-98 'winged helix' repressor DNA binding domain                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh.hhhhhhhhhhhh.hhhhhhhhhhhh....eehhhhhhhhh.hhhhhhhhhhhhhhh..eeeee....eeeee.hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------HTH_ARSR_2  PDB: B:7-98 UniProt: 7-99                                                        PROSITE
                 Transcript -------------------------------------------------------------------------------------------------- Transcript
                  3cuo B  1 MTELAQLQASAEQAAALLKAMSHPKRLLILCMLSGSPGTSAGELTRITGLSASATSQHLARMRDEGLIDSQRDAQRILYSIKNEAVNAIIATLKNVYC 98
                                    10        20        30        40        50        60        70        80        90        


Chain C from PDB  Type:PROTEIN  Length:95
 aligned with YGAV_ECOLI | P77295 from UniProtKB/Swiss-Prot  Length:99

    Alignment length:95
                                    12        22        32        42        52        62        72        82        92     
            YGAV_ECOLI    3 ELAQLQASAEQAAALLKAMSHPKRLLILCMLSGSPGTSAGELTRITGLSASATSQHLARMRDEGLIDSQRDAQRILYSIKNEAVNAIIATLKNVY 97
               SCOP domains ----------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3cuoC00 C:3-97 'winged helix' repressor DNA binding domain                                      CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhh.hhhhhhhhhhhhhhh...eeeee..eeeee..hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----HTH_ARSR_2  PDB: C:7-97 UniProt: 7-99                                                       PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                  3cuo C  3 ELAQLQASAEQAAALLKAMSHPKRLLILCMLSGSPGTSAGELTRITGLSASATSQHLARMRDEGLIDSQRDAQRILYSIKNEAVNAIIATLKNVY 97
                                    12        22        32        42        52        62        72        82        92     


Chain D from PDB  Type:PROTEIN  Length:94
 aligned with YGAV_ECOLI | P77295 from UniProtKB/Swiss-Prot  Length:99

    Alignment length:94
                                    12        22        32        42        52        62        72        82        92    
            YGAV_ECOLI    3 ELAQLQASAEQAAALLKAMSHPKRLLILCMLSGSPGTSAGELTRITGLSASATSQHLARMRDEGLIDSQRDAQRILYSIKNEAVNAIIATLKNV 96
               SCOP domains ---------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3cuoD00 D:3-96 'winged helix' repressor DNA binding domain                                     CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eehhhhhhhh..hhhhhhhhhhhhhhh..eeeeee..eeeeee.hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----HTH_ARSR_2  PDB: D:7-96 UniProt: 7-99                                                      PROSITE
                 Transcript ---------------------------------------------------------------------------------------------- Transcript
                  3cuo D  3 ELAQLQASAEQAAALLKAMSHPKRLLILCMLSGSPGTSAGELTRITGLSASATSQHLARMRDEGLIDSQRDAQRILYSIKNEAVNAIIATLKNV 96
                                    12        22        32        42        52        62        72        82        92
   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  (0, 0)

(no "SCOP Domain" information available for 3CUO)

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (YGAV_ECOLI | P77295)
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:0045892    negative regulation of transcription, DNA-templated    Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
    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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