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(-) Description

Title :  CRYSTAL STRUCTURE OF THE LIGAND-BINDING DOMAIN OF A PUTATIVE GNTR-FAMILY TRANSCRIPTIONAL REGULATOR FROM BORDETELLA BRONCHISEPTICA
 
Authors :  M. D. Zimmerman, X. Xu, H. Cui, E. V. Filippova, A. Savchenko, A. M. Edwar A. Joachimiak, W. Minor, Midwest Center For Structural Genomics
Date :  26 Mar 08  (Deposition) - 29 Apr 08  (Release) - 05 Oct 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Structural Genomics, Gntr, Transcriptional Regulator, Bordetella Bronchiseptica, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Dna-Binding, Transcription Regulation, Transcription Regulator (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. D. Zimmerman, X. Xu, H. Cui, E. V. Filippova, A. Savchenko, A. M. Edwards, W. Minor
Structure Of The Ligand-Binding Domain Of A Putative Gntr-Family Transcriptional Regulator From Bordetella Bronchiseptica.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE GNTR-FAMILY TRANSCRIPTIONAL REGULATOR
    Atcc: BAA-588
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: P15TV LIC
    Expression System Strain: BL21(DE3)GOLD
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: PLEASE SEE INFORMATION PROVIDED IN REMARK 999
    Gene: BB3683
    Organism Scientific: BORDETELLA BRONCHISEPTICA RB50
    Organism Taxid: 257310
    Strain: RB50 / NCTC 13252

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 25)

Asymmetric/Biological Unit (3, 25)
No.NameCountTypeFull Name
1CL5Ligand/IonCHLORIDE ION
2FLC4Ligand/IonCITRATE ANION
3MSE16Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:99 , TYR A:100 , ARG A:101 , PHE A:102 , LEU A:103 , ARG A:149 , PRO A:184 , LEU A:185 , TYR A:186 , ARG A:243BINDING SITE FOR RESIDUE FLC A 301
2AC2SOFTWAREARG B:99 , TYR B:100 , ARG B:101 , PHE B:102 , LEU B:103 , ARG B:149 , PRO B:184 , LEU B:185 , TYR B:186 , ARG B:243BINDING SITE FOR RESIDUE FLC B 301
3AC3SOFTWAREARG C:99 , TYR C:100 , ARG C:101 , PHE C:102 , LEU C:103 , ARG C:149 , PRO C:184 , LEU C:185 , TYR C:186 , ARG C:243BINDING SITE FOR RESIDUE FLC C 301
4AC4SOFTWAREARG D:99 , TYR D:100 , ARG D:101 , PHE D:102 , LEU D:103 , ARG D:149 , PRO D:184 , LEU D:185 , TYR D:186 , ARG D:243BINDING SITE FOR RESIDUE FLC D 301
5AC5SOFTWAREARG B:119 , ILE C:120BINDING SITE FOR RESIDUE CL B 1
6AC6SOFTWAREILE B:120 , ARG C:119BINDING SITE FOR RESIDUE CL C 2
7AC7SOFTWAREASN B:259 , ASN D:259BINDING SITE FOR RESIDUE CL B 3
8AC8SOFTWAREASN A:259 , ASN C:259BINDING SITE FOR RESIDUE CL A 4

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3CNV)

(-) Exons   (0, 0)

(no "Exon" information available for 3CNV)

(-) 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:156
 aligned with A0A0H3LYW6_B | A0A0H3LYW6 from UniProtKB/TrEMBL  Length:259

    Alignment length:162
                                   107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257  
         A0A0H3LYW6_B    98 VRYRFLRLAPDEEGEGGRAESRILECRRLRAPAEIARALELRAGETVVTIRRQLSMNHMPTVIDDLWLPGTHFRGLTLELLTASKAPLYGLFESEFGVSMVRADEKLRAVAASPEIAPLLGVEPGRPLLQVDRISYTYGDRPMEVRRGLYLTDHYHYRNSLN 259
               SCOP domains d3cnva1 A:98      -259 Putative transcriptional regulator BB3683                                                                                                   SCOP domains
               CATH domains 3cnvA01 A:98      -258 Chorismate lyase                                                                                                                          - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eee..------.eeeeeeeeeee.hhhhhhhhh.....eeeeeeeeee....eeeeeeeeee.hhh...hhhhhhhh..hhhhhhhhhhh..eeeeeeeeeeee....hhhhh......eeeeeeeeeee...eeeeeeeeee....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3cnv A  98 VRYRFLRLAPDE------AESRILECRRLRAPAEIARALELRAGETVVTIRRQLSmNHmPTVIDDLWLPGTHFRGLTLELLTASKAPLYGLFESEFGVSmVRADEKLRAVAASPEIAPLLGVEPGRPLLQVDRISYTYGDRPmEVRRGLYLTDHYHYRNSLN 259
                                   107 |     117       127       137       147     | 157       167       177       187       197       207       217       227       237  |    247       257  
                                     109    116                                  153-MSE                                     197-MSE                                    240-MSE               
                                                                                    156-MSE                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:159
 aligned with A0A0H3LYW6_B | A0A0H3LYW6 from UniProtKB/TrEMBL  Length:259

    Alignment length:162
                                   107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257  
         A0A0H3LYW6_B    98 VRYRFLRLAPDEEGEGGRAESRILECRRLRAPAEIARALELRAGETVVTIRRQLSMNHMPTVIDDLWLPGTHFRGLTLELLTASKAPLYGLFESEFGVSMVRADEKLRAVAASPEIAPLLGVEPGRPLLQVDRISYTYGDRPMEVRRGLYLTDHYHYRNSLN 259
               SCOP domains d3cnvb_ B: Puta   tive transcriptional regulator BB3683                                                                                                            SCOP domains
               CATH domains 3cnvB01 B:98-25   7 Chorismate lyase                                                                                                                            -- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eee.....---.eeeeeeeeeee.hhhhhhhh......eeeeeeeeeee..eeeeeeeeeee.hhhh..hhhhhhhh..hhhhhhhhhhh....eeeeeeeeee....hhhhh......eeeeeeeeeee...eeeeeeeeee....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3cnv B  98 VRYRFLRLAPDEEGE---AESRILECRRLRAPAEIARALELRAGETVVTIRRQLSmNHmPTVIDDLWLPGTHFRGLTLELLTASKAPLYGLFESEFGVSmVRADEKLRAVAASPEIAPLLGVEPGRPLLQVDRISYTYGDRPmEVRRGLYLTDHYHYRNSLN 259
                                   107    |  117       127       137       147     | 157       167       177       187       197       207       217       227       237  |    247       257  
                                        112 116                                  153-MSE                                     197-MSE                                    240-MSE               
                                                                                    156-MSE                                                                                                   


Chain C from PDB  Type:PROTEIN  Length:162
 aligned with A0A0H3LYW6_B | A0A0H3LYW6 from UniProtKB/TrEMBL  Length:259

    Alignment length:162
                                   107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257  
         A0A0H3LYW6_B    98 VRYRFLRLAPDEEGEGGRAESRILECRRLRAPAEIARALELRAGETVVTIRRQLSMNHMPTVIDDLWLPGTHFRGLTLELLTASKAPLYGLFESEFGVSMVRADEKLRAVAASPEIAPLLGVEPGRPLLQVDRISYTYGDRPMEVRRGLYLTDHYHYRNSLN 259
               SCOP domains d3cnvc_ C: Putative transcriptional regulator BB3683                                                                                                               SCOP domains
               CATH domains 3cnvC01 C:98-257 Chorismate lyase                                                                                                                               -- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eee.........eeeeeeeeeee.hhhhhhhh......eeeeeeeeeee..eeeeeeeeeee.hhhh..hhhhhhhh..hhhhhhhhhhh....eeeeeeeeee....hhhhh......eeeeeeeeeee...eeeeeeeeee....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3cnv C  98 VRYRFLRLAPDEEGEGGRAESRILECRRLRAPAEIARALELRAGETVVTIRRQLSmNHmPTVIDDLWLPGTHFRGLTLELLTASKAPLYGLFESEFGVSmVRADEKLRAVAASPEIAPLLGVEPGRPLLQVDRISYTYGDRPmEVRRGLYLTDHYHYRNSLN 259
                                   107       117       127       137       147     | 157       167       177       187       197       207       217       227       237  |    247       257  
                                                                                 153-MSE                                     197-MSE                                    240-MSE               
                                                                                    156-MSE                                                                                                   


Chain D from PDB  Type:PROTEIN  Length:157
 aligned with A0A0H3LYW6_B | A0A0H3LYW6 from UniProtKB/TrEMBL  Length:259

    Alignment length:162
                                   107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257  
         A0A0H3LYW6_B    98 VRYRFLRLAPDEEGEGGRAESRILECRRLRAPAEIARALELRAGETVVTIRRQLSMNHMPTVIDDLWLPGTHFRGLTLELLTASKAPLYGLFESEFGVSMVRADEKLRAVAASPEIAPLLGVEPGRPLLQVDRISYTYGDRPMEVRRGLYLTDHYHYRNSLN 259
               SCOP domains d3cnvd_ D: P     utative transcriptional regulator BB3683                                                                                                          SCOP domains
               CATH domains 3cnvD01 D:98     -257 Chorismate lyase                                                                                                                          -- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eee..-----..eeeeeeeeeee.hhhhhhhhh.....eeeeeeeeeee..eeeeeeeeeee.hhh...hhhhhhhh..hhhhhhhhhhh....eeeeeeeeee....hhhhh......eeeeeeeeeee...eeeeeeeeee....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3cnv D  98 VRYRFLRLAPDE-----RAESRILECRRLRAPAEIARALELRAGETVVTIRRQLSmNHmPTVIDDLWLPGTHFRGLTLELLTASKAPLYGLFESEFGVSmVRADEKLRAVAASPEIAPLLGVEPGRPLLQVDRISYTYGDRPmEVRRGLYLTDHYHYRNSLN 259
                                   107 |     117       127       137       147     | 157       167       177       187       197       207       217       227       237  |    247       257  
                                     109   115                                   153-MSE                                     197-MSE                                    240-MSE               
                                                                                    156-MSE
   Legend:   → Mismatch (orange background)
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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, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
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