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(-) Description

Title :  CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF BACILLUS SUBTILIS GABR REVEALS A CLOSED CONFORMATION BY THE BINDING OF GAMMA-AMINOBUTYRIC ACID, INDUCING THE TRANSCRIPTIONAL ACTIVATION
 
Authors :  S. A. Park, K. S. Lee
Date :  19 Jan 17  (Deposition) - 24 May 17  (Release) - 24 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transcriptional Regulator, Aminotransferase-Like Domain, External Schiff Base, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. A. Park, Y. S. Park, K. S. Lee
Crystal Structure Of The C-Terminal Domain Of Bacillus Subtilis Gabr Reveals A Closed Conformation By Gamma-Aminobutyric Acid Binding, Inducing Transcriptional Activation
Biochem. Biophys. Res. V. 487 287 2017 Commun.
PubMed-ID: 28412355  |  Reference-DOI: 10.1016/J.BBRC.2017.04.052

(-) Compounds

Molecule 1 - HTH-TYPE TRANSCRIPTIONAL REGULATORY PROTEIN GABR
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 108-470
    Gene: GABR, YCNF, BSU03890
    Organism Scientific: BACILLUS SUBTILIS (STRAIN 168)
    Organism Taxid: 224308
    Strain: 168
 
Molecule 2 - HTH-TYPE TRANSCRIPTIONAL REGULATORY PROTEIN GABR
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 108-472
    Gene: GABR, YCNF, BSU03890
    Organism Scientific: BACILLUS SUBTILIS (STRAIN 168)
    Organism Taxid: 224308
    Strain: 168

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1ABU1Ligand/IonGAMMA-AMINO-BUTANOIC ACID
2PLP2Ligand/IonPYRIDOXAL-5'-PHOSPHATE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:180 , THR A:181 , TYR A:205 , PHE A:250 , ASP A:279 , TYR A:281 , THR A:309 , SER A:311 , ARG A:319 , SER A:321 , ABU A:502 , HOH A:607 , HOH A:617 , HOH A:657binding site for residue PLP A 501
2AC2SOFTWAREHIS A:114 , TYR A:205 , ARG A:207 , PHE A:250 , TYR A:281 , ARG A:430 , PHE A:431 , PLP A:501 , MET B:145binding site for residue ABU A 502
3AC3SOFTWAREMET A:145 , GLY B:180 , THR B:181 , PHE B:250 , ASP B:279 , THR B:309 , SER B:311 , LYS B:312 , ARG B:319 , SER B:321 , HOH B:601 , HOH B:654binding site for residue PLP B 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5X03)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Glu A:202 -Pro A:203
2Phe A:250 -Pro A:251
3Glu B:202 -Pro B:203
4Phe B:250 -Pro B:251

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5X03)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5X03)

(-) Exons   (0, 0)

(no "Exon" information available for 5X03)

(-) 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:363
                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee......hhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhh...hhh.eeee.hhhhhhhhhhhhh.....eeeee..hhhhhhhhhhh...eeeeeee..eehhhhhhhhh..eeee............hhhhhhhhhhhhhhh...eeeee..............hhhhhh....eeeeee...........eeee.hhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee......eeeeee....hhhhhhhhhhhh.ee.ee.hhhh...........eeeee.......hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5x03 A 108 DWISFSHMSSDTDHFPIKSWFRCEQKAASRSYRTLGDMSHPQGIYEVRAAITRLISLTRGVKCRPEQMIIGAGTQVLMQLLTELLPKEAVYAMEEPGYRRMYQLLKNAGKQVKTIMLDEKGMSIAEITRQQPDVLVTTPSHQFPSGTIMPVSRRIQLLNWAAEEPRRYIIEDDYDSEFTYDVDSIPALQSLDRFQNVIYMGTFSKSLLPGLRISYMVLPPELLRAYKQRGYDLQTCSSLTQLTLQEFIESGEYQKHIKKMKQHYKEKRERLITALEAEFSGEVTVKGANAGLHFVTEFDTRRTEQDILSHAAGLQLEIFGMSRFNLKENKRQTGRPALIIGFARLKEEDIQEGVQRLFKAVYG 470
                                   117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467   


Chain B from PDB  Type:PROTEIN  Length:365
                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee.ee........hhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhh....hhh.eeee.hhhhhhhhhhhhh.....eeeee..hhhhhhhhhhh...eeeeeee..eehhhhhhhhh..eeee............hhhhhhhhhhhhhh....eeeeee.............hhhhh.....eeeeee...........eeee.hhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeee......eeeeee....hhhhhhhhhhhh.ee.ee.hhhh...........eeeeee...hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5x03 B 108 DWISFSHMSSDTDHFPIKSWFRCEQKAASRSYRTLGDMSHPQGIYEVRAAITRLISLTRGVKCRPEQMIIGAGTQVLMQLLTELLPKEAVYAMEEPGYRRMYQLLKNAGKQVKTIMLDEKGMSIAEITRQQPDVLVTTPSHQFPSGTIMPVSRRIQLLNWAAEEPRRYIIEDDYDSEFTYDVDSIPALQSLDRFQNVIYMGTFSKSLLPGLRISYMVLPPELLRAYKQRGYDLQTCSSLTQLTLQEFIESGEYQKHIKKMKQHYKEKRERLITALEAEFSGEVTVKGANAGLHFVTEFDTRRTEQDILSHAAGLQLEIFGMSRFNLKENKRQTGRPALIIGFARLKEEDIQEGVQRLFKAVYGHR 472
                                   117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467
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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 5X03)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5X03)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5X03)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

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  5x03
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  GABR_BACSU | P94426
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        GABR_BACSU | P94426: 4mgr 4n0b 4tv7 5t4j 5t4k

(-) Related Entries Specified in the PDB File

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