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(-) Description

Title :  CRYSTAL STRUCTURE OF GLU104ALA MUTANT
 
Authors :  T. Shrivastava, R. Ramachandran
Date :  24 Oct 08  (Deposition) - 17 Nov 09  (Release) - 17 Nov 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (4x)
Keywords :  Transcription, Transcription Regulation, Transcriptional Regulator, Mutant, Rv3291C, Glu104Ala, Dna-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Shrivastava, A. Dey, R. Ramachandran
Ligand-Induced Structural Transitions, Mutational Analysis, And 'Open' Quaternary Structure Of The M. Tuberculosis Feast/Famine Regulatory Protein (Rv3291C).
J. Mol. Biol. V. 392 1007 2009
PubMed-ID: 19651141  |  Reference-DOI: 10.1016/J.JMB.2009.07.084

(-) Compounds

Molecule 1 - PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21D
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Mutation: YES
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 83332
    Strain: H37RV
    Synonym: LEUCINE-RESPONSIVE REGULATORY PROTEIN, RV3291C

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (4x): AB

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2W25)

(-) Sites  (0, 0)

(no "Site" information available for 2W25)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2W25)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2W25)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2W25)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2W25)

(-) Exons   (0, 0)

(no "Exon" information available for 2W25)

(-) 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:147
 aligned with P96896_MYCTO | P96896 from UniProtKB/TrEMBL  Length:150

    Alignment length:147
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       
         P96896_MYCTO     4 ALDDIDRILVRELAADGRATLSELATRAGLSVSAVQSRVRRLESRGVVQGYSARINPEAVGHLLSAFVAITPLDPSQPDDAPARLEHIEEVESCYSVAGEESYVLLVRVASARALEDLLQRIRTTANVRTRSTIILNTFYSDRQHIP 150
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --2w25A01 A:6-57                                      2w25A02 A:58-138  [code=3.30.70.920, no name defined]                            ------------ CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhhh..eeeeeeee.hhhhh..eeeeeeeee.......hhhhhhh....eeeeeee.....eeeeeee.hhhhhhhhhhhhhhhhheeeeeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2w25 A   4 ALDDIDRILVRELAADGRATLSELATRAGLSVSAVQSRVRRLESRGVVQGYSARINPEAVGHLLSAFVAITPLDPSQPDDAPARLEHIEEVESCYSVAGEASYVLLVRVASARALEDLLQRIRTTANVRTRSTIILNTFYSDRQHIP 150
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       


Chain B from PDB  Type:PROTEIN  Length:147
 aligned with P96896_MYCTO | P96896 from UniProtKB/TrEMBL  Length:150

    Alignment length:147
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       
         P96896_MYCTO     4 ALDDIDRILVRELAADGRATLSELATRAGLSVSAVQSRVRRLESRGVVQGYSARINPEAVGHLLSAFVAITPLDPSQPDDAPARLEHIEEVESCYSVAGEESYVLLVRVASARALEDLLQRIRTTANVRTRSTIILNTFYSDRQHIP 150
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --2w25B01 B:6-57                                      2w25B02 B:58-138  [code=3.30.70.920, no name defined]                            ------------ CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhhh..eeeeeeee........eeeeeeeee.......hhhhhh.....eeeeeeee....eeeeeee.hhhhhhhhhhhhhhhh.eeeeeeeeeeeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2w25 B   4 ALDDIDRILVRELAADGRATLSELATRAGLSVSAVQSRVRRLESRGVVQGYSARINPEAVGHLLSAFVAITPLDPSQPDDAPARLEHIEEVESCYSVAGEASYVLLVRVASARALEDLLQRIRTTANVRTRSTIILNTFYSDRQHIP 150
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 2W25)

(-) CATH Domains  (2, 4)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2W25)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (P96896_MYCTO | P96896)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0016597    amino acid binding    Interacting selectively and non-covalently with an amino acid, organic acids containing one or more amino substituents.
    GO:0043565    sequence-specific DNA binding    Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
    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:0051260    protein homooligomerization    The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of identical component monomers. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.
    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.
cellular component
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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  2w25
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 Related Entries

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

UniProtKB/TrEMBL
        P96896_MYCTO | P96896: 2ivm 2qz8 2vbw 2vbx 2vby 2vbz 2vc0 2vc1 2w24 2w29

(-) Related Entries Specified in the PDB File

2ivm CRYSTAL STRUCTURE OF A TRANSCRIPTIONAL REGULATOR
2vbw FEAST OR FAMINE REGULATORY PROTEIN (RV3291C) FROM M. TUBERCULOSIS COMPLEXED WITH L- PHENYLALANINE
2vbx FEAST OR FAMINE REGULATORY PROTEIN (RV3291C) FROM M. TUBERCULOSIS COMPLEXED WITH L- PHENYLALANINE
2vby FEAST OR FAMINE REGULATORY PROTEIN (RV3291C) FROM M. TUBERCULOSIS COMPLEXED WITH L- TYROSINE
2vbz FEAST OR FAMINE REGULATORY PROTEIN (RV3291C) FROM M. TUBERCULOSIS COMPLEXED WITH L- TRYPTOPHAN
2vc0 FEAST OR FAMINE REGULATORY PROTEIN (RV3291C) FROM M. TUBERCULOSIS COMPLEXED WITH L- LEUCINE
2vc1 FEAST OR FAMINE REGULATORY PROTEIN (RV3291C) FROM M. TUBERCULOSIS COMPLEXED WITH L- METHIONINE
2w24 M. TUBERCULOSIS RV3291C COMPLEXED TO LYSINE