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(-) Description

Title :  ESCHERICHIA COLI REGULATORY PROTEIN ARAC COMPLEXED WITH L-ARABINOSE
 
Authors :  S. M. Soisson, C. Wolberger
Date :  29 Oct 96  (Deposition) - 15 May 97  (Release) - 16 Feb 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transcription Factor, Carbohydrate Binding, Coiled-Coil, Jelly Roll (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. M. Soisson, B. Macdougall-Shackleton, R. Schleif, C. Wolberger
Structural Basis For Ligand-Regulated Oligomerization Of Arac.
Science V. 276 421 1997
PubMed-ID: 9103202  |  Reference-DOI: 10.1126/SCIENCE.276.5311.421

(-) Compounds

Molecule 1 - ARABINOSE OPERON REGULATORY PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: SUGAR-BINDING/DIMERIZATION DOMAIN
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: ARAC

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1ARA2Ligand/IonALPHA-L-ARABINOSE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:8 , LEU A:9 , PHE A:15 , THR A:24 , ARG A:38 , ILE A:46 , TYR A:82 , HIS A:93 , TRP A:95 , HOH A:176 , HOH A:180 , HOH A:260BINDING SITE FOR RESIDUE ARA A 171
2AC2SOFTWAREPRO B:8 , LEU B:9 , PHE B:15 , THR B:24 , ARG B:38 , ILE B:46 , TYR B:82 , HIS B:93 , TRP B:95 , HOH B:187 , HOH B:189 , HOH B:200BINDING SITE FOR RESIDUE ARA B 171

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2ARC)

(-) 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:161
 aligned with ARAC_ECOLI | P0A9E0 from UniProtKB/Swiss-Prot  Length:292

    Alignment length:161
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166 
           ARAC_ECOLI     7 DPLLPGYSFNAHLVAGLTPIEANGYLDFFIDRPLGMKGYILNLTIRGQGVVKNQGREFVCRPGDILLFPPGEIHHYGRHPEAREWYHQWVYFRPRAYWHEWLNWPSIFANTGFFRPDEAHQPHFSDLFGQIINAGQGEGRYSELLAINLLEQLLLRRMEAI 167
               SCOP domains d2arca_ A: Regulatory protein AraC                                                                                                                                SCOP domains
               CATH domains 2arcA00 A:7-167  [code=2.60.120.280, no name defined]                                                                                                             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeeeee........eee......eeeeeeeeeeeeeee..eeeeee..eeeee.....eeeee.....eeeeeeeee...hhhhhh.........eeeee..hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2arc A   7 DPLLPGYSFNAHLVAGLTPIEANGYLDFFIDRPLGMKGYILNLTIRGQGVVKNQGREFVCRPGDILLFPPGEIHHYGRHPEAREWYHQWVYFRPRAYWHEWLNWPSIFANTGFFRPDEAHQPHFSDLFGQIINAGQGEGRYSELLAINLLEQLLLRRMEAI 167
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166 


Chain B from PDB  Type:PROTEIN  Length:164
 aligned with ARAC_ECOLI | P0A9E0 from UniProtKB/Swiss-Prot  Length:292

    Alignment length:164
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166    
           ARAC_ECOLI     7 DPLLPGYSFNAHLVAGLTPIEANGYLDFFIDRPLGMKGYILNLTIRGQGVVKNQGREFVCRPGDILLFPPGEIHHYGRHPEAREWYHQWVYFRPRAYWHEWLNWPSIFANTGFFRPDEAHQPHFSDLFGQIINAGQGEGRYSELLAINLLEQLLLRRMEAINES 170
               SCOP domains d2arcb_ B: Regulatory protein AraC                                                                                                                                   SCOP domains
               CATH domains 2arcB00 B:7-170  [code=2.60.120.280, no name defined]                                                                                                                CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeeeee........eee......eeeeeeeeeeeeeee..eeeeee..eeeee.....eeeee.....eeeeeeeee...hhhhhhh........eeeee..hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2arc B   7 DPLLPGYSFNAHLVAGLTPIEANGYLDFFIDRPLGMKGYILNLTIRGQGVVKNQGREFVCRPGDILLFPPGEIHHYGRHPEAREWYHQWVYFRPRAYWHEWLNWPSIFANTGFFRPDEAHQPHFSDLFGQIINAGQGEGRYSELLAINLLEQLLLRRMEAINES 170
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166
   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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (ARAC_ECOLI | P0A9E0)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0000987    core promoter proximal region sequence-specific DNA binding    Interacting selectively and non-covalently with a sequence of DNA that is in cis with and relatively close to the core promoter. The transcribed region might be described as a gene, cistron, or operon.
    GO:0019172    glyoxalase III activity    Catalysis of the reaction: methylglyoxal + H2O = D-lactate.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    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:0019568    arabinose catabolic process    The chemical reactions and pathways resulting in the breakdown of arabinose, arabino-pentose.
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0019243    methylglyoxal catabolic process to D-lactate via S-lactoyl-glutathione    The chemical reactions and pathways resulting in the breakdown of methylglyoxal, CH3-CO-CHO, into D-lactate via the intermediate S-lactoyl-glutathione. Glutathione is used in the first step of the pathway and then regenerated in the second step.
    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:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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 Related Entries

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

UniProtKB/Swiss-Prot
        ARAC_ECOLI | P0A9E0: 1xja 2aac 2ara 2k9s

(-) Related Entries Specified in the PDB File

1xja 2aac 2ara 2k9s