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(-) Description

Title :  PERIPLASMIC DOMAIN OF VIBRIO PARAHAEMOLYTICUS CPXA
 
Authors :  E. Kwon, D. Y. Kim, T. D. Ngo, J. D. Gross, K. K. Kim
Date :  19 Dec 11  (Deposition) - 26 Sep 12  (Release) - 26 Sep 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Pas Fold, Signal Sensing, Signaling Protein, Merohedral Twinning (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  E. Kwon, D. Y. Kim, T. D. Ngo, C. A. Gross, J. D. Gross, K. K. Kim
The Crystal Structure Of The Periplasmic Domain Of Vibrio Parahaemolyticus Cpxa
Protein Sci. V. 21 1334 2012
PubMed-ID: 22760860  |  Reference-DOI: 10.1002/PRO.2120

(-) Compounds

Molecule 1 - SENSOR PROTEIN CPXA
    ChainsA, B
    EC Number2.7.13.3
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPVFT1A - PET28A(+) DERIVED
    Expression System StrainB834(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentSENSOR DOMAIN, RESIDUES 38-173
    GeneVP2859
    Organism ScientificVIBRIO PARAHAEMOLYTICUS
    Organism Taxid670

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3V67)

(-) Sites  (0, 0)

(no "Site" information available for 3V67)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3V67)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Gly A:141 -Pro A:142
2Leu A:167 -Leu A:168
3Gly B:141 -Pro B:142
4Pro B:164 -Pro B:165

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3V67)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3V67)

(-) Exons   (0, 0)

(no "Exon" information available for 3V67)

(-) 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:132
 aligned with Q87KW6_VIBPA | Q87KW6 from UniProtKB/TrEMBL  Length:467

    Alignment length:132
                                    50        60        70        80        90       100       110       120       130       140       150       160       170  
         Q87KW6_VIBPA    41 PRKARDIPDEHYQRIIETRDAIQNKYSKETDLGRILFRVEGNRAGKHDPRPRVFFSDYNGNVLTTDKRSNFQLRAMQNFVTSIEDYNKPKQRLYGRYMIAGPVPIVLADSELLMYVGFKWNEPPPLLLRLFD 172
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....ee.hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhh.........eeeee.....ee.....hhhhhhhhhhhhhhh......eeeee..eeeeeeeeeee..eeeeeeeeee............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3v67 A  41 PRKARDIPDEHYQRIIETRDAIQNKYSKETDLGRILFRVEGNRAGKHDPRPRVFFSDYNGNVLTTDKRSNFQLRAMQNFVTSIEDYNKPKQRLYGRYMIAGPVPIVLADSELLMYVGFKWNEPPPLLLRLFD 172
                                    50        60        70        80        90       100       110       120       130       140       150       160       170  

Chain B from PDB  Type:PROTEIN  Length:131
 aligned with Q87KW6_VIBPA | Q87KW6 from UniProtKB/TrEMBL  Length:467

    Alignment length:131
                                    51        61        71        81        91       101       111       121       131       141       151       161       171 
         Q87KW6_VIBPA    42 RKARDIPDEHYQRIIETRDAIQNKYSKETDLGRILFRVEGNRAGKHDPRPRVFFSDYNGNVLTTDKRSNFQLRAMQNFVTSIEDYNKPKQRLYGRYMIAGPVPIVLADSELLMYVGFKWNEPPPLLLRLFD 172
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee.hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhh.........eeeee.....ee.....hhhhhhhhhhhhhhh......eeeee..eeeeeeeeeee..eeeeeeeeee............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3v67 B  42 RKARDIPDEHYQRIIETRDAIQNKYSKETDLGRILFRVEGNRAGKHDPRPRVFFSDYNGNVLTTDKRSNFQLRAMQNFVTSIEDYNKPKQRLYGRYMIAGPVPIVLADSELLMYVGFKWNEPPPLLLRLFD 172
                                    51        61        71        81        91       101       111       121       131       141       151       161       171 

   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 3V67)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3V67)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3V67)

(-) Gene Ontology  (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q87KW6_VIBPA | Q87KW6)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0000155    phosphorelay sensor kinase activity    Catalysis of the phosphorylation of a histidine residue in response to detection of an extracellular signal such as a chemical ligand or change in environment, to initiate a change in cell state or activity. The two-component sensor is a histidine kinase that autophosphorylates a histidine residue in its active site. The phosphate is then transferred to an aspartate residue in a downstream response regulator, to trigger a response.
    GO:0004871    signal transducer activity    Conveys a signal across a cell to trigger a change in cell function or state. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016772    transferase activity, transferring phosphorus-containing groups    Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to another (acceptor).
biological process
    GO:0000160    phosphorelay signal transduction system    A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
    GO:0023014    signal transduction by protein phosphorylation    A process in which the transfer of one or more phosphate groups to a substrate transmits a signal to the phosphorylated substrate.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    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.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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  Cis Peptide Bonds
    Gly A:141 - Pro A:142   [ RasMol ]  
    Gly B:141 - Pro B:142   [ RasMol ]  
    Leu A:167 - Leu A:168   [ RasMol ]  
    Pro B:164 - Pro B:165   [ RasMol ]  
 

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