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(-) Description

Title :  FRUCTOSE BINDING PERIPLASMIC DOMAIN OF HYBRID TWO COMPONENT SYSTEM BT1754
 
Authors :  E. D. Sonnenburg, H. Zheng, P. Joglekar, S. Higginbottom, S. J. Firbank D. N. Bolam, J. L. Sonnenburg
Date :  04 Mar 10  (Deposition) - 21 Jul 10  (Release) - 21 Jul 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.64
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transferase, Sensor Histidine Kinase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  E. D. Sonnenburg, H. Zheng, P. Joglekar, S. K. Higginbottom, S. J. Firbank, D. N. Bolam, J. L. Sonnenburg
Specificity Of Polysaccharide Use In Intestinal Bacteroides Species Determines Diet-Induced Microbiota Alterations.
Cell(Cambridge, Mass. ) V. 141 1241 2010
PubMed-ID: 20603004  |  Reference-DOI: 10.1016/J.CELL.2010.05.005

(-) Compounds

Molecule 1 - SENSOR PROTEIN
    Atcc29148
    ChainsA, B
    EC Number2.7.13.3
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET22B
    Expression System StrainC41 (DE3)
    Expression System Taxid562
    FragmentPERIPLASMIC DOMAIN, RESIDUES 29-343
    Organism ScientificBACTEROIDES THETAIOTAOMICRON
    Organism Taxid226186
    StrainVPI-5482
    SynonymBT1754 PERIPLASMIC DOMAIN

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric/Biological Unit (3, 9)
No.NameCountTypeFull Name
1FRU2Ligand/IonFRUCTOSE
2K3Ligand/IonPOTASSIUM ION
3PO44Ligand/IonPHOSPHATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:48 , GLU A:52 , ARG A:55 , ILE A:317 , ASP A:321 , HOH A:2048 , HIS B:316BINDING SITE FOR RESIDUE PO4 A1333
2AC2SOFTWAREHIS A:308 , ALA B:300 , VAL B:301 , HOH B:2047 , HOH B:2048BINDING SITE FOR RESIDUE PO4 B1332
3AC3SOFTWAREHIS A:316 , LYS B:48 , GLU B:52 , ARG B:55 , ILE B:317 , ASP B:321BINDING SITE FOR RESIDUE PO4 B1333
4AC4SOFTWAREALA A:300 , VAL A:301 , HOH A:2049 , HIS B:308BINDING SITE FOR RESIDUE PO4 A1334
5AC5SOFTWARESER A:41 , ASP A:43 , TRP A:45 , ARG A:46 , ASP A:120 , ARG A:121 , PRO A:168 , ARG A:172 , ASN A:222 , ARG A:224 , ASP A:248 , TYR A:271BINDING SITE FOR RESIDUE FRU A1335
6AC6SOFTWAREASP B:43 , ARG B:46 , ASP B:120 , ARG B:121 , PRO B:168 , ARG B:172 , TRP B:196 , ASN B:222 , ARG B:224 , ASP B:248 , TYR B:271 , HOH B:2003BINDING SITE FOR RESIDUE FRU B1334
7AC7SOFTWAREGLU A:239 , MET A:242BINDING SITE FOR RESIDUE K A1336
8AC8SOFTWAREILE A:180 , PHE A:183 , ILE A:186 , HOH A:2007 , HOH A:2021BINDING SITE FOR RESIDUE K A1337
9AC9SOFTWAREGLU B:239 , MET B:242BINDING SITE FOR RESIDUE K B1335

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2X7X)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2X7X)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2X7X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2X7X)

(-) Exons   (0, 0)

(no "Exon" information available for 2X7X)

(-) 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:301
 aligned with Q8A6X1_BACTN | Q8A6X1 from UniProtKB/TrEMBL  Length:921

    Alignment length:301
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331 
         Q8A6X1_BACTN    32 HFRIGVAQCSDDSWRHKMNDEILREAMFYNGVSVEIRSAGDDNSKQAEDVHYFMDEGVDLLIISANEAAPMTPIVEEAYQKGIPVILVDRKILSDKYTAYIGADNYEIGRSVGNYIASSLKGKGNIVELTGLSGSTPAMERHQGFMAAISKFPDIKLIDKADAAWERGPAEIEMDSMLRRHPKIDAVYAHNDRIAPGAYQAAKMAGREKEMIFVGIDALPGKGNGLELVLDSVLDATFIYPTNGDKVLQLAMDILEKKPYPKETVMNTAVVDRTNAHVMQLQTTHISELDKKIETLNGRIG 332
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...hhhhhhhhhhhhhhhh.....eeeeee...hhhhhhhhhhhhhhh...eeee...hhhhhhhhhhhhhhh...eeee..........eeeeehhhhhhhhhhhhhhhhh..eeeeeeee....hhhhhhhhhhhhhhhhh..eeeeeeeee...hhhhhhhhhhhhhhhh....eeee...hhhhhhhhhhhhh......eeeeee......hhhhhhhh....eeee...hhhhhhhhhhhhhh......eeee...eee..hhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2x7x A  32 HFRIGVAQCSDDSWRHKMNDEILREAMFYNGVSVEIRSAGDDNSKQAEDVHYFMDEGVDLLIISANEAAPMTPIVEEAYQKGIPVILVDRKILSDKYTAYIGADNYEIGRSVGNYIASSLKGKGNIVELTGLSGSTPAMERHQGFMAAISKFPDIKLIDKADAAWERGPAEIEMDSMLRRHPKIDAVYAHNDRIAPGAYQAAKMAGREKEMIFVGIDALPGKGNGLELVLDSVLDATFIYPTNGDKVLQLAMDILEKKPYPKETVMNTAVVDRTNAHVMQLQTTHISELDKKIETLNGRIG 332
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331 

Chain B from PDB  Type:PROTEIN  Length:300
 aligned with Q8A6X1_BACTN | Q8A6X1 from UniProtKB/TrEMBL  Length:921

    Alignment length:300
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331
         Q8A6X1_BACTN    32 HFRIGVAQCSDDSWRHKMNDEILREAMFYNGVSVEIRSAGDDNSKQAEDVHYFMDEGVDLLIISANEAAPMTPIVEEAYQKGIPVILVDRKILSDKYTAYIGADNYEIGRSVGNYIASSLKGKGNIVELTGLSGSTPAMERHQGFMAAISKFPDIKLIDKADAAWERGPAEIEMDSMLRRHPKIDAVYAHNDRIAPGAYQAAKMAGREKEMIFVGIDALPGKGNGLELVLDSVLDATFIYPTNGDKVLQLAMDILEKKPYPKETVMNTAVVDRTNAHVMQLQTTHISELDKKIETLNGRI 331
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) ---Peripla_BP_4-2x7xB01 B:35-290                                                                                                                                                                                                                                   ----------------------------------------- Pfam domains (1)
           Pfam domains (2) ---Peripla_BP_4-2x7xB02 B:35-290                                                                                                                                                                                                                                   ----------------------------------------- Pfam domains (2)
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhh....eeeeeee...hhhhhhhhhhhhhhh...eeee...hhhhhhhhhhhhhhh...eeee..........eeeeehhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhh....eeeeeeee...hhhhhhhhhhhhhhhh....eeee...hhhhhhhhhhhhh.hhhhheeeeee......hhhhhhhh....eeee...hhhhhhhhhhhhhh......eeee...eee..hhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2x7x B  32 HFRIGVAQCSDDSWRHKMNDEILREAMFYNGVSVEIRSAGDDNSKQAEDVHYFMDEGVDLLIISANEAAPMTPIVEEAYQKGIPVILVDRKILSDKYTAYIGADNYEIGRSVGNYIASSLKGKGNIVELTGLSGSTPAMERHQGFMAAISKFPDIKLIDKADAAWERGPAEIEMDSMLRRHPKIDAVYAHNDRIAPGAYQAAKMAGREKEMIFVGIDALPGKGNGLELVLDSVLDATFIYPTNGDKVLQLAMDILEKKPYPKETVMNTAVVDRTNAHVMQLQTTHISELDKKIETLNGRI 331
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331

   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 2X7X)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2X7X)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit

(-) Gene Ontology  (15, 15)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q8A6X1_BACTN | Q8A6X1)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    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: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.
    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:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    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.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
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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