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(-) Description

Title :  PACS, N-TERMINAL DOMAIN, FROM SYNECHOCYSTIS PCC6803
 
Authors :  A. Badarau, S. J. Firbank, A. A. Mccarthy, M. J. Banfield, C. Dennison
Date :  29 Jul 10  (Deposition) - 18 Aug 10  (Release) - 18 May 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Cu(I)-Binding, Trafficking (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Badarau, S. J. Firbank, A. A. Mccarthy, M. J. Banfield, C. Dennison
Visualizing The Metal-Binding Versatility Of Copper Trafficking Sites .
Biochemistry V. 49 7798 2010
PubMed-ID: 20726513  |  Reference-DOI: 10.1021/BI101064W

(-) Compounds

Molecule 1 - CATION-TRANSPORTING ATPASE PACS
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET29A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: N-TERMINAL, COPPER-BINDING DOMAIN, RESIDUES 1-71
    Organism Scientific: SYNECHOCYSTIS SP. PCC 6803
    Organism Taxid: 1148
    Synonym: PACS-N

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1CU11Ligand/IonCOPPER (I) ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:14 , CYS A:17BINDING SITE FOR RESIDUE CU1 A 101

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HMA_2PS50846 Heavy-metal-associated domain profile.ATCS_SYNY34-69  1A:4-69
2HMA_1PS01047 Heavy-metal-associated domain.ATCS_SYNY39-38  1A:9-38

(-) Exons   (0, 0)

(no "Exon" information available for 2XMW)

(-) 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:67
 aligned with ATCS_SYNY3 | P73241 from UniProtKB/Swiss-Prot  Length:745

    Alignment length:70
                                    11        21        31        41        51        61        71
            ATCS_SYNY3    2 AQTINLQLEGMRCAACASSIERAIAKVPGVQSCQVNFALEQAVVSYHGETTPQILTDAVERAGYHARVLK 71
               SCOP domains d2xmwa_ A: automated matches                                           SCOP domains
               CATH domains 2xmwA00 A:2-71  [code=3.30.70.100, no name defi   ned]                 CATH domains
               Pfam domains ----HMA-2xmwA01 A:6-66                                           ----- Pfam domains
         Sec.struct. author .eeeeeeee...hhhhhhhhhhhhhh...eeeeeee....eeeeee.---hhhhhhhhhhhhh.eeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --HMA_2  PDB: A:4-69 UniProt: 4-69                                  -- PROSITE (1)
                PROSITE (2) -------HMA_1  PDB: A:9-38            --------------------------------- PROSITE (2)
                 Transcript ---------------------------------------------------------------------- Transcript
                  2xmw A  2 AQTINLQLEGMRCAACASSIERAIAKVPGVQSCQVNFALEQAVVSYH---TPQILTDAVERAGYHARVLK 71
                                    11        21        31        41      |  -|       61        71
                                                                         48  52
   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, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: HMA] (41)

(-) Gene Ontology  (20, 20)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (ATCS_SYNY3 | P73241)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0019829    cation-transporting ATPase activity    Catalysis of the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: ATP + H2O + cation(out) = ADP + phosphate + cation(in).
    GO:0005507    copper ion binding    Interacting selectively and non-covalently with copper (Cu) ions.
    GO:0043682    copper-transporting ATPase activity    Catalysis of the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: ATP + H2O + Cu2+ = ADP + phosphate + Cu2+, directly driving the transport of the copper ions across a membrane.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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.
biological process
    GO:0098655    cation transmembrane transport    A process in which a cation is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
    GO:0006812    cation transport    The directed movement of cations, atoms or small molecules with a net positive charge, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0015677    copper ion import    The directed movement of copper ions into a cell or organelle.
    GO:0035434    copper ion transmembrane transport    The directed movement of copper cation across a membrane.
    GO:0006825    copper ion transport    The directed movement of copper (Cu) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0006811    ion transport    The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0030001    metal ion transport    The directed movement of metal ions, any metal ion with an electric charge, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
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:0005887    integral component of plasma membrane    The component of the plasma 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:0043231    intracellular membrane-bounded organelle    Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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 Related Entries

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

UniProtKB/Swiss-Prot
        ATCS_SYNY3 | P73241: 2gcf 4a48 4a4j

(-) Related Entries Specified in the PDB File

2gcf SOLUTION STRUCTURE OF THE N-TERMINAL DOMAIN OF THECOPPPER(I) ATPASE PACS IN ITS APO FORM
2xmj VISUALISING THE METAL-BINDING VERSATILITY OF COPPER TRAFFICKING SITES: ATX1 SIDE-TO-SIDE (AEROBIC)
2xmk VISUALISING THE METAL-BINDING VERSATILITY OF COPPER TRAFFICKING SITES: ATX1 SIDE-TO-SIDE (ANAEROBIC)
2xmm VISUALISING THE METAL-BINDING VERSATILITY OF COPPER TRAFFICKING SITES: H61Y ATX1 SIDE-TO-SIDE
2xmt COPPER CHAPERONE ATX1 FROM SYNECHOCYSTIS PCC6803 (CU1 FORM)
2xmu COPPER CHAPERONE ATX1 FROM SYNECHOCYSTIS PCC6803 (CU2 FORM)
2xmv COPPER CHAPERONE ATX1 FROM SYNECHOCYSTIS PCC6803 (CU1, TRIMERIC FORM, HIS61TYR MUTANT)