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(-) Description

Title :  CRYSTAL STRUCTURE OF A HYPOTHETICAL PROTEIN AT 2.0 A RESOLUTION
 
Authors :  J. Liu, Y. Lou, H. Yokota, P. D. Adams, R. Kim, S. H. Kim, Berkeley Struct Genomics Center (Bsgc)
Date :  26 Mar 04  (Deposition) - 24 Aug 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  B
Biol. Unit 1:  B  (1x)
Biol. Unit 2:  B  (2x)
Keywords :  Phou, Abc Transport, Pst, Structural Genomics, Berkeley Structural Genomics Center, Bsgc, Structure Funded By Nih, Protein Structure Initiative, Psi, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Liu, Y. Lou, H. Yokota, P. D. Adams, R. Kim, S. H. Kim
Crystal Structure Of A Phou Protein Homologue: A New Class Of Metalloprotein Containing Multinuclear Iron Clusters.
J. Biol. Chem. V. 280 15960 2005
PubMed-ID: 15716271  |  Reference-DOI: 10.1074/JBC.M414117200

(-) Compounds

Molecule 1 - PHOSPHATE TRANSPORT SYSTEM PROTEIN PHOU HOMOLOG 2
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PB4
    Expression System Strain: BL21(DE3)/PSJS1244 STAR
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 2336

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : B
Biological Unit 1 (1x): B
Biological Unit 2 (2x): B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 11)

Asymmetric Unit (4, 11)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2FE7Ligand/IonFE (III) ION
3NI1Ligand/IonNICKEL (II) ION
4PO32Ligand/IonPHOSPHITE ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2FE-1Ligand/IonFE (III) ION
3NI-1Ligand/IonNICKEL (II) ION
4PO32Ligand/IonPHOSPHITE ION
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2FE-1Ligand/IonFE (III) ION
3NI-1Ligand/IonNICKEL (II) ION
4PO34Ligand/IonPHOSPHITE ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU B:7 , GLU B:11 , GLU B:106 , GLU B:109BINDING SITE FOR RESIDUE FE B 236
02AC2SOFTWAREGLU B:49 , ASP B:53 , GLU B:91 , ASP B:95 , PO3 B:569 , HOH B:615BINDING SITE FOR RESIDUE FE B 237
03AC3SOFTWAREGLU B:91 , ASN B:92 , ASP B:95 , PO3 B:569 , HOH B:589 , HOH B:628BINDING SITE FOR RESIDUE FE B 238
04AC4SOFTWAREGLU B:56 , GLU B:88 , GLU B:91 , HOH B:579 , HOH B:589BINDING SITE FOR RESIDUE FE B 239
05AC5SOFTWAREASP B:152 , ASP B:156 , GLU B:191 , ASP B:195 , PO3 B:568 , HOH B:603BINDING SITE FOR RESIDUE FE B 240
06AC6SOFTWAREGLU B:191 , ASP B:195 , PO3 B:568 , HOH B:624 , HOH B:627 , HOH B:634BINDING SITE FOR RESIDUE FE B 241
07AC7SOFTWAREASP B:152 , ASP B:156 , PO3 B:568 , HOH B:573 , HOH B:590BINDING SITE FOR RESIDUE FE B 242
08AC8SOFTWAREGLU B:49 , GLU B:50 , ASP B:53 , LYS B:214 , PO3 B:569 , HOH B:592 , HOH B:611BINDING SITE FOR RESIDUE NI B 301
09AC9SOFTWAREARG B:163BINDING SITE FOR RESIDUE CA B 401
10BC1SOFTWAREASP B:152 , ASP B:156 , GLU B:191 , ASP B:195 , FE B:240 , FE B:241 , FE B:242 , HOH B:627 , HOH B:634BINDING SITE FOR RESIDUE PO3 B 568
11BC2SOFTWAREGLU B:49 , ASP B:53 , GLU B:91 , ASP B:95 , ASN B:199 , FE B:237 , FE B:238 , NI B:301BINDING SITE FOR RESIDUE PO3 B 569

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1B:149 -B:215

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1SUM)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1SUM)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1SUM)

(-) Exons   (0, 0)

(no "Exon" information available for 1SUM)

(-) 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 B from PDB  Type:PROTEIN  Length:225
 aligned with PHOU2_THEMA | Q9X256 from UniProtKB/Swiss-Prot  Length:235

    Alignment length:225
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221     
          PHOU2_THEMA     2 NRLLNEKVEEFKKGVLKAGWFIEKMFRNSISSLVERNESLAREVIADEEVVDQMEVEIQEKAMEVLGLFSPIGKPLLTVTAGIRVAELIENIADKCHDIAKNVLELMEEPPLKPLEDIPAMANQTSEMLKFALRMFADVNVEKSFEVCRMDSKVDDLYEKVREELLLYMMESPKYVKRALLLLEIAGNIEIIADYATNIVEVSVYMVQGEAYKCYHDELLLFKKS 226
               SCOP domains d1sumb_ B: PhoU homolog TM1734                                                                                                                                                                                                    SCOP domains
               CATH domains 1sumB01 B:2-108 Phosphate transport system protein phou homolog 2; domain 2                                1sumB02 B:109-226 Phosphate transport system protein phou homolog 2; domain 2                                          CATH domains
           Pfam domains (1) ---------------------------------------------------------------------------------------------------------------------PhoU-1sumB01 B:119-204                                                                ---------------------- Pfam domains (1)
           Pfam domains (2) ---------------------------------------------------------------------------------------------------------------------PhoU-1sumB02 B:119-204                                                                ---------------------- Pfam domains (2)
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeee..eeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sum B   2 NRLLNEKVEEFKKGVLKAGWFIEKMFRNSISSLVERNESLAREVIADEEVVDQMEVEIQEKAMEVLGLFSPIGKPLLTVTAGIRVAELIENIADKCHDIAKNVLELMEEPPLKPLEDIPAMANQTSEMLKFALRMFADVNVEKSFEVCRMDSKVDDLYEKVREELLLYMMESPKYVKRALLLLEIAGNIEIIADYATNIVEVSVYMVQGEAYKCYHDELLLFKKS 226
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221
   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 Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: PhoU (6)
(-)
Family: PhoU (4)
(-)
Thermotoga maritima (1)
1aPhoU-1sumB01B:119-204
1bPhoU-1sumB02B:119-204

(-) Gene Ontology  (15, 15)

Asymmetric Unit(hide GO term definitions)
Chain B   (PHOU2_THEMA | Q9X256)
molecular function
    GO:0005315    inorganic phosphate transmembrane transporter activity    Enables the transfer of a inorganic phosphate from one side of a membrane to the other, up its concentration gradient. The transporter binds the solute and undergoes a series of conformational changes. Transport works equally well in either direction and is driven by a chemiosmotic source of energy. Chemiosmotic sources of energy include uniport, symport or antiport.
    GO:0042803    protein homodimerization activity    Interacting selectively and non-covalently with an identical protein to form a homodimer.
    GO:0015321    sodium-dependent phosphate transmembrane transporter activity    Enables the transfer of phosphate (PO4 3-) ions from one side of a membrane to the other, requiring sodium ions.
    GO:0005436    sodium:phosphate symporter activity    Catalysis of the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: Na+(out) + phosphate(out) = Na+(in) + phosphate(in).
biological process
    GO:0030643    cellular phosphate ion homeostasis    Any process involved in the maintenance of an internal steady state of phosphate ions at the level of a cell.
    GO:0045936    negative regulation of phosphate metabolic process    Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving phosphates.
    GO:2000186    negative regulation of phosphate transmembrane transport    Any process that stops, prevents, or reduces the frequency, rate or extent of phosphate transmembrane transport.
    GO:0035435    phosphate ion transmembrane transport    The directed movement of phosphate across a membrane by means of some agent such as a transporter or pore.
    GO:0006817    phosphate ion transport    The directed movement of phosphate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0035725    sodium ion transmembrane transport    A process in which a sodium ion is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
    GO:0044341    sodium-dependent phosphate transport    The directed movement of phosphate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore, by a mechanism dependent upon sodium ions.
    GO:0055085    transmembrane transport    The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other
    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:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    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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