Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit
(-)Asym./Biol. Unit - sites
collapse expand < >
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)
Image Asym./Biol. Unit - sites
Asym./Biol. Unit - sites  (Jmol Viewer)

(-) Description

Title :  REP1-NXSQ FATTY ACID TRANSPORTER
 
Authors :  G. Berberian, M. Bollo, E. Howard, A. Cousido-Siah, A. Mitschler, D. Ay S. Sanglier-Cianferani, A. Van Dorsselaer, R. Dipolo, L. Beauge, T. C. Schulze-Briese, M. Wang, A. Podjarny
Date :  25 Nov 10  (Deposition) - 21 Dec 11  (Release) - 23 Jan 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.28
Chains :  Asym./Biol. Unit :  A
Keywords :  Fatty Acid Transporter, Lipid Binding Proteins, Squid Nerve, Regulatory Factor, Beta-Sandwich, Fatty Acid, Lipid Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Cousido-Siah, D. Ayoub, G. Berberian, M. Bollo, A. Van Dorsselaer F. Debaene, R. Dipolo, T. Petrova, C. Schulze-Briese, V. Olieric, A. Esteves, A. Mitschler, S. Sanglier-Cianferani, L. Beauge, A. Podjarny
Structural And Functional Studies Of Rep1-Ncxsq, A Protein Regulating The Squid Nerve Na+/Ca2+ Exchanger.
Acta Crystallogr. , Sect. D V. 68 1098 2012
PubMed-ID: 22948910  |  Reference-DOI: 10.1107/S090744491202094X

(-) Compounds

Molecule 1 - SODIUM-CALCIUM EXCHANGER
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Organism Common: LONGFIN INSHORE SQUID
    Organism Scientific: LOLIGO PEALEI
    Organism Taxid: 6621

 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
1PAM1Ligand/IonPALMITOLEIC ACID

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMET A:30 , GLN A:41 , THR A:54 , PHE A:58 , LYS A:59 , GLY A:76 , ASP A:77 , ARG A:79 , MET A:115 , ARG A:126 , TYR A:128 , HOH A:156 , HOH A:337BINDING SITE FOR RESIDUE PAM A 500

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ser A:99 -Pro A:100

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3PPT)

(-) 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:133
 aligned with C4N147_DORPE | C4N147 from UniProtKB/TrEMBL  Length:132

    Alignment length:133
                                                                                                                                                            132  
                                    11        21        31        41        51        61        71        81        91       101       111       121       131|  
         C4N147_DORPE     2 AADLAGKWILESSENFDDYMKAVGVGMVMRKMANAATPTQEIKIDGDSWSIKTSTTFKTTDISFTIGQEFDETTGDGRKIKTTCKIDGNAMIQDQKGSPDSILSREVKDGKMHMILKVNDVVCTRIYKRVD--   -
               SCOP domains d3ppta_ A: automated matches                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhheeeeeeeeehhhhhhhhhh.hhhhhhhhhhh..eeeeeee..eeeeeee....eeeeeee....eeee.....eeeeeeeee..eeeeeee....eeeeeeee..eeeeeeee..eeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ppt A   2 AADLAGKWILESSENFDDYMKAVGVGMVMRKMANAATPTQEIKIDGDSWSIKTSTTFKTTDISFTIGQEFDETTGDGRKIKTTCKIDGNAMIQDQKGSPDSILSREVKDGKMHMILKVNDVVCTRIYKRVDLE 134
                                    11        21        31        41        51        61        71        81        91       101       111       121       131
   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: All beta proteins (24004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (C4N147_DORPE | C4N147)
molecular function
    GO:0008289    lipid binding    Interacting selectively and non-covalently with a lipid.
    GO:0005215    transporter activity    Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells.
biological process
    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.

 Visualization

(-) Interactive Views

Asymmetric/Biological Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    PAM  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Ser A:99 - Pro A:100   [ RasMol ]  
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format | Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  3ppt
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  C4N147_DORPE | C4N147
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  C4N147_DORPE | C4N147
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/TrEMBL
        C4N147_DORPE | C4N147: 3pp6

(-) Related Entries Specified in the PDB File

1yiv STRUCTURE OF MYELIN P2 PROTEIN FROM EQUINE SPINAL CORD
3pp6 REP1-NXSQ FATTY ACID TRANSPORTER Y128F MUTANT