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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN MYELIN PROTEIN P2 IN COMPLEX WITH PALMITATE
 
Authors :  V. Majava, R. Nanekar, P. Kursula
Date :  09 Oct 09  (Deposition) - 12 May 10  (Release) - 12 May 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym./Biol. Unit :  A
Keywords :  Myelin, Transport, Lipid-Binding, Fatty Acid Binding Protein, Peripheral Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Majava, E. Polverini, A. Mazzini, R. Nanekar, W. Knoll, J. Peters, F. Natali, P. Baumgartel, I. Kursula, P. Kursula
Structural And Functional Characterization Of Human Peripheral Nervous System Myelin Protein P2.
Plos One V. 5 E300 2010
PubMed-ID: 20421974  |  Reference-DOI: 10.1371/JOURNAL.PONE.0010300

(-) Compounds

Molecule 1 - MYELIN P2 PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTH27
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Tissue: PERIPHERAL NERVE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2GOL1Ligand/IonGLYCEROL
3PLM1Ligand/IonPALMITIC ACID

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMET A:20 , GLY A:33 , SER A:55 , ALA A:75 , ASP A:76 , ARG A:106 , ARG A:126 , TYR A:128 , HOH A:2151 , HOH A:2272BINDING SITE FOR RESIDUE PLM A1134
2AC2SOFTWARELYS A:37 , THR A:56BINDING SITE FOR RESIDUE CL A1135
3AC3SOFTWAREASN A:15 , ASP A:18 , HOH A:2062 , HOH A:2273 , HOH A:2274 , HOH A:2275BINDING SITE FOR RESIDUE GOL A1136

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FABPPS00214 Cytosolic fatty-acid binding proteins signature.MYP2_HUMAN7-24  1A:6-23

(-) Exons   (0, 0)

(no "Exon" information available for 2WUT)

(-) 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 MYP2_HUMAN | P02689 from UniProtKB/Swiss-Prot  Length:132

    Alignment length:133
                             1                                                                                                                                   
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129   
           MYP2_HUMAN     - -MSNKFLGTWKLVSSENFDDYMKALGVGLATRKLGNLAKPTVIISKKGDIITIRTESTFKNTEISFKLGQEFEETTADNRKTKSIVTLQRGSLNQVQRWDGKETTIKRKLVNGKMVAECKMKGVVCTRIYEKV 132
               SCOP domains d2wuta_ A: automated matches                                                                                                          SCOP domains
               CATH domains 2wutA00 A:-1-131  [code=2.40.128.20, no name defined]                                                                                 CATH domains
               Pfam domains ------Lipocalin-2wutA01 A:5-131                                                                                                       Pfam domains
         Sec.struct. author ..hhhhheeeeeeeeehhhhhhhhh..hhhhhhhhhhh..eeeeeee..eeeeeee.....eeeee.....eeee.....eeeeeeeee..eeeeeeee..eeeeeeeeee..eeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------FABP  PDB: A:6-23 ------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wut A  -1 GMSNKFLGTWKLVSSENFDDYMKALGVGLATRKLGNLAKPTVIISKKGDIITIRTESTFKNTEISFKLGQEFEETTADNRKTKSIVTLQRGSLNQVQRWDGKETTIKRKLVNGKMVAECKMKGVVCTRIYEKV 131
                                     8        18        28        38        48        58        68        78        88        98       108       118       128
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Calycin (163)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MYP2_HUMAN | P02689)
molecular function
    GO:0015485    cholesterol binding    Interacting selectively and non-covalently with cholesterol (cholest-5-en-3-beta-ol); the principal sterol of vertebrates and the precursor of many steroids, including bile acids and steroid hormones.
    GO:0005504    fatty acid binding    Interacting selectively and non-covalently with fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis.
    GO:0008289    lipid binding    Interacting selectively and non-covalently with a lipid.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    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:0061024    membrane organization    A process which results in the assembly, arrangement of constituent parts, or disassembly of a membrane. A membrane is a double layer of lipid molecules that encloses all cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins.
    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:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0043209    myelin sheath    An electrically insulating fatty layer that surrounds the axons of many neurons. It is an outgrowth of glial cells: Schwann cells supply the myelin for peripheral neurons while oligodendrocytes supply it to those of the central nervous system.

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 Related Entries

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

UniProtKB/Swiss-Prot
        MYP2_HUMAN | P02689: 3nr3 4a1h 4a1y 4a8z 4bvm 4d6a 4d6b

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