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(-) Description

Title :  CRYSTAL STRUCTURE OF THE FAPP1 PLECKSTRIN HOMOLOGY DOMAIN
 
Authors :  S. Roy, J. He, T. G. Kutateladze
Date :  31 Mar 11  (Deposition) - 20 Apr 11  (Release) - 15 Jun 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Fapp1, Ph Domain, Lipid-Binding, Membrane, Membrane Protein, Seven- Stranded-Barrel Capped By An Helix At One Edge, Phospholipid Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. He, J. L. Scott, A. Heroux, S. Roy, M. Lenoir, M. Overduin, R. V. Stahelin, T. G. Kutateladze
Molecular Basis Of Phosphatidylinositol 4-Phosphate And Arf Gtpase Recognition By The Fapp1 Pleckstrin Homology (Ph) Domain.
J. Biol. Chem. V. 286 18650 2011
PubMed-ID: 21454700  |  Reference-DOI: 10.1074/JBC.M111.233015

(-) Compounds

Molecule 1 - PLECKSTRIN HOMOLOGY DOMAIN-CONTAINING FAMILY A MEMBER 3
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET-28A
    Expression System StrainROSETTA (DE3) PLYSS
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentRESIDUES 1-99, PH DOMAIN
    GeneFAPP1, PLEKHA3
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymPH DOMAIN-CONTAINING FAMILY A MEMBER 3, PHOSPHATIDYLINOSITOL-FOUR-PHOSPHATE ADAPTER PROTEIN 1, FAPP-1, PHOSPHOINOSITOL 4-PHOSPHATE ADAPTER PROTEIN 1

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (1x)A
Biological Unit 2 (2x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric Unit (2, 5)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 5)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 10)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:8 , ARG A:60 , TYR A:72BINDING SITE FOR RESIDUE GOL A 104

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3RCP)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PH_DOMAINPS50003 PH domain profile.PKHA3_HUMAN1-93  1A:1-93
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PH_DOMAINPS50003 PH domain profile.PKHA3_HUMAN1-93  1A:1-93
Biological Unit 2 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PH_DOMAINPS50003 PH domain profile.PKHA3_HUMAN1-93  2A:1-93

(-) Exons   (0, 0)

(no "Exon" information available for 3RCP)

(-) 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    
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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:100
 aligned with PKHA3_HUMAN | Q9HB20 from UniProtKB/Swiss-Prot  Length:300

    Alignment length:130
                                    10        20        30        40        50        60        70        80        90       100       110       120       130
          PKHA3_HUMAN     1 MEGVLYKWTNYLTGWQPRWFVLDNGILSYYDSQDDVCKGSKGSIKMAVCEIKVHSADNTRMELIIPGEQHFYMKAVNAAERQRWLVALGSSKACLTDTRTKKEKEISETSESLKTKMSELRLYCDLLMQQ 130
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains PH-3rcpA01 A:1-93                                                                            ------                           ---- Pfam domains
         Sec.struct. author .eeeeeee......eeeeeeeee..eeeee....---.....eee.hhheee.......eeeeee...eeeeee..hhhhhhhhhhhhhh.........---------------------------.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE PH_DOMAIN  PDB: A:1-93 UniProt: 1-93                                                         ------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rcp A   1 mEGVLYKWTNYLTGWQPRWFVLDNGILSYYDSQD---KGSKGSIKmAVCEIKVHSADNTRmELIIPGEQHFYmKAVNAAERQRWLVALGSSKASLTDTR---------------------------LVPR 103
                            |       10        20        30   |   |40     |  50        60|       70  |     80        90        |-         -         -      |103
                            |                               34  38      46-MSE         61-MSE      73-MSE                    99                         100   
                            1-MSE                                                                                                                             

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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  (0, 0)

(no "SCOP Domain" information available for 3RCP)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: PH (111)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A   (PKHA3_HUMAN | Q9HB20)
molecular function
    GO:0005545    1-phosphatidylinositol binding    Interacting selectively and non-covalently with phosphatidylinositol, any glycophospholipid with its sn-glycerol 3-phosphate residue is esterified to the 1-hydroxyl group of 1D-myo-inositol.
    GO:0008289    lipid binding    Interacting selectively and non-covalently with a lipid.
    GO:0005543    phospholipid binding    Interacting selectively and non-covalently with phospholipids, a class of lipids containing phosphoric acid as a mono- or diester.
biological process
    GO:0008150    biological_process    Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
cellular component
    GO:0005794    Golgi apparatus    A compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack. The Golgi apparatus differs from the endoplasmic reticulum in often having slightly thicker membranes, appearing in sections as a characteristic shallow semicircle so that the convex side (cis or entry face) abuts the endoplasmic reticulum, secretory vesicles emerging from the concave side (trans or exit face). In vertebrate cells there is usually one such organelle, while in invertebrates and plants, where they are known usually as dictyosomes, there may be several scattered in the cytoplasm. The Golgi apparatus processes proteins produced on the ribosomes of the rough endoplasmic reticulum; such processing includes modification of the core oligosaccharides of glycoproteins, and the sorting and packaging of proteins for transport to a variety of cellular locations. Three different regions of the Golgi are now recognized both in terms of structure and function: cis, in the vicinity of the cis face, trans, in the vicinity of the trans face, and medial, lying between the cis and trans regions.
    GO:0005575    cellular_component    The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.
    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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 Related Entries

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

UniProtKB/Swiss-Prot
        PKHA3_HUMAN | Q9HB202kcj 2mdx

(-) Related Entries Specified in the PDB File

2kcj SOLUTION STRUCTURE