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(-) Description

Title :  GTPASE LIKE DOMAIN OF CENTAURIN GAMMA 1 (HUMAN)
 
Authors :  J. M. Elkins, M. Soundararajan, X. Yang, E. Papagrigoriou, M. Sundstrom, A. Edwards, C. Arrowsmith, J. Weigelt, D. A. Doyle, Structural Genomics Consortium (Sgc)
Date :  03 Jul 06  (Deposition) - 04 Jul 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Ank Repeat, Zinc-Finger, Gtp-Binding, Polymorphism, Nucleotide-Binding, Alternative Splicing, Protein Transport, Gtpase Activation, Hydrolase, Metal-Binding, Nuclear Protein, Phosphorylation, Sgc, Zinc, Centg1, Gtpase, Oncogene, Transport, Structual Genomics Consortium, Structural Genomics Consortium, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. Soundararajan, X. Yang, J. M. Elkins, F. Sobott, D. A. Doyle
The Centaurin Gamma-1 Gtpase-Like Domain Functions As An Ntpase.
Biochem. J. V. 401 679 2007
PubMed-ID: 17037982  |  Reference-DOI: 10.1042/BJ20060555

(-) Compounds

Molecule 1 - CENTAURIN GAMMA 1
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPLIC-SGC
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    FragmentGTPASE LIKE DOMAIN, RESIDUES 402-577
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsIMAGE CONSORTIUM CLONE ID 5218187
    SynonymARF-GAP WITH GTP-BINDING PROTEIN-LIKE, ANKYRIN REPEAT AND PLECKSTRIN HOMOLOGY DOMAINS 2, AGAP-2, PHOSPHATIDYLINOSITOL-3-KINASE ENHANCER, PIKE, GTP-BINDING AND GTPASE ACTIVATING PROTEIN 2, GGAP2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1CAF2Mod. Amino AcidS-DIMETHYLARSINOYL-CYSTEINE

(-) Sites  (0, 0)

(no "Site" information available for 2IWR)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (5, 5)

Asymmetric/Biological Unit (5, 5)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_026438V455AAGAP2_HUMANUnclassified  ---AV119A
2CancerSNPVAR_AGAP2_HUMAN_CCDS8951_1_02 *S480YAGAP2_HUMANDisease (Breast cancer)  ---AD144Y
3UniProtVAR_022046G507SAGAP2_HUMANPolymorphism2301553AG171S
4UniProtVAR_026439R518GAGAP2_HUMANUnclassified  ---AR182G
5UniProtVAR_026440T568IAGAP2_HUMANUnclassified  ---AT232I
   * ID not provided by source

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RABPS51419 small GTPase Rab1 family profile.AGAP2_HUMAN401-606  1A:66-239

(-) Exons   (0, 0)

(no "Exon" information available for 2IWR)

(-) 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:176
 aligned with AGAP2_HUMAN | Q99490 from UniProtKB/Swiss-Prot  Length:1192

    Alignment length:176
                                   409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569      
          AGAP2_HUMAN   400 LSRSIPELRLGVLGDARSGKSSLIHRFLTGSYQVLEKTESEQYKKEMLVDGQTHLVLIREEAGAPDAKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQQL 575
               SCOP domains d2iwra_ A: automated matches                                                                                                                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeee.hhhhhhhhhhhhhhhh...........eeeeeeee..eeeeeeeee.....hhhhhhhh.eeeeeee..hhhhhhhhhhhhhhhhhhhh......eeeeeee............hhhhhhhhhhhhh.eeeeee......hhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------A---------------------------------------------------S----------G-------------------------------------------------I------- SAPs(SNPs)
                    PROSITE -RAB  PDB: A:66-239 UniProt: 401-606                                                                                                                                             PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2iwr A  64 SMRSIPELRLGVLGDARSGKSSLIHRFLTGSYQVLEKTESEQYKKEMLVDGQTHLVLIREEAGAPDAKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALcADMKRCSYYETcATYGLNVDRVFQEVAQKVVTLRKQQQL 239
                                    73        83        93       103       113       123       133       143       153       163       173       183       193      |203       213       223       233      
                                                                                                                                                                  200-CAF     212-CAF                       

   Legend:   → Mismatch (orange background)
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  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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2IWR)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2IWR)

(-) Gene Ontology  (17, 17)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (AGAP2_HUMAN | Q99490)
molecular function
    GO:0005525    GTP binding    Interacting selectively and non-covalently with GTP, guanosine triphosphate.
    GO:0005096    GTPase activator activity    Binds to and increases the activity of a GTPase, an enzyme that catalyzes the hydrolysis of GTP.
    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.
    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).
biological process
    GO:0043524    negative regulation of neuron apoptotic process    Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process in neurons.
    GO:0042177    negative regulation of protein catabolic process    Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    GO:0015031    protein transport    The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0007264    small GTPase mediated signal transduction    Any series of molecular signals in which a small monomeric GTPase relays one or more of the signals.
    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:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005739    mitochondrion    A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.
    GO:0005730    nucleolus    A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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 Related Entries

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

UniProtKB/Swiss-Prot
        AGAP2_HUMAN | Q994902bmj 2rlo

(-) Related Entries Specified in the PDB File

2bmj CENTAURIN GAMMA 1 (HUMAN)