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(-) Description

Title :  CRYSTAL STRUCTURE OF THE PLECKSTRIN HOMOLOGY DOMAIN OF ARHGAP27
 
Authors :  L. Shen, W. Tempel, Y. Tong, L. Nedyalkova, Y. Li, A. K. Wernimont, C. H. Arrowsmith, A. M. Edwards, C. Bountra, J. Weigelt, H. Park, Struc Genomics Consortium (Sgc)
Date :  23 Nov 10  (Deposition) - 08 Dec 10  (Release) - 08 Dec 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.42
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Ph Domain, Gtpase Activator, Pleckstrin Homology Domain, Structural Genomics Consortium, Sgc, Hydrolase Activator (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Shen, W. Tempel, Y. Tong, L. Nedyalkova, Y. Li, A. K. Wernimont, C. H. Arrowsmith, A. M. Edwards, C. Bountra, J. Weigelt, H. Park
Crystal Structure Of The Pleckstrin Homology Domain Of Arhgap27
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - RHO GTPASE-ACTIVATING PROTEIN 27
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PNIC-CH
    Expression System Strain: BL21-V2R-PRARE2
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 491-613
    Gene: ARHGAP27, CAMGAP1, SH3D20, PP905
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CIN85-ASSOCIATED MULTI-DOMAIN-CONTAINING RHO GTPASE- ACTIVATING PROTEIN 1, RHO-TYPE GTPASE-ACTIVATING PROTEIN 27

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 32)

Asymmetric Unit (3, 32)
No.NameCountTypeFull Name
1CIT5Ligand/IonCITRIC ACID
2GOL2Ligand/IonGLYCEROL
3UNX25Ligand/IonUNKNOWN ATOM OR ION
Biological Unit 1 (3, 64)
No.NameCountTypeFull Name
1CIT10Ligand/IonCITRIC ACID
2GOL4Ligand/IonGLYCEROL
3UNX50Ligand/IonUNKNOWN ATOM OR ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:512 , LYS A:513 , ARG A:514 , HOH B:61 , LYS B:517 , HIS B:519BINDING SITE FOR RESIDUE CIT A 1
2AC2SOFTWARELYS A:518 , TRP A:520 , SER A:574 , SER A:575 , ARG A:576BINDING SITE FOR RESIDUE CIT A 614
3AC3SOFTWARELYS A:517 , HIS A:519 , GLY B:512 , LYS B:513 , ARG B:514BINDING SITE FOR RESIDUE CIT A 615
4AC4SOFTWAREVAL A:502 , ALA B:500 , GLY B:501 , TRP B:603BINDING SITE FOR RESIDUE GOL B 1
5AC5SOFTWAREASP A:595 , GLU A:597 , HOH B:20 , LYS B:499 , THR B:602 , LYS B:605BINDING SITE FOR RESIDUE GOL B 614
6AC6SOFTWARELYS B:518 , TRP B:520 , SER B:574 , SER B:575 , ARG B:576BINDING SITE FOR RESIDUE CIT B 615
7AC7SOFTWAREHOH A:169 , HOH A:173 , LYS A:511 , SER A:550 , LYS A:551 , HOH B:123 , GLU B:556 , TYR B:557 , THR B:558BINDING SITE FOR RESIDUE CIT B 616

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3PP2)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3PP2)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3PP2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3PP2)

(-) Exons   (0, 0)

(no "Exon" information available for 3PP2)

(-) 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 A from PDB  Type:PROTEIN  Length:112
 aligned with RHG27_HUMAN | Q6ZUM4 from UniProtKB/Swiss-Prot  Length:889

    Alignment length:115
                                   507       517       527       537       547       557       567       577       587       597       607     
          RHG27_HUMAN   498 DKAGVLHRTKTADKGKRLRKKHWSASWTVLEGGVLTFFKDSKTSAAGGLRQPSKFSTPEYTVELRGATLSWAPKDKSSRKNVLELRSRDGSEYLIQHDSEAIISTWHKAIAQGIQ 612
               SCOP domains ------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee..ee......eeeeeeee..eeeee......---...hhhhhh.eeeeee....eeee.hhhhh....eeeee.....eeeee..hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 3pp2 A 498 DKAGVLHRTKTADKGKRLRKKHWSASWTVLEGGVLTFFKDSKTS---GLRQPSKFSTPEYTVELRGATLSWAPKDKSSRKNVLELRSRDGSEYLIQHDSEAIISTWHKAIAQGIQ 612
                                   507       517       527       537   |   547       557       567       577       587       597       607     
                                                                     541 545                                                                   


Chain B from PDB  Type:PROTEIN  Length:110
 aligned with RHG27_HUMAN | Q6ZUM4 from UniProtKB/Swiss-Prot  Length:889

    Alignment length:116
                                   506       516       526       536       546       556       566       576       586       596       606      
          RHG27_HUMAN   497 LDKAGVLHRTKTADKGKRLRKKHWSASWTVLEGGVLTFFKDSKTSAAGGLRQPSKFSTPEYTVELRGATLSWAPKDKSSRKNVLELRSRDGSEYLIQHDSEAIISTWHKAIAQGIQ 612
               SCOP domains -------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) PH-3pp2B01 B:497-612                                                                                                 Pfam domains (1)
           Pfam domains (2) PH-3pp2B02 B:497-612                                                                                                 Pfam domains (2)
         Sec.struct. author .eeeeeeeeeeeee..ee......eeeeeeee..eeeee...------...hhhhh..eeeeee....eeee...........eeee.....eeeee..hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 3pp2 B 497 LDKAGVLHRTKTADKGKRLRKKHWSASWTVLEGGVLTFFKDS------GLRQPSKFSTPEYTVELRGATLSWAPKDKSSRKNVLELRSRDGSEYLIQHDSEAIISTWHKAIAQGIQ 612
                                   506       516       526       536 |     546       556       566       576       586       596       606      
                                                                   538    545
   Legend:   → Mismatch (orange background)
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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 3PP2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3PP2)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: PH (111)
(-)
Family: PH (71)
(-)
Homo sapiens (Human) (42)
1aPH-3pp2B01B:497-612
1bPH-3pp2B02B:497-612

(-) Gene Ontology  (11, 11)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (RHG27_HUMAN | Q6ZUM4)
molecular function
    GO:0005096    GTPase activator activity    Binds to and increases the activity of a GTPase, an enzyme that catalyzes the hydrolysis of GTP.
    GO:0017124    SH3 domain binding    Interacting selectively and non-covalently with a SH3 domain (Src homology 3) of a protein, small protein modules containing approximately 50 amino acid residues found in a great variety of intracellular or membrane-associated proteins.
biological process
    GO:0006897    endocytosis    A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    GO:0006898    receptor-mediated endocytosis    An endocytosis process in which cell surface receptors ensure specificity of transport. A specific receptor on the cell surface binds tightly to the extracellular macromolecule (the ligand) that it recognizes; the plasma-membrane region containing the receptor-ligand complex then undergoes endocytosis, forming a transport vesicle containing the receptor-ligand complex and excluding most other plasma-membrane proteins. Receptor-mediated endocytosis generally occurs via clathrin-coated pits and vesicles.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    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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