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(-)Asym./Biol. Unit
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(-) Description

Title :  AGMATINE DEIMINASE FROM HELICOBACTER PYLORI
 
Authors :  J. Jones, L. Lovelace, L. Lebioda, P. Thompson
Date :  16 Jun 09  (Deposition) - 19 Jan 10  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Agmatine Deiminase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. E. Jones, C. P. Causey, L. Lovelace, B. Knuckley, H. Flick, L. Lebioda, P. R. Thompson
Characterization And Inactivation Of An Agmatine Deiminase From Helicobacter Pylori.
Bioorg. Chem. V. 38 62 2010
PubMed-ID: 20036411  |  Reference-DOI: 10.1016/J.BIOORG.2009.11.004

(-) Compounds

Molecule 1 - AGMATINE DEIMINASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: HPAG1_0045, JHP_0042
    Organism Scientific: HELICOBACTER PYLORI
    Organism Taxid: 85963
    Strain: J99

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

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(-) Sites  (0, 0)

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(-) SS Bonds  (0, 0)

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(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) 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:330
 aligned with Q9ZN18_HELPJ | Q9ZN18 from UniProtKB/TrEMBL  Length:330

    Alignment length:330
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330
         Q9ZN18_HELPJ     1 MKRMLAEFEKIQAILMAFPHEFGDWAYCIEEARESFLHIIQTIAKHAKVLVCVHTNDTIGYETLKNLPGVEIARIDTNDTWARDFGAISVENHGVLECLDFGFNGWGLKYPSNLDNQVNFKLKHLGFLKHPLKTMPYILEGGSIESDGAGSILTNTQCLLEKNRNPHLNQNGIETMLKKELGAKQVLWYSYGYLKGDDTDSHTDTLARFLNKDTIVYSACEDENDEHYTALKKMQEELKTFKKLDGTPYKLIPLEIPKAVYNENQQRLPATYVNFLLCNNALIVPTYNDPNDTLILETLRQHTPLEVIGVDCNTLIKQHGSLHCVTMQLY 330
               SCOP domains d3hvma_ A: Putative peptidyl-arginine deiminase                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains 3hvmA00 A:1-330 L-arginine/glycine Amidinotransferase; Chain A                                                                                                                                                                                                                                                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eee........eeeee.....hhhhhhhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhh...eeeee......hhhhhh.eeeee..eeeeeeee.hhhhhh....hhhhhhhhhhhh......eeeeeee.hhh.eee....eeeeehhhhh........hhhhhhhhhhhhhh..eeeee............hhhh.eeeee..eeeeee.......hhhhhhhhhhhhhhh........eeeeee....................eee..eeeeee....hhhhhhhhhhh....eeeeeehhhhhhh..hhhhhheee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3hvm A   1 MKRMLAEFEKIQAILMAFPHEFSDWAYCIKEARESFLNIIQTIAKHAKVLVCVHTNDTIGYEMLKNLPGVEIAKVDTNDTWARDFGAISIENHGVLECLDFGFNGWGLKYPSNLDNQVNFKLKSLGFLKHPLKTMPYVLEGGSIESDGAGSILTNTQCLLEKNRNPHLNQNGIETMLKKELGAKQVLWYSYGYLKGDDTDSHTDTLARFLDKDTIVYSACEDKNDEHYTALKKMQEELKTFKKLDKTPYKLIPLEIPKAIFDENQQRLPATYVNFLLCNDALIVPTYNDPKDALILETLKQHTPLEVIGVDCNTLIKQHGSLHCVTMQLY 330
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330
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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
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q9ZN18_HELPJ | Q9ZN18)
molecular function
    GO:0004668    protein-arginine deiminase activity    Catalysis of the reaction: protein L-arginine + H2O = protein L-citrulline + NH3.
biological process
    GO:0009446    putrescine biosynthetic process    The chemical reactions and pathways resulting in the formation of putrescine, 1,4-diaminobutane; putrescine can be synthesized from arginine or ornithine and is the metabolic precursor of spermidine and spermine.

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