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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE PEPTIDYL-ARGININE DEIMINASE
 
Authors :  K. R. Rajashankar, R. Kniewel, V. Solorzano, C. D. Lima, New York Stru Genomix Research Consortium (Nysgxrc)
Date :  13 May 06  (Deposition) - 24 May 06  (Release) - 02 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Hydrolase, Peptidyl-Arginine Deiminase, T1664, Jhp0042, Unknown Function, Structural Genomics, Hypothetical Protein, New York Structural Genomix Research Consortium, Psi, Protein Structure Initiative, Nysgxrc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. R Rajashankar, R. Kniewel, V. Solorzano, C. D. Lima
Crystal Structure Of A Putative Peptidyl-Arginine Deiminase
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE PEPTIDYL-ARGININE DEIMINASE
    Chains: A
    EC Number: 3.5.3.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI B
    Expression System Plasmid: PET T7
    Expression System Strain: B834(DE3)
    Expression System Taxid: 37762
    Expression System Vector Type: PLASMID
    Organism Scientific: HELICOBACTER PYLORI 26695
    Organism Taxid: 85962

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 8)

Asymmetric Unit (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 16)
No.NameCountTypeFull Name
1MSE16Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 2CMU)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2CMU)

(-) Exons   (0, 0)

(no "Exon" information available for 2CMU)

(-) 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:335
 aligned with O24890_HELPY | O24890 from UniProtKB/TrEMBL  Length:330

    Alignment length:335
                              1                                                                                                                                                                                                                                                                                                                                      330   
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328 |   
         O24890_HELPY     - --MKRMLAEFEKIQAILMAFPHEFSDWAYCIKEARESFLNIIQTIAKHAKVLVCVHTNDIIGYETLKNLPGVEIARIDTNDTWARDFGAISVENHGVLECLDFGFNGWGLKYPSNLDNQVNFKLKSLGFLKHPLKTMPYILEGGSIESDGAGSVLTNTQCLLEKNRNPHLNQNGIENMLKKELGAKQVLWYSYGYLKGDDTDSHTDTLARFLDKDTIVYSTCEDENDEHYTALKKMQEELKTFKKLDGTPYKLIPLEIPKAIFDENQQRLPATYVNFLLCNNALIVPTYNDPKDALILETLKQHTPLEVIGVDCNTLIKQHGSLHCVTMQLY---   -
               SCOP domains --d2cmua1 A:3-332 Putative peptidyl-arginine deiminase                                                                                                                                                                                                                                                                                      --- SCOP domains
               CATH domains -2cmuA00 A:2-335 L-arginine/glycine Amidinotransferase; Chain A                                                                                                                                                                                                                                                                                 CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee........eeeee.....hhhhhhhhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhh....eeeee......hhhhhh.eeeee..eeeeeeee.hhhhhh....hhhhhhhhhhhh......eeeeeee.hhh.eee....eeeeehhhhh........hhhhhhhhhhhhh...eeeee............hhhh.eeeee..eeeeee.......hhhhhhhhhhhhhh.........eeeeee....................eee..eeeeee....hhhhhhhhhhh....eeeeee..hhhhhh..hhhhheee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cmu A   1 mSLKRmLAEFEKIQAILmAFPHEFSDWAYCIKEARESFLNIIQTIAKHAKVLVCVHTNDTIGYEmLKNLPGVEIAKVDTNDTWARDFGAISIENHGVLECLDFGFNGWGLKYPSNLDNQVNFKLKSLGFLKHPLKTmPYVLEGGSIESDGAGSILTNTQCLLEKNRNPHLNQNGIETmLKKELGAKQVLWYSYGYLKGDDTDSHTDTLARFLDKDTIVYSACEDKNDEHYTALKKmQEELKTFKKLDKTPYKLIPLEIPKAIFDENQQRLPATYVNFLLCNDALIVPTYNDPKDALILETLKQHTPLEVIGVDCNTLIKQHGSLHCVTmQLYEGG 335
                            |    |  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     
                            |    |          18-MSE                                         65-MSE                                                                 137-MSE                                  178-MSE                                                   236-MSE                                                                                      329-MSE  
                            1-MSE|                                                                                                                                                                                                                                                                                                                                         
                                 6-MSE
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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 Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A   (O24890_HELPY | O24890)
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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