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(-) Description

Title :  CRYSTAL STRUCTURE OF PEPTIDOGLYCAN HYDROLASE FROM SPHINGOMONAS SP. A1
 
Authors :  A. Ochiai, B. Mikami, W. Hashimoto, K. Murata
Date :  19 Jan 09  (Deposition) - 03 Feb 09  (Release) - 21 Apr 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.74
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. Hashimoto, A. Ochiai, K. Momma, T. Itoh, B. Mikami, Y. Maruyama, K. Murata
Crystal Structure Of The Glycosidase Family 73 Peptidoglycan Hydrolase Flgj
Biochem. Biophys. Res. Commun. V. 381 16 2009
PubMed-ID: 19351587  |  Reference-DOI: 10.1016/J.BBRC.2009.01.186
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PEPTIDOGLYCAN HYDROLASE FLGJ
    Chains: A
    EC Number: 3.2.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21D
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 152-313
    Gene: FLGJ
    Mutation: YES
    Organism Scientific: SPHINGOMONAS SP. A1
    Organism Taxid: 90322

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1PO41Ligand/IonPHOSPHATE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:153 , GLN A:154 , ARG A:303 , HOH A:522 , HOH A:532 , HOH A:576BINDING SITE FOR RESIDUE PO4 A 401

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2ZYC)

(-) 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:156
 aligned with B7XH69_9SPHN | B7XH69 from UniProtKB/TrEMBL  Length:313

    Alignment length:163
                                                                                                                                                                                          313  
                                   162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312|  
         B7XH69_9SPHN   153 PQAFVDATWPQAAKAAQSLGVPAHFLVAQAALETGWGKSQIRNKDGTPSYNLFNIKAGSNWTGKVVEARTVEYENGQRKVRVERFRAYDSYEQAFQDYADLVGNSPRYAKVAGKTDGHAFARALQEGGYATDPSYADKLARVINGNALRQRLMASAASARG--   -
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------Glucosaminidase-2zycA01 A:160-300                                                                                                            --------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh............................eeeeeee.-------..eeeeeee..hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2zyc A 153 AQAFVDATWPQAAKAAQSLGVPAHFLVAQAALETGWGKSQIRNKDGTPSYNLFNIKAGSNWTGKVVEARTV-------KVRVERFRAYDSYEQAFQDYADLVGNSPRYAKVAGKTDGHAFARALQEGGYATDPSYADKLARVINGNALRQRLMASAASARGLE 315
                                   162       172       182       192       202       212       222|      232       242       252       262       272       282       292       302       312   
                                                                                                223     231
   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  (0, 0)

(no "SCOP Domain" information available for 2ZYC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Lysozyme (266)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (B7XH69_9SPHN | B7XH69)
molecular function
    GO:0004040    amidase activity    Catalysis of the reaction: a monocarboxylic acid amide + H2O = a monocarboxylate + NH3.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016798    hydrolase activity, acting on glycosyl bonds    Catalysis of the hydrolysis of any glycosyl bond.
biological process
    GO:0044780    bacterial-type flagellum assembly    The assembly of a bacterial-type flagellum, a motor complex composed of an extracellular helical protein filament coupled to a rotary motor embedded in the cell envelope which functions in cell motility.

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 Related Entries

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UniProtKB/TrEMBL
        B7XH69_9SPHN | B7XH69: 3k3t 3vwo

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