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(-) Description

Title :  ACTIVE SITE HIS285ALA MUTANT OF LD-CARBOXYPEPTIDASE
 
Authors :  H. J. Korza, M. Bochtler
Date :  28 Aug 05  (Deposition) - 20 Sep 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Ld-Carboxypeptidase, Peptidoglycan Hydrolase, Serine Peptidase, Serine-Histidine-Glutamate Triad, Nucleophilic Elbow (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. J. Korza, M. Bochtler
Pseudomonas Aeruginosa Ld-Carboxypeptidase, A Serine Peptidase With A Ser-His-Glu Triad And A Nucleophilic Elbow.
J. Biol. Chem. V. 280 40802 2005
PubMed-ID: 16162494  |  Reference-DOI: 10.1074/JBC.M506328200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN
    Chains: A, B
    EC Number: 3.4.17.13
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET15BMOD
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: PSEUDOMONAS AERUGINOSA
    Organism Taxid: 287

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2AUN)

(-) Sites  (0, 0)

(no "Site" information available for 2AUN)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2AUN)

(-) 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:294
 aligned with LDC_PSEAE | Q9HTZ1 from UniProtKB/Swiss-Prot  Length:307

    Alignment length:303
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304   
            LDC_PSEAE     5 PSSDQTWQPIDGRVALIAPASAIATDVLEATLRQLEVHGVDYHLGRHVEARYRYLAGTVEQRLEDLHNAFDMPDITAVWCLRGGYGCGQLLPGLDWGRLQAASPRPLIGFSDISVLLSAFHRHGLPAIHGPVATGLGLSPLSAPREQQERLASLASVSRLLAGIDHELPVQHLGGHKQRVEGALIGGNLTALACMAGTLGGLHAPAGSILVLEDVGEPYYRLERSLWQLLESIDARQLGAICLGSFTDCPRKEVAHSLERIFGEYAAAIEVPLYHHLPSGHGAQNRAWPYGKTAVLEGNRLRW 307
               SCOP domains d2auna2 A:5-142 LD-carboxypeptidase A, N-terminal domain                                                                                  ---------d2auna1 A:152-307 LD-carboxypeptidase A, C-terminal domain                                                                                                   SCOP domains
               CATH domains 2aunA01 A:5-170 Class I glutamine amidotransferase-like                                                                                                               2aunA02 A:171-307 LD-carboxypeptidase A C-terminal domain-like                                                                            CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeeee......hhhhhhhhhhhhhhh..eeee.............hhhhhhhhhhhhhhh..eeeeee.....hhhhhhhhhhhhhhhhh....eeehhhhhhhhhhhhhh...eee..hhhhhhh---------hhhhhhhhhhhhhhh....eee.eeee.....eeeeeeeeehhhhhh..............eeeeeee..hhhhhhhhhhhhhhhhhhhhh.eeeeeeee.........hhhhhhhhhhhhhh..eee............eee..eeeee..eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2aun A   5 PSSDQTWQPIDGRVALIAPASAIATEVLEATLRQLEVHGVDYHLGRHVEARYRYLAGTVEQRLEDLHNAFDMPDITAVWCLRGGYGCGQLLPGLDWGRLEAASPRPLIGFSDISVLLSAFHRHGLPAIHGPVATGLGL---------QERLASLASVSRLLAGIDHELPVQHLGGHKQRVEGALIGGNLTALACMAGTLGGLHAPAGSILVLEDVGEPYYRLERSLWQLLESIDARQLGAICLGSFTDCPRKEVAHSLERIFGEYAAAIEVPLYHHLPSGAGAQNRAWPYGKTAVLEGNRLRW 307
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       | -       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304   
                                                                                                                                                                   142       152                                                                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:294
 aligned with LDC_PSEAE | Q9HTZ1 from UniProtKB/Swiss-Prot  Length:307

    Alignment length:301
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306 
            LDC_PSEAE     7 SDQTWQPIDGRVALIAPASAIATDVLEATLRQLEVHGVDYHLGRHVEARYRYLAGTVEQRLEDLHNAFDMPDITAVWCLRGGYGCGQLLPGLDWGRLQAASPRPLIGFSDISVLLSAFHRHGLPAIHGPVATGLGLSPLSAPREQQERLASLASVSRLLAGIDHELPVQHLGGHKQRVEGALIGGNLTALACMAGTLGGLHAPAGSILVLEDVGEPYYRLERSLWQLLESIDARQLGAICLGSFTDCPRKEVAHSLERIFGEYAAAIEVPLYHHLPSGHGAQNRAWPYGKTAVLEGNRLRW 307
               SCOP domains d2aunb2 B:7-142 LD-carboxypeptidase A, N-terminal domain                                                                                ---------d2aunb1 B:152-307 LD-carboxypeptidase A, C-terminal domain                                                                                                   SCOP domains
               CATH domains 2aunB01 B:7-170 Class I glutamine amidotransferase-like                                                                                                             2aunB02 B:171-307 LD-carboxypeptidase A C-terminal domain-like                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeeee......hhhhhhhhhhhhhhh...eee.............hhhhhhhhhhhhhhh..eeeeee.....hhhhhhhhhhhhhhhh.....eeehhhhhhhhhhhhhh...eee..hhhhhhh-------hhhhhhhhhhhhhhhhh....eee.eee......eeeeeeeeehhhhhh..............eeeeeee..hhhhhhhhhhhhhhhhhhhhh.eeeeeeee.........hhhhhhhhhhhhhh..eee............ee...eeeee..eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2aun B   7 SDQTWQPIDGRVALIAPASAIATEVLEATLRQLEVHGVDYHLGRHVEARYRYLAGTVEQRLEDLHNAFDMPDITAVWCLRGGYGCGQLLPGLDWGRLEAASPRPLIGFSDISVLLSAFHRHGLPAIHGPVATGLGL-------EQQERLASLASVSRLLAGIDHELPVQHLGGHKQRVEGALIGGNLTALACMAGTLGGLHAPAGSILVLEDVGEPYYRLERSLWQLLESIDARQLGAICLGSFTDCPRKEVAHSLERIFGEYAAAIEVPLYHHLPSGAGAQNRAWPYGKTAVLEGNRLRW 307
                                    16        26        36        46        56        66        76        86        96       106       116       126       136     |   -   |   156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306 
                                                                                                                                                                 142     150
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 4)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (LDC_PSEAE | Q9HTZ1)
molecular function
    GO:0004180    carboxypeptidase activity    Catalysis of the hydrolysis of the terminal or penultimate peptide bond at the C-terminal end of a peptide or polypeptide.
    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:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
    GO:0008236    serine-type peptidase activity    Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
    GO:0071555    cell wall organization    A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
    GO:0009252    peptidoglycan biosynthetic process    The chemical reactions and pathways resulting in the formation of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls.
    GO:0009254    peptidoglycan turnover    The continual breakdown and regeneration of peptidoglycan required to maintain the cell wall.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0008360    regulation of cell shape    Any process that modulates the surface configuration of a cell.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

UniProtKB/Swiss-Prot
        LDC_PSEAE | Q9HTZ1: 1zl0 1zrs 2aum

(-) Related Entries Specified in the PDB File

1zrs WILD-TYPE LD-CARBOXYPEPTIDASE
2aum ACTIVE SITE SER115ALA MUTANT OF LD-CARBOXYPEPTIDASE