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(-) Description

Title :  ELASTASE OF PSEUDOMONAS AERUGINOSA WITH AN INHIBITOR
 
Authors :  E. Bitto, D. B. Mckay
Date :  25 Jul 04  (Deposition) - 24 Aug 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym./Biol. Unit :  A
Keywords :  X-Ray Structure; Elastase; Inhibition; Peptidase Family M4, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Bitto, D. B. Mckay
Elastase Of Pseudomonas Aeruginosa With An Inhibitor
To Be Published 2004
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ELASTASE
    Chains: A
    EC Number: 3.4.24.26
    Organism Scientific: PSEUDOMONAS AERUGINOSA
    Organism Taxid: 287
    Other Details: INHIBITED BY HPI
    Other Details - Source: PROTEIN FROM NAGASE, JAPAN;
ISOLATED AS EXTRACELLULAR PROTEASE FROM CULTURES OF PSEUDOMONAS AERUGINOSA
    Secretion: EXTRACELLULAR
    Synonym: PSEUDOLYSIN;
NEUTRAL METALLOPROTEINASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 4)

Asymmetric/Biological Unit (4, 4)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2HPI1Ligand/IonN-(1-CARBOXY-3-PHENYLPROPYL)PHENYLALANYL-ALPHA-ASPARAGINE
3SO41Ligand/IonSULFATE ION
4ZN1Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:140 , HIS A:144 , GLU A:164 , HPI A:800BINDING SITE FOR RESIDUE ZN A 9800
2AC2SOFTWAREASP A:136 , GLU A:172 , GLU A:175 , ASP A:183 , LEU A:185BINDING SITE FOR RESIDUE CA A 401
3AC3SOFTWAREGLY A:241 , LYS A:246 , TYR A:281 , SER A:282 , HOH A:815 , HOH A:9819 , HOH A:9967BINDING SITE FOR RESIDUE SO4 A 400
4AC4SOFTWAREASN A:112 , ALA A:113 , TYR A:114 , VAL A:137 , HIS A:140 , GLU A:141 , HIS A:144 , GLU A:164 , ILE A:186 , GLY A:187 , LEU A:197 , ARG A:198 , HIS A:223 , SER A:239 , ARG A:288 , ZN A:9800 , HOH A:9810 , HOH A:9856BINDING SITE FOR RESIDUE HPI A 800

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:30 -A:58

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Cys A:58 -Pro A:59
2Tyr A:63 -Lys A:64

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (5, 5)

Asymmetric/Biological Unit (5, 5)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_ELAS_PSEAE_004 *K211IELAS_PSEAE  ---  ---AK14I
2UniProtVAR_ELAS_PSEAE_005 *S241GELAS_PSEAE  ---  ---AS44G
3UniProtVAR_ELAS_PSEAE_006 *K282DELAS_PSEAE  ---  ---AK85D
4UniProtVAR_ELAS_PSEAE_007 *M325VELAS_PSEAE  ---  ---AM128V
5UniProtVAR_ELAS_PSEAE_008 *R471SELAS_PSEAE  ---  ---AR274S
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ZINC_PROTEASEPS00142 Neutral zinc metallopeptidases, zinc-binding region signature.ELAS_PSEAE334-343  1A:137-146

(-) Exons   (0, 0)

(no "Exon" information available for 1U4G)

(-) 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:298
 aligned with ELAS_PSEAE | P14756 from UniProtKB/Swiss-Prot  Length:498

    Alignment length:298
                                   207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487        
           ELAS_PSEAE   198 AEAGGPGGNQKIGKYTYGSDYGPLIVNDRCEMDDGNVITVDMNSSTDDSKTTPFRFACPTNTYKQVNGAYSPLNDAHFFGGVVFKLYRDWFGTSPLTHKLYMKVHYGRSVENAYWDGTAMLFGDGATMFYPLVSLDVAAHEVSHGFTEQNSGLIYRGQSGGMNEAFSDMAGEAAEFYMRGKNDFLIGYDIKKGSGALRYMDQPSRDGRSIDNASQYYNGIDVHHSSGVYNRAFYLLANSPGWDTRKAFEVFVDANRYYWTATSNYNSGACGVIRSAQNRNYSAADVTRAFSTVGVTCP 495
               SCOP domains d1u4ga_ A: Elastase                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains 1u4gA01 A:1-152  [code=3.10.170.10, no name defined]                                                                                                    1u4gA02 A:153-298 Neutral Protease Domain 2                                                                                                        CATH domains
               Pfam domains ------Peptidase_M4-1u4gA01 A:7-149                                                                                                                   -Peptidase_M4_C-1u4gA02 A:151-295                                                                                                                 --- Pfam domains
         Sec.struct. author .ee.eeeee...eeeee......ee...........eeeee.............................hhhhhhhhhhhhhhhhhhhhhh.......eeeee........eee....eee...........hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh....eehhhhh......ee..hhhhhh....hhhhh....hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh..hhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------I-----------------------------G----------------------------------------D------------------------------------------V-------------------------------------------------------------------------------------------------------------------------------------------------S------------------------ SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------ZINC_PROTE-------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1u4g A   1 AEAGGPGGNQKIGKYTYGSDYGPLIVNDRCEMDDGNVITVDMNSSTDDSKTTPFRFACPTNTYKQVNGAYSPLNDAHFFGGVVFKLYRDWFGTSPLTHKLYMKVHYGRSVENAYWDGTAMLFGDGATMFYPLVSLDVAAHEVSHGFTEQNSGLIYRGQSGGMNEAFSDMAGEAAEFYMRGKNDFLIGYDIKKGSGALRYMDQPSRDGRSIDNASQYYNGIDVHHSSGVYNRAFYLLANSPGWDTRKAFEVFVDANRYYWTATSNYNSGACGVIRSAQNRNYSAADVTRAFSTVGVTCP 298
                                    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
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Clan: Peptidase_MA (251)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (ELAS_PSEAE | P14756)
molecular function
    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:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004222    metalloendopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
    GO:0008237    metallopeptidase activity    Catalysis of the hydrolysis of peptide bonds by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
    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.
biological process
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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 Related Entries

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

UniProtKB/Swiss-Prot
        ELAS_PSEAE | P14756: 1ezm 3dbk

(-) Related Entries Specified in the PDB File

1ezm STRUCTURE OF ELASTASE WITHOUT INHIBITOR