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(-) Description

Title :  ASAP1 INACTIVE MUTANT E294A, AN EXTRACELLULAR TOXIC ZINC METALLOENDOPEPTIDASE
 
Authors :  X. Bogdanovic, G. J. Palm, R. K. Singh, W. Hinrichs
Date :  22 Jan 10  (Deposition) - 02 Feb 11  (Release) - 12 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.28
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Bogdanovic, G. J. Palm, J. Schwenteit, R. K. Singh, B. K. Gudmundsdottir, W. Hinrichs
Structural Evidence Of Intramolecular Propeptide Inhibition Of The Aspzincin Metalloendopeptidase Asap1.
Febs Lett. V. 590 3280 2016
PubMed-ID: 27528449  |  Reference-DOI: 10.1002/1873-3468.12356
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TOXIC EXTRACELLULAR ENDOPEPTIDASE
    Chains: A, B
    EC Number: 3.4.24.39
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: PRI3715
    Expression System Taxid: 562
    Expression System Vector: PJOE E3075
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: AEROMONAS SALMONICIDA SUBSP. ACHROMOGENES
    Organism Taxid: 113288
    Strain: KELDUR265-87

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1ZN2Ligand/IonZINC ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:84 , LYS A:85 , HIS B:293 , HIS B:297 , ASP B:306 , HOH B:2116BINDING SITE FOR RESIDUE ZN B1341
2AC2SOFTWAREHIS A:293 , HIS A:297 , ASP A:306 , HOH A:2139 , ILE B:84 , LYS B:85BINDING SITE FOR RESIDUE ZN A1341

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:181 -A:252
2A:254 -A:273
3B:181 -B:252
4B:254 -B:273

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Pro A:267 -Tyr A:268
2Pro B:267 -Tyr B:268

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2X3B)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2X3B)

(-) Exons   (0, 0)

(no "Exon" information available for 2X3B)

(-) 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:295
 aligned with Q8GMV9_AERSA | Q8GMV9 from UniProtKB/TrEMBL  Length:343

    Alignment length:318
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332        
         Q8GMV9_AERSA    23 GLDAQLTLVDGSTDDVRVNLTLTNTGDKPIRLLKWQLPGSDDAPLFLVERDGQPVSYEGALIKRAAPTDKDFQLLKAGQSLTVQAEVSGLYDMSAQGQYSIRYQLPARRKRPRAKQAQASESNAITLWVEGVNDERVQAKVAAAEPQAVAGSVSFSGRCTNTQKSDLLTALDAASGISNNASSYLAVDKPDGQRYRSWFGAYSSARWDQAETNFSKIKDAIDNKPLTFDCSCKQSYFAYVYPDQPYKVYLCKSFWTAPVTGSDSRAGTIVHELSHFNVVAGTDDLGYGQANARNLAKTDPVKALNNADNHEYFAENTP 340
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee........eeeeeeee.....eeee.hhh........eeeee..ee......eee....hhh.eeee....eeeeeee..........eeeeeeee.....----------.eeeeeeeee........-------------.eeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhheeeee........eee......eeeehhhhhhh......hhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhh.hhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2x3b A  23 GLDAQLTLVDGSTDDVRVNLTLTNTGDKPIRLLKWQLPGSDDAPLFLVERDGQPVSYEGALIKRAAPTDKDFQLLKAGQSLTVQAEVSGLYDMSAQGQYSIRYQLPARR----------SESNAITLWVEGVNDERV-------------GSVSFSGRCTNTQKSDLLTALDAASGISNNASSYLAVDKPDGQRYRSWFGAYSSARWDQAETNFSKIKDAIDNKPLTFDCSCKQSYFAYVYPDQPYKVYLCKSFWTAPVTGSDSRAGTIVHALSHFNVVAGTDDLGYGQANARNLAKTDPVKALNNADNHEYFAENTP 340
                                    32        42        52        62        72        82        92       102       112       122        |-       142       152      |  -         -|      182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332        
                                                                                                                                      131        142              159           173                                                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:290
 aligned with Q8GMV9_AERSA | Q8GMV9 from UniProtKB/TrEMBL  Length:343

    Alignment length:318
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332        
         Q8GMV9_AERSA    23 GLDAQLTLVDGSTDDVRVNLTLTNTGDKPIRLLKWQLPGSDDAPLFLVERDGQPVSYEGALIKRAAPTDKDFQLLKAGQSLTVQAEVSGLYDMSAQGQYSIRYQLPARRKRPRAKQAQASESNAITLWVEGVNDERVQAKVAAAEPQAVAGSVSFSGRCTNTQKSDLLTALDAASGISNNASSYLAVDKPDGQRYRSWFGAYSSARWDQAETNFSKIKDAIDNKPLTFDCSCKQSYFAYVYPDQPYKVYLCKSFWTAPVTGSDSRAGTIVHELSHFNVVAGTDDLGYGQANARNLAKTDPVKALNNADNHEYFAENTP 340
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) Peptidase_M35-2x3bB01 B:23-340                                                                                                                                                                                                                                                                                                 Pfam domains (1)
           Pfam domains (2) Peptidase_M35-2x3bB02 B:23-340                                                                                                                                                                                                                                                                                                 Pfam domains (2)
         Sec.struct. author .eeeeeee........eeeeeeee.....eeee.hhh........eeeee..ee......eee....hhh.eeee....eeeeeee..........eeeeeee.---------------.....eeeee........-------------.eeeee...hhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhheeeee........eee......eeeehhhhhhh......hhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhh.hhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2x3b B  23 GLDAQLTLVDGSTDDVRVNLTLTNTGDKPIRLLKWQLPGSDDAPLFLVERDGQPVSYEGALIKRAAPTDKDFQLLKAGQSLTVQAEVSGLYDMSAQGQYSIRYQ---------------SESNAITLWVEGVNDERV-------------GSVSFSGRCTNTQKSDLLTALDAASGISNNASSYLAVDKPDGQRYRSWFGAYSSARWDQAETNFSKIKDAIDNKPLTFDCSCKQSYFAYVYPDQPYKVYLCKSFWTAPVTGSDSRAGTIVHALSHFNVVAGTDDLGYGQANARNLAKTDPVKALNNADNHEYFAENTP 340
                                    32        42        52        62        72        82        92       102       112       122   |     -       142       152      |  -         -|      182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332        
                                                                                                                                 126             142              159           173
   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  (0, 0)

(no "SCOP Domain" information available for 2X3B)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2X3B)

(-) Pfam Domains  (1, 2)

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

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q8GMV9_AERSA | Q8GMV9)
molecular function
    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.
biological process
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

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 Related Entries

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        Q8GMV9_AERSA | Q8GMV9: 2x3a 2x3c

(-) Related Entries Specified in the PDB File

2x3a ASAP1 INACTIVE MUTANT E294Q, AN EXTRACELLULAR TOXIC ZINC METALLOENDOPEPTIDASE
2x3c ASAP1 INACTIVE MUTANT E294Q, AN EXTRACELLULAR TOXIC ZINC METALLOENDOPEPTIDASE