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(-) Description

Title :  ASAP1 INACTIVE MUTANT E294Q, 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 :  2.00
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
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
    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

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 7)

Asymmetric Unit (4, 7)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2MES1Ligand/Ion2-(N-MORPHOLINO)-ETHANESULFONIC ACID
3SO43Ligand/IonSULFATE ION
4ZN1Ligand/IonZINC ION
Biological Unit 1 (3, 12)
No.NameCountTypeFull Name
1GOL4Ligand/IonGLYCEROL
2MES2Ligand/Ion2-(N-MORPHOLINO)-ETHANESULFONIC ACID
3SO46Ligand/IonSULFATE ION
4ZN-1Ligand/IonZINC ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:84 , LYS A:85 , HIS A:293 , HIS A:297 , ASP A:306BINDING SITE FOR RESIDUE ZN A1341
2AC2SOFTWARESER A:62 , ASP A:64 , ALA A:82 , CYS A:254 , GLN A:256 , TYR A:258 , TYR A:261 , HOH A:2194 , HOH A:2195 , HOH A:2196BINDING SITE FOR RESIDUE MES A1342
3AC3SOFTWAREGLN A:106 , TYR A:224 , SER A:225 , SER A:226 , HOH A:2059 , HOH A:2197BINDING SITE FOR RESIDUE SO4 A1343
4AC4SOFTWARELEU A:149 , TRP A:150 , PRO A:280 , VAL A:281 , THR A:282BINDING SITE FOR RESIDUE SO4 A1344
5AC5SOFTWAREARG A:218 , ALA A:223 , TYR A:224BINDING SITE FOR RESIDUE SO4 A1345
6AC6SOFTWAREARG A:124 , ASN A:145 , ALA A:146BINDING SITE FOR RESIDUE GOL A1346
7AC7SOFTWAREGLY A:61 , GLN A:106 , ALA A:107 , GLU A:108 , LEU A:112 , ARG A:180 , HOH A:2198 , HOH A:2199BINDING SITE FOR RESIDUE GOL A1347

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:181 -A:252
2A:254 -A:273

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Pro A:267 -Tyr A:268
2Thr A:339 -Pro A:340

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2X3A)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2X3A)

(-) Exons   (0, 0)

(no "Exon" information available for 2X3A)

(-) 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:293
 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 Peptidase_M35-2x3aA01 A:23-340                                                                                                                                                                                                                                                                                                 Pfam domains
         Sec.struct. author .eeeeeee........eeeeeeee.....eeee.hhh........eeeee..ee.............hhh.eeee....eeeeeee..........eeeeeee.....-----------.....eeeee.........-----------..eeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhh.---hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhheeeee........ee.......eeeehhhhhhh......hhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhh.hhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2x3a A  23 GLDAQLTLVDGSTDDVRVNLTLTNTGDKPIRLLKWQLPGSDDAPLFLVERDGQPVSYEGALIKRAAPTDKDFQLLKAGQSLTVQAEVSGLYDMSAQGQYSIRYQLPAR-----------SESNAITLWVEGVNDERVQ-----------AGSVSFSGRCTNTQKSDLLTALDAASGISNNASSYLAVD---GQRYRSWFGAYSSARWDQAETNFSKIKDAIDNKPLTFDCSCKQSYFAYVYPDQPYKVYLCKSFWTAPVTGSDSRAGTIVHQLSHFNVVAGTDDLGYGQANARNLAKTDPVKALNNADNHEYFAENTP 340
                                    32        42        52        62        72        82        92       102       112       122       | -       142       152       | -       172       182       192       202       | - |     222       232       242       252       262       272       282       292       302       312       322       332        
                                                                                                                                     130         142               160         172                                   210 214
   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 2X3A)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2X3A)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: Peptidase_MA (251)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A   (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: 2x3b 2x3c

(-) Related Entries Specified in the PDB File

2x3b ASAP1 INACTIVE MUTANT E294A, AN EXTRACELLULAR TOXIC ZINC METALLOENDOPEPTIDASE
2x3c ASAP1 INACTIVE MUTANT E294Q, AN EXTRACELLULAR TOXIC ZINC METALLOENDOPEPTIDASE