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(-) Description

Title :  CRYSTAL STRUCTURE OF THE SAPOSIN-LIKE DOMAIN OF PLANT ASPARTIC PROTEASE FROM SOLANUM TUBEROSUM
 
Authors :  P. Bhaumik, A. Wlodawer
Date :  06 Apr 11  (Deposition) - 15 Jun 11  (Release) - 24 Aug 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Aspartic Protease, Psi, Saposin, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  B. C. Bryksa, P. Bhaumik, E. Magracheva, D. C. De Moura, M. Kurylowicz A. Zdanov, J. R. Dutcher, A. Wlodawer, R. Y. Yada
Structure And Mechanism Of The Saposin-Like Domain Of A Plant Aspartic Protease.
J. Biol. Chem. V. 286 28265 2011
PubMed-ID: 21676875  |  Reference-DOI: 10.1074/JBC.M111.252619

(-) Compounds

Molecule 1 - ASP
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET32B(+)
    Expression System StrainROSETTA-GAMI B (DE3)PLYSS
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentSTAP_PSI (UNP RESIDUES 301-403)
    Organism CommonPOTATOES
    Organism ScientificSOLANUM TUBEROSUM
    Organism Taxid4113

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

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(-) Sites  (0, 0)

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(-) SS Bonds  (3, 3)

Asymmetric Unit
No.Residues
1A:6 -A:99
2A:31 -A:71
3A:37 -A:68

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) Sequences/Alignments

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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:80
 aligned with Q6B9W9_SOLTU | Q6B9W9 from UniProtKB/TrEMBL  Length:497

    Alignment length:104
                                   309       319       329       339       349       359       369       379       389       399    
         Q6B9W9_SOLTU   300 GIVSMECKTIVSQYGEMIWDLLVSGVRPDQVCSQAGLCFVDGAQHVSSNIKTVVERETEGSSVGEAPLCTACEMAVVWMQNQLKQEGTKEKVLEYVNQLCEKIP 403
               SCOP domains -------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -Asp-3rfiA01 A:1-103                                                                                     Pfam domains (1)
           Pfam domains (2) ---SapB_2-3rfiA03 A:3-37              ---------------------------SapB_1-3rfiA02 A:65-103                 Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....------------------------.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------- Transcript
                 3rfi A   0 AIVSMECKTIVSQYGEMIWDLLVSGVRPDQVCSQAGLCFV------------------------EAPLCTACEMAVVWMQNQLKQEGTKEKVLEYVNQLCEKIP 103
                                     9        19        29        39         -         -    |   69        79        89        99    
                                                                  39                       64                                       

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 Classification and Annotation

(-) SCOP Domains  (0, 0)

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(-) Pfam Domains  (3, 3)

Asymmetric Unit

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q6B9W9_SOLTU | Q6B9W9)
molecular function
    GO:0004190    aspartic-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which a water molecule bound by the side chains of aspartic residues at the active center acts as a nucleophile.
    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.
biological process
    GO:0006629    lipid metabolic process    The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

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