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(-) Description

Title :  CRYSTAL STRUCTURE OF THE PHYTASE FROM D. CASTELLII AT 2.3 A
 
Authors :  F. Hoh
Date :  22 Mar 06  (Deposition) - 27 Mar 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.29
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  3-Phytase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Ragon, F. Hoh, A. Aumelas, L. Chiche, G. Moulin, H. Boze
Structure Of Debaryomyces Castellii Cbs 2923 Phytase.
Acta Crystallogr. , Sect. F V. 65 321 2009
PubMed-ID: 19342770  |  Reference-DOI: 10.1107/S1744309109008653

(-) Compounds

Molecule 1 - PHYTASE
    Chains: A, B
    EC Number: 3.1.3.8
    Engineered: YES
    Expression System: DEBARYOMYCES CASTELLII
    Expression System Taxid: 27295
    Organism Scientific: DEBARYOMYCES CASTELLII
    Organism Taxid: 27295
    Strain: CBS 2923

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 5)

Asymmetric Unit (1, 5)
No.NameCountTypeFull Name
1NAG5Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 1 (1, 10)
No.NameCountTypeFull Name
1NAG10Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:307 , SER A:310 , ASN A:314 , THR A:429 , HOH A:1027 , HOH A:1039 , HOH A:1043 , HOH A:1081BINDING SITE FOR RESIDUE NAG A 800
2AC2SOFTWAREASP A:202 , PHE A:215 , ASN A:437 , ASN A:438 , ASN A:439BINDING SITE FOR RESIDUE NAG A 801
3AC3SOFTWAREVAL B:307 , ASN B:314 , VAL B:426 , THR B:429 , HOH B:1027 , HOH B:1092 , HOH B:1094BINDING SITE FOR RESIDUE NAG B 900
4AC4SOFTWAREALA A:88 , LYS A:92 , THR A:251 , ASP A:253 , ASP A:254 , HOH A:918 , ASP B:202 , PHE B:215 , ASN B:438 , ASN B:439 , HOH B:1217BINDING SITE FOR RESIDUE NAG B 901
5AC5SOFTWAREASN B:158 , THR B:251 , GLU B:252 , ASP B:253 , HOH B:998BINDING SITE FOR RESIDUE NAG B 902

(-) SS Bonds  (7, 7)

Asymmetric Unit
No.Residues
1A:214 -A:435
2A:262 -A:275
3A:405 -A:413
4B:62 -B:385
5B:214 -B:435
6B:262 -B:275
7B:405 -B:413

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Phe A:362 -Pro A:363
2Phe B:362 -Pro B:363

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2GFI)

(-) 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:458
 aligned with A2TBB4_9ASCO | A2TBB4 from UniProtKB/TrEMBL  Length:461

    Alignment length:458
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453        
         A2TBB4_9ASCO     4 VSKLINNGLLLVGQGAYQDLASPQQASVEQYNIIRFLGGAAPYIQNKGFGISTDIPDQCTLEQVQLFSRHGERYPSTGSGKKYKAVYEKLMSYNGTFKGELAFLNDDYEYFVPDSVYLEKETSPKNSDSIYAGTTDAMKHGIAFRTKYGELFDTNDTLPVFTSNSGRVYQTSQYFARGFMGDDFSNDTVKTNIISEDADMGANSLTPRDGCFNYNENANTAIVDEYTTEYLTKALNRFKASNPGLNITEDDVSNLFGYCAYELNVKGASPMCDIFTNEEFIQYSYSVDLDDYYSNSAGNNMTRVIGSTLLNASLELLNHDKNENKIWLSFTHDTDIEIFHSAIGILIPDEDLPVDYTPFPSPYSHVGITPQGARTIIEKYACGNESYVRYVINDAVIPIKKCSSGPGFSCNLNDYNDYVAERVAGTNYVEQCGNNNASAVTFYWDYETTNYTASLINS 461
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhh...hhhhh.hhhhhhhhhh.....................eeeeeeeeeee......hhhhhhhhhhhhhhhhh.....hhhhhhhhh.......hhhhh.............hhhhhhhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhhhh....eeeeee..hhhhh....hhhhhh.......hhhhhh...hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh......eeeeeehhhhhhhhhhhhh...................hhhhhh....eeeeeeeee..eeeeeeee..eee.......hhhhheehhhhhhhhhhhhh..hhhhhhh.......hhhhhh............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gfi A   4 VSKLINNGLLLVGQGAYQDLASPQQASVEQYNIIRFLGGAAPYIQNKGFGISTDIPDQCTLEQVQLFSRHGERYPSTGSGKKYKAVYEKLMSYNGTFKGELAFLNDDYEYFVPDSVYLEKETSPKNSDSIYAGTTDAMKHGIAFRTKYGELFDTNDTLPVFTSNSGRVYQTSQYFARGFMGDDFSNDTVKTNIISEDADMGANSLTPRDGCFNYNENANTAIVDEYTTEYLTKALNRFKASNPGLNITEDDVSNLFGYCAYELNVKGASPMCDIFTNEEFIQYSYSVDLDDYYSNSAGNNMTRVIGSTLLNASLELLNHDKNENKIWLSFTHDTDIEIFHSAIGILIPDEDLPVDYTPFPSPYSHVGITPQGARTIIEKYACGNESYVRYVINDAVIPIKKCSSGPGFSCNLNDYNDYVAERVAGTNYVEQCGNNNASAVTFYWDYETTNYTASLINS 461
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453        


Chain B from PDB  Type:PROTEIN  Length:458
 aligned with A2TBB4_9ASCO | A2TBB4 from UniProtKB/TrEMBL  Length:461

    Alignment length:458
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453        
         A2TBB4_9ASCO     4 VSKLINNGLLLVGQGAYQDLASPQQASVEQYNIIRFLGGAAPYIQNKGFGISTDIPDQCTLEQVQLFSRHGERYPSTGSGKKYKAVYEKLMSYNGTFKGELAFLNDDYEYFVPDSVYLEKETSPKNSDSIYAGTTDAMKHGIAFRTKYGELFDTNDTLPVFTSNSGRVYQTSQYFARGFMGDDFSNDTVKTNIISEDADMGANSLTPRDGCFNYNENANTAIVDEYTTEYLTKALNRFKASNPGLNITEDDVSNLFGYCAYELNVKGASPMCDIFTNEEFIQYSYSVDLDDYYSNSAGNNMTRVIGSTLLNASLELLNHDKNENKIWLSFTHDTDIEIFHSAIGILIPDEDLPVDYTPFPSPYSHVGITPQGARTIIEKYACGNESYVRYVINDAVIPIKKCSSGPGFSCNLNDYNDYVAERVAGTNYVEQCGNNNASAVTFYWDYETTNYTASLINS 461
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhh...hhhhh.hhhhhhhhhh.....................eeeeeeeeeee......hhhhhhhhhhhhhhhhh.....hhhhhhhhh.......hhhhh.............hhhhhhhhhhhhhhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhhhh....eeeeee..hhhhh....hhhhhh.......hhhhhhh..hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh......eeeeeehhhhhhhhhhhhh...................hhhhhh....eeeeeeeee..eeeeeeee..eee............eehhhhhhhhhhhhh..hhhhhhh.......hhhhhh............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gfi B   4 VSKLINNGLLLVGQGAYQDLASPQQASVEQYNIIRFLGGAAPYIQNKGFGISTDIPDQCTLEQVQLFSRHGERYPSTGSGKKYKAVYEKLMSYNGTFKGELAFLNDDYEYFVPDSVYLEKETSPKNSDSIYAGTTDAMKHGIAFRTKYGELFDTNDTLPVFTSNSGRVYQTSQYFARGFMGDDFSNDTVKTNIISEDADMGANSLTPRDGCFNYNENANTAIVDEYTTEYLTKALNRFKASNPGLNITEDDVSNLFGYCAYELNVKGASPMCDIFTNEEFIQYSYSVDLDDYYSNSAGNNMTRVIGSTLLNASLELLNHDKNENKIWLSFTHDTDIEIFHSAIGILIPDEDLPVDYTPFPSPYSHVGITPQGARTIIEKYACGNESYVRYVINDAVIPIKKCSSGPGFSCNLNDYNDYVAERVAGTNYVEQCGNNNASAVTFYWDYETTNYTASLINS 461
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453
   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  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (A2TBB4_9ASCO | A2TBB4)
molecular function
    GO:0016158    3-phytase activity    Catalysis of the reaction: myo-inositol hexakisphosphate + H2O = D-myo-inositol 1,2,4,5,6-pentakisphosphate + phosphate.
    GO:0003993    acid phosphatase activity    Catalysis of the reaction: an orthophosphoric monoester + H2O = an alcohol + phosphate, with an acid pH optimum.
    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:0016791    phosphatase activity    Catalysis of the hydrolysis of phosphoric monoesters, releasing inorganic phosphate.
biological process
    GO:0016311    dephosphorylation    The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.

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