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(-) Description

Title :  CRYSTAL STRUCTURE OF SELENOMONAS RUMINANTIUM PHYTASE COMPLEXED WITH PERSULFATED PHYTATE
 
Authors :  H. M. Chu, R. T. Guo, T. W. Lin, C. C. Chou, H. L. Shr, H. L. Lai, T. Y. Tang, K. J. Cheng, B. L. Selinger, A. H. -J. Wang
Date :  16 Jul 04  (Deposition) - 09 Nov 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Ptp, P-Loop, Phytase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. M. Chu, R. T. Guo, T. W. Lin, C. C. Chou, H. L. Shr, H. L. Lai, T. Y. Tang, K. J. Cheng, B. L. Selinger, A. H. -J. Wang
Structures Of Selenomonas Ruminantium Phytase In Complex With Persulfated Phytate; Dsp Phytase Fold And Mechanism For Sequential Substrate Hydrolysis
Structure V. 12 2015 2004
PubMed-ID: 15530366  |  Reference-DOI: 10.1016/J.STR.2004.08.010
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MYO-INOSITOL HEXAPHOSPHATE PHOSPHOHYDROLASE
    Chains: A, B
    EC Number: 3.1.3.72
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PET23B
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Organism Scientific: SELENOMONAS RUMINANTIUM
    Organism Taxid: 971
    Synonym: PHYTASE

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1IHS3Ligand/IonD-MYO-INOSITOL-HEXASULPHATE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1IHS2Ligand/IonD-MYO-INOSITOL-HEXASULPHATE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1IHS1Ligand/IonD-MYO-INOSITOL-HEXASULPHATE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG B:46 , ASP B:142 , LYS B:178 , ASP B:212 , HIS B:213 , CYS B:241 , GLU B:242 , ALA B:243 , VAL B:245 , GLY B:246 , ARG B:247 , LYS B:294 , TYR B:298 , LYS B:301 , HOH B:3068 , HOH B:3139 , HOH B:3140 , HOH B:3207 , HOH B:3417 , HOH B:3448 , HOH B:3515BINDING SITE FOR RESIDUE IHS B 2165
2AC2SOFTWAREARG A:46 , ARG A:141 , ASP A:142 , LYS A:178 , ASP A:212 , HIS A:213 , CYS A:241 , GLU A:242 , ALA A:243 , GLY A:244 , VAL A:245 , GLY A:246 , ARG A:247 , LYS A:294 , TYR A:298 , LYS A:301 , HOH A:3036 , HOH A:3212 , HOH A:3369 , HOH A:3421 , HOH A:3488 , HOH A:3553 , HOH A:3675BINDING SITE FOR RESIDUE IHS A 2166
3AC3SOFTWARESER A:149 , GLN A:150 , HIS A:151 , LEU A:154 , ARG A:223 , HOH A:3170 , HOH A:3237 , HOH A:3349 , GLN B:150 , HIS B:151 , LEU B:154 , ARG B:223BINDING SITE FOR RESIDUE IHS A 2167

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1U26)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1U26)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1U26)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1U26)

(-) Exons   (0, 0)

(no "Exon" information available for 1U26)

(-) 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:314
 aligned with Q7WUJ1_SELRU | Q7WUJ1 from UniProtKB/TrEMBL  Length:346

    Alignment length:314
                                                                                                                                                                                                                                                                                                                                                  346 
                                    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  | 
         Q7WUJ1_SELRU    34 TVTEPVGSYARAERPQDFEGFVWRLDNDGKEALPRNFRTSADALRAPEKKFHLDAAYVPSREGMDALHISGSSAFTPAQLKNVAAKLREKTAGPIYDVDLRQESHGYLDGIPVSWYGERDWANLGKSQHEALADERHRLHAALHKTVYIAPLGKHKLPEGGEVRRVQKVQTEQEVAEAAGMRYFRIAATDHVWPTPENIDRFLAFYRTLPQDAWLHFHCEAGVGRTTAFMVMTDMLKNPSVSLKDILYRQHEIGGFYYGEFPIKTKDKDSWKTKYYREKIVMIEQFYRYVQENRADGYQTPWSVWLKSHPAKA-   -
               SCOP domains d1u26a_ A: Myo-inositol hexaphosphate phosphohydrolase (phytase) PhyA                                                                                                                                                                                                                                                      SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhh.eeeeee............ee........hhhhh..........hhhhhheeee...hhhhhhhhhhhhhh.....eeeeeee...eeee..eeeeeee.hhh.....hhhhhhhhhhhhhhhhh..eeeee..hhhhh....eeee...eehhhhhhhhh..eeeeeee......hhhhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhhhh...hhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1u26 A  23 TVTEPVGSYARAERPQDFEGFVWRLDNDGKEALPRNFRTSADALRAPEKKFHLDAAYVPSREGMDALHISGSSAFTPAQLKNVAAKLREKTAGPIYDVDLRQESHGYLDGIPVSWYGERDWANLGKSQHEALADERHRLHAALHKTVYIAPLGKHKLPEGGEVRRVQKVQTEQEVAEAAGMRYFRIAATDHVWPTPENIDRFLAFYRTLPQDAWLHFHCEAGVGRTTAFMVMTDMLKNPSVSLKDILYRQHEIGGFYYGEFPIKTKDKDSWKTKYYREKIVMIEQFYRYVQENRADGYQTPWSVWLKSHPAKAL 336
                                    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    


Chain B from PDB  Type:PROTEIN  Length:313
 aligned with Q7WUJ1_SELRU | Q7WUJ1 from UniProtKB/TrEMBL  Length:346

    Alignment length:313
                                                                                                                                                                                                                                                                                                                                                 346 
                                    44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344 | 
         Q7WUJ1_SELRU    35 VTEPVGSYARAERPQDFEGFVWRLDNDGKEALPRNFRTSADALRAPEKKFHLDAAYVPSREGMDALHISGSSAFTPAQLKNVAAKLREKTAGPIYDVDLRQESHGYLDGIPVSWYGERDWANLGKSQHEALADERHRLHAALHKTVYIAPLGKHKLPEGGEVRRVQKVQTEQEVAEAAGMRYFRIAATDHVWPTPENIDRFLAFYRTLPQDAWLHFHCEAGVGRTTAFMVMTDMLKNPSVSLKDILYRQHEIGGFYYGEFPIKTKDKDSWKTKYYREKIVMIEQFYRYVQENRADGYQTPWSVWLKSHPAKA-   -
               SCOP domains d1u26b_ B: Myo-inositol hexaphosphate phosphohydrolase (phytase) PhyA                                                                                                                                                                                                                                                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhh.eeeeee............ee........hhhhh................eeee...hhhhhhhhhhhhhh.....eeeeeee...eeee..eeeeeee.hhh.....hhhhhhhhhhhhhhhhh..eeeee..hhhhh....eeee...eehhhhhhhh...eeeeeee......hhhhhhhhhhhhhh.....eeeee....hhhhhhhhhhhhhhhh...hhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1u26 B  24 VTEPVGSYARAERPQDFEGFVWRLDNDGKEALPRNFRTSADALRAPEKKFHLDAAYVPSREGMDALHISGSSAFTPAQLKNVAAKLREKTAGPIYDVDLRQESHGYLDGIPVSWYGERDWANLGKSQHEALADERHRLHAALHKTVYIAPLGKHKLPEGGEVRRVQKVQTEQEVAEAAGMRYFRIAATDHVWPTPENIDRFLAFYRTLPQDAWLHFHCEAGVGRTTAFMVMTDMLKNPSVSLKDILYRQHEIGGFYYGEFPIKTKDKDSWKTKYYREKIVMIEQFYRYVQENRADGYQTPWSVWLKSHPAKAL 336
                                    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
   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, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1U26)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1U26)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q7WUJ1_SELRU | Q7WUJ1)
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:0016791    phosphatase activity    Catalysis of the hydrolysis of phosphoric monoesters, releasing inorganic phosphate.
    GO:0004725    protein tyrosine phosphatase activity    Catalysis of the reaction: protein tyrosine phosphate + H2O = protein tyrosine + phosphate.
biological process
    GO:0016311    dephosphorylation    The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
    GO:0035335    peptidyl-tyrosine dephosphorylation    The removal of phosphoric residues from peptidyl-O-phospho-tyrosine to form peptidyl-tyrosine.

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 Related Entries

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

UniProtKB/TrEMBL
        Q7WUJ1_SELRU | Q7WUJ1: 1u24 1u25 2b4o 2b4p 2b4u 2psz 2pt0 3d1h 3d1o 3d1q 3mmj 3moz 3o3l 4wty 4wu2

(-) Related Entries Specified in the PDB File

1u24 THE SAME PROTEIN
1u25 THE SAME PROTEIN COMPLEXED WITH PERSULFATED PHYTATE IN THE C2221 CRYSTAL FORM