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(-) Description

Title :  STRUCTURE OF TAB5 ALKALINE PHOSPHATASE MUTANT HIS 135 GLU WITH MG BOUND IN THE M3 SITE.
 
Authors :  D. Koutsioulis, A. Lyskowski, S. Maki, E. Guthrie, G. Feller, V. Bouriotis, P. Heikinheimo
Date :  15 Dec 08  (Deposition) - 24 Nov 09  (Release) - 23 Feb 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.99
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Psychrophiles, Cold Adaptation, Alkaline Phosphatase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Koutsioulis, A. Lyskowski, S. Maki, E. Guthrie, G. Feller, V. Bouriotis, P. Heikinheimo
Coordination Sphere Of The Third Metal Site Is Essential To The Activity And Metal Selectivity Of Alkaline Phosphatases.
Protein Sci. V. 19 75 2010
PubMed-ID: 19916164  |  Reference-DOI: 10.1002/PRO.284

(-) Compounds

Molecule 1 - ALKALINE PHOSPHATASE
    Chains: A, B
    EC Number: 3.1.3.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Mutation: YES
    Organism Scientific: ANTARCTIC BACTERIUM TAB5
    Organism Taxid: 82349
    Other Details: PHOSPHOSERINE RESIDUE AT POSITION 84. M1, M2 OCCUPIED BY ZN, M3 BY MG.
    Synonym: TAB5 ALKALINE PHOSPHATASE MUTANT

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric/Biological Unit (3, 10)
No.NameCountTypeFull Name
1MG4Ligand/IonMAGNESIUM ION
2SEP2Mod. Amino AcidPHOSPHOSERINE
3ZN4Ligand/IonZINC ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESEP A:84 , ASP A:259 , HIS A:263 , HIS A:337 , HOH A:2352BINDING SITE FOR RESIDUE ZN A1377
2AC2SOFTWAREASP A:43 , SEP A:84 , ASP A:301 , HIS A:302BINDING SITE FOR RESIDUE ZN A1378
3AC3SOFTWAREASP A:43 , GLU A:135 , THR A:137 , GLU A:254 , HOH A:2143 , HOH A:2144 , HOH A:2263BINDING SITE FOR RESIDUE MG A1379
4AC4SOFTWAREASN A:266 , SER A:268 , HOH A:2244 , HOH A:2270 , HOH A:2272 , HOH A:2274BINDING SITE FOR RESIDUE MG A1380
5AC5SOFTWARESEP B:84 , ASP B:259 , HIS B:263 , HIS B:337 , HOH B:2302BINDING SITE FOR RESIDUE ZN B1377
6AC6SOFTWAREASP B:43 , SEP B:84 , ASP B:301 , HIS B:302BINDING SITE FOR RESIDUE ZN B1378
7AC7SOFTWAREASP B:43 , GLU B:135 , THR B:137 , GLU B:254 , HOH B:2116 , HOH B:2218 , HOH B:2300BINDING SITE FOR RESIDUE MG B1379
8AC8SOFTWAREASN B:266 , SER B:268 , HOH B:2110 , HOH B:2202 , HOH B:2226 , HOH B:2228BINDING SITE FOR RESIDUE MG B1380

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2W5X)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu A:31 -Lys A:32

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2W5X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2W5X)

(-) Exons   (0, 0)

(no "Exon" information available for 2W5X)

(-) 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:346
 aligned with Q9KWY4_9BACT | Q9KWY4 from UniProtKB/TrEMBL  Length:375

    Alignment length:346
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369      
         Q9KWY4_9BACT    30 QLKTPKNVILLISDGAGLSQISSTFYFKEGTPNYTQFKNIGLIKTSSSREDVTDSASGATAFSCGIKTYNAAIGVADDSTAVKSIVEIAALNNIKTGVVATSSITHATPASFYAHALNRGLEEEIAMDMTESDLDFFAGGGLNYFTKRKDKKDVLAILKGNQFTINTTGLTDFSSIASNRKMGFLLADEAMPTMEKGRGNFLSAATDLAIQFLSKDNSAFFIMSEGSQIDWGGHANNASYLISEINDFDDAIGTALAFAKKDGNTLVIVTSDHETGGFTLAAKKNKREDGSEYSDYTEIGPTFSTGGHSATLIPVFAYGPGSEEFIGIYENNEIFHKILKVTKWNQ 375
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeee...hhhhhhhhhhhh...hhhhhh.eeeeee.........hhhhhhhhhhhh..................hhhhhhhhh..eeeeeeeee..hhhhhh.........hhhhhhhhhhhh...eeeee.hhhhhh.....hhhhhhhhh.eeee.....hhhhh....eeeee.......hhhhh..hhhhhhhhhhhhhhhhhhh.eeeeeee.hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee...ee......eeeeee...eeeeeeeee........ee...eeeeee..hhhhhheeee.hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2w5x A  30 QLKTPKNVILLISDGAGLSQISSTFYFKSGTPNYTQFKNIGLIKTSSSREDVTDsASGATAFSCGIKTYNAAIGVADDSTAVKSIVEIAALNNIKTGVVATSSITEATPASFYAHALNRGLEEEIAMDMTESDLDFFAGGGLNYFTKRKDKKDVLAILKGNQFTINTTALTDFSSIASNRKMGFLLADEAMPTMEKGRGNFLSAATDLAIQFLSKDNSAFFIMSEGSQIDWGGHANNASYLISEINDFDDAIGTALAFAKKDGNTLVIVTSDHETGGFTLAAKKNKREDGSEYSDYTEIGPTFSTGGHSATLIPVFAYGPGSEEFIGIYENNEIFHKILKVTKWNQ 375
                                    39        49        59        69        79    |   89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369      
                                                                                 84-SEP                                                                                                                                                                                                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:346
 aligned with Q9KWY4_9BACT | Q9KWY4 from UniProtKB/TrEMBL  Length:375

    Alignment length:346
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369      
         Q9KWY4_9BACT    30 QLKTPKNVILLISDGAGLSQISSTFYFKEGTPNYTQFKNIGLIKTSSSREDVTDSASGATAFSCGIKTYNAAIGVADDSTAVKSIVEIAALNNIKTGVVATSSITHATPASFYAHALNRGLEEEIAMDMTESDLDFFAGGGLNYFTKRKDKKDVLAILKGNQFTINTTGLTDFSSIASNRKMGFLLADEAMPTMEKGRGNFLSAATDLAIQFLSKDNSAFFIMSEGSQIDWGGHANNASYLISEINDFDDAIGTALAFAKKDGNTLVIVTSDHETGGFTLAAKKNKREDGSEYSDYTEIGPTFSTGGHSATLIPVFAYGPGSEEFIGIYENNEIFHKILKVTKWNQ 375
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----Alk_phosphatase-2w5xB01 B:34-327                                                                                                                                                                                                                                                                      ------------------------------------------------ Pfam domains (1)
           Pfam domains (2) ----Alk_phosphatase-2w5xB02 B:34-327                                                                                                                                                                                                                                                                      ------------------------------------------------ Pfam domains (2)
         Sec.struct. author ......eeeeeee...hhhhhhhhhhhh...hhhhhh.eeeeee.........hhhhhhhhhhhh..................hhhhhhhhh..eeeeeeeee..hhhhhh.........hhhhhhhhhh.....eeeee.hhhhhh.....hhhhhhhhh.eeee.....hhhhhh...eeeee.......hhhhh..hhhhhhhhhhhhhhhhhhh.eeeeeee.hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee...ee......eeee.......eeeeeee........ee...eeeeee..hhhhhheeee.hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2w5x B  30 QLKTPKNVILLISDGAGLSQISSTFYFKSGTPNYTQFKNIGLIKTSSSREDVTDsASGATAFSCGIKTYNAAIGVADDSTAVKSIVEIAALNNIKTGVVATSSITEATPASFYAHALNRGLEEEIAMDMTESDLDFFAGGGLNYFTKRKDKKDVLAILKGNQFTINTTALTDFSSIASNRKMGFLLADEAMPTMEKGRGNFLSAATDLAIQFLSKDNSAFFIMSEGSQIDWGGHANNASYLISEINDFDDAIGTALAFAKKDGNTLVIVTSDHETGGFTLAAKKNKREDGSEYSDYTEIGPTFSTGGHSATLIPVFAYGPGSEEFIGIYENNEIFHKILKVTKWNQ 375
                                    39        49        59        69        79    |   89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369      
                                                                                 84-SEP
   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 2W5X)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2W5X)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: Alk_phosphatase (47)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q9KWY4_9BACT | Q9KWY4)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

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 Related Entries

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        Q9KWY4_9BACT | Q9KWY4: 2iuc 2w5v 2w5w

(-) Related Entries Specified in the PDB File

2iuc STRUCTURE OF ALKALINE PHOSPHATASE FROM THE ANTARCTIC BACTERIUM TAB5
2w5v STRUCTURE OF TAB5 ALKALINE PHOSPHATASE MUTANT HIS 135 ASP WITH MG BOUND IN THE M3 SITE.
2w5w STRUCTURE OF TAB5 ALKALINE PHOSPHATASE MUTANT HIS 135 ASP WITH ZN BOUND IN THE M3 SITE.