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(-) Description

Title :  CRYSTAL STRUCTURE OF METALLOPHOSPHOESTERASE FROM SPHAEROBACTER THERMOPHILUS
 
Authors :  C. Chang, R. Wu, S. Clancy, A. Joachimiak, Midwest Center For Struct Genomics (Mcsg)
Date :  28 Apr 11  (Deposition) - 18 May 11  (Release) - 18 May 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Psi-Biology, Midwest Center For Structural Genomics, Mcsg, Phosphoesterase, Zn Binding, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Chang, R. Wu, S. Clancy, A. Joachimiak
Crystal Structure Of Metallophosphoesterase From Sphaerobacter Thermophilus
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - METALLOPHOSPHOESTERASE
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)MAGIC
    Expression System Taxid: 469008
    Expression System Vector Type: PMCSG7
    Gene: STHE_1642
    Organism Scientific: SPHAEROBACTER THERMOPHILUS
    Organism Taxid: 479434
    Strain: DSM 20745 / S 6022

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 19)

Asymmetric Unit (3, 19)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2MSE12Mod. Amino AcidSELENOMETHIONINE
3ZN6Ligand/IonZINC ION
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2MSE4Mod. Amino AcidSELENOMETHIONINE
3ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2MSE4Mod. Amino AcidSELENOMETHIONINE
3ZN-1Ligand/IonZINC ION
Biological Unit 3 (2, 5)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2MSE4Mod. Amino AcidSELENOMETHIONINE
3ZN-1Ligand/IonZINC ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:8 , HIS A:10 , ASP A:34 , HIS A:149 , HOH A:257 , ZN A:302BINDING SITE FOR RESIDUE ZN A 301
2AC2SOFTWAREASP A:8 , ASP A:34 , ASN A:61 , HIS A:114 , HIS A:147 , HOH A:257 , ZN A:301BINDING SITE FOR RESIDUE ZN A 302
3AC3SOFTWAREASP B:8 , HIS B:10 , ASP B:34 , HIS B:149 , ZN B:302 , HOH B:316BINDING SITE FOR RESIDUE ZN B 301
4AC4SOFTWAREASP B:8 , ASP B:34 , ASN B:61 , HIS B:114 , HIS B:147 , ZN B:301 , HOH B:316BINDING SITE FOR RESIDUE ZN B 302
5AC5SOFTWAREASP C:8 , HIS C:10 , ASP C:34 , HIS C:149 , HOH C:251 , ZN C:302BINDING SITE FOR RESIDUE ZN C 301
6AC6SOFTWAREHOH A:288 , ASP C:8 , ASP C:34 , ASN C:61 , HIS C:114 , HIS C:147 , HOH C:251 , ZN C:301BINDING SITE FOR RESIDUE ZN C 302
7AC7SOFTWAREASP C:22 , HIS C:213 , HOH C:336 , HOH C:337BINDING SITE FOR RESIDUE ACT C 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3RQZ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3RQZ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3RQZ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3RQZ)

(-) Exons   (0, 0)

(no "Exon" information available for 3RQZ)

(-) 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:243
 aligned with D1C4A9_SPHTD | D1C4A9 from UniProtKB/TrEMBL  Length:243

    Alignment length:245
                              1                                                                                                                                                                                                                                                  
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238     
         D1C4A9_SPHTD     - --MRILIISDVHANLVALEAVLSDAGRVDDIWSLGDIVGYGPRPRECVELVRVLAPNISVIGNHDWACIGRLSLDEFNPVARFASYWTTMQLQAEHLQYLESLPNRMIDGDWTVVHGSPRHPIWEYIYNARIAALNFPAFDTPLCFVGHTHVPLYIREDEALSNVAPHHPNDGEVLDVSSGRYIINPGAVGQPRDGDPRASYAIFEPDAQRVTFHRVEYRIADTQAQMREAGLPESLVTRLAAGV 243
               SCOP domains d3rqza_ A: automated matches                                                                                                                                                                                                                          SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee.....hhhhhhhhhhhhh...eeee.........hhhhhhhhhhhhh..ee..hhhhhhhh......--hhhhhhhhhhhhhhhhhhhhhhhhhh..eeee..eeee.............hhhhhhhhhhhh...eee......eeeeehhhhhh...........eee.....eeeee............eeeeeee....eeeeeee..hhhhhhhhhhhhh.hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rqz A  -1 NAmRILIISDVHANLVALEAVLSDAGRVDDIWSLGDIVGYGPRPRECVELVRVLAPNISVIGNHDWACIGRLSLD--NPVARFASYWTTmQLQAEHLQYLESLPNRmIDGDWTVVHGSPRHPIWEYIYNARIAALNFPAFDTPLCFVGHTHVPLYIREDEALSNVAPHHPNDGEVLDVSSGRYIINPGAVGQPRDGDPRASYAIFEPDAQRVTFHRVEYRIADTQAQmREAGLPESLVTRLAAGV 243
                              |      8        18        28        38        48        58        68    |  |78        88        98      |108       118       128       138       148       158       168       178       188       198       208       218       228       238     
                              |                                                                      73 76          88-MSE          105-MSE                                                                                                                  226-MSE             
                              1-MSE                                                                                                                                                                                                                                              


Chain B from PDB  Type:PROTEIN  Length:239
 aligned with D1C4A9_SPHTD | D1C4A9 from UniProtKB/TrEMBL  Length:243

    Alignment length:243
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240   
         D1C4A9_SPHTD     1 MRILIISDVHANLVALEAVLSDAGRVDDIWSLGDIVGYGPRPRECVELVRVLAPNISVIGNHDWACIGRLSLDEFNPVARFASYWTTMQLQAEHLQYLESLPNRMIDGDWTVVHGSPRHPIWEYIYNARIAALNFPAFDTPLCFVGHTHVPLYIREDEALSNVAPHHPNDGEVLDVSSGRYIINPGAVGQPRDGDPRASYAIFEPDAQRVTFHRVEYRIADTQAQMREAGLPESLVTRLAAGV 243
               SCOP domains d3rqzb_ B: automated matches                                                                                                                                                                                                                        SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....hhhhhhhhhhhhh...eeee.........hhhhhhhhhhhhh......hhhhhhhh....----hhhhhhhhhhhhhhhhhhhhhhhhh...eeee..eeee.............hhhhhhhhhhhh...eee.......eeeehhhhhh...........eee.....eeee.............eeeeeee....eeeeeee..hhhhhhhhhhhhh.hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rqz B   1 mRILIISDVHANLVALEAVLSDAGRVDDIWSLGDIVGYGPRPRECVELVRVLAPNISVIGNHDWACIGRLS----NPVARFASYWTTmQLQAEHLQYLESLPNRmIDGDWTVVHGSPRHPIWEYIYNARIAALNFPAFDTPLCFVGHTHVPLYIREDEALSNVAPHHPNDGEVLDVSSGRYIINPGAVGQPRDGDPRASYAIFEPDAQRVTFHRVEYRIADTQAQmREAGLPESLVTRLAAGV 243
                            |       10        20        30        40        50        60        70|    |  80       |90       100    |  110       120       130       140       150       160       170       180       190       200       210       220     | 230       240   
                            1-MSE                                                                71   76          88-MSE          105-MSE                                                                                                                  226-MSE             


Chain C from PDB  Type:PROTEIN  Length:245
 aligned with D1C4A9_SPHTD | D1C4A9 from UniProtKB/TrEMBL  Length:243

    Alignment length:245
                              1                                                                                                                                                                                                                                                  
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238     
         D1C4A9_SPHTD     - --MRILIISDVHANLVALEAVLSDAGRVDDIWSLGDIVGYGPRPRECVELVRVLAPNISVIGNHDWACIGRLSLDEFNPVARFASYWTTMQLQAEHLQYLESLPNRMIDGDWTVVHGSPRHPIWEYIYNARIAALNFPAFDTPLCFVGHTHVPLYIREDEALSNVAPHHPNDGEVLDVSSGRYIINPGAVGQPRDGDPRASYAIFEPDAQRVTFHRVEYRIADTQAQMREAGLPESLVTRLAAGV 243
               SCOP domains d3rqzc_ C: automated matches                                                                                                                                                                                                                          SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --Metallophos_2-3rqzC01 C:1-208                                                                                                                                                                                   ----------------------------------- Pfam domains (1)
           Pfam domains (2) --Metallophos_2-3rqzC02 C:1-208                                                                                                                                                                                   ----------------------------------- Pfam domains (2)
           Pfam domains (3) --Metallophos_2-3rqzC03 C:1-208                                                                                                                                                                                   ----------------------------------- Pfam domains (3)
         Sec.struct. author ....eeee.....hhhhhhhhhhhh....eeee.........hhhhhhhhhhhhh..ee..hhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhh..eeee..eeee.............hhhhhhhhhhhh...eee......eeeeehhhhhh...........eee.....eeeee............eeeeeee....eeeeeee..hhhhhhhhhhhh..hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rqz C  -1 NAmRILIISDVHANLVALEAVLSDAGRVDDIWSLGDIVGYGPRPRECVELVRVLAPNISVIGNHDWACIGRLSLDEFNPVARFASYWTTmQLQAEHLQYLESLPNRmIDGDWTVVHGSPRHPIWEYIYNARIAALNFPAFDTPLCFVGHTHVPLYIREDEALSNVAPHHPNDGEVLDVSSGRYIINPGAVGQPRDGDPRASYAIFEPDAQRVTFHRVEYRIADTQAQmREAGLPESLVTRLAAGV 243
                              |      8        18        28        38        48        58        68        78        88        98      |108       118       128       138       148       158       168       178       188       198       208       218       228       238     
                              1-MSE                                                                                 88-MSE          105-MSE                                                                                                                  226-MSE
   Legend:   → Mismatch (orange background)
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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, 3)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3RQZ)

(-) Pfam Domains  (1, 3)

Asymmetric Unit
(-)
Clan: Calcineurin (56)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (D1C4A9_SPHTD | D1C4A9)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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