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(-) Description

Title :  CRYSTAL STRUCTURE OF AN EXOPOLYPHOSPHATASE (CHU_0316) FROM CYTOPHAGA HUTCHINSONII ATCC 33406 AT 1.50 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  30 Mar 10  (Deposition) - 12 May 10  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Exopolyphosphatase, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of An Exopolyphosphatase (Chu_0316) From Cytophaga Hutchinsonii Atcc 33406 At 1. 50 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - EXOPOLYPHOSPHATASE
    Chains: A
    EC Number: 3.6.1.11
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: HK100
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PPX, CHU_0316
    Organism Scientific: CYTOPHAGA HUTCHINSONII
    Organism Taxid: 269798
    Strain: ATCC 33406 / NCIMB 9469

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 20)

Asymmetric/Biological Unit (4, 20)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2GOL3Ligand/IonGLYCEROL
3MSE11Mod. Amino AcidSELENOMETHIONINE
4SO44Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:110 , ALA A:111 , HOH A:583BINDING SITE FOR RESIDUE CL A 315
2AC2SOFTWAREARG A:164 , ARG A:168 , HOH A:568BINDING SITE FOR RESIDUE CL A 316
3AC3SOFTWARETHR A:12 , THR A:81 , GLY A:138 , GLY A:139 , GLY A:140 , SER A:141 , HOH A:375 , HOH A:443 , HOH A:633 , HOH A:634BINDING SITE FOR RESIDUE SO4 A 317
4AC4SOFTWAREASN A:13 , THR A:14 , GLY A:211 , ARG A:268 , MSE A:271 , HOH A:413 , HOH A:634 , HOH A:635 , HOH A:636BINDING SITE FOR RESIDUE SO4 A 318
5AC5SOFTWAREHIS A:16 , LYS A:34 , ASP A:214 , ARG A:268 , HOH A:530 , HOH A:635 , HOH A:654BINDING SITE FOR RESIDUE SO4 A 319
6AC6SOFTWAREHIS A:170 , HIS A:172 , ASP A:173 , HOH A:406 , HOH A:486 , HOH A:558BINDING SITE FOR RESIDUE SO4 A 320
7AC7SOFTWARETHR A:50 , GLU A:51 , GLU A:52 , GLU A:226 , TYR A:236 , LEU A:237 , ASP A:242 , HOH A:333 , HOH A:643BINDING SITE FOR RESIDUE GOL A 321
8AC8SOFTWARELYS A:62 , LYS A:99 , GLU A:100 , ARG A:180 , VAL A:181 , HIS A:184 , ASN A:185 , ASP A:188 , HOH A:523BINDING SITE FOR RESIDUE GOL A 322
9AC9SOFTWARELEU A:18 , THR A:20 , THR A:29 , TYR A:296 , GLU A:300 , TYR A:304 , HOH A:653BINDING SITE FOR RESIDUE GOL A 323

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Asp A:173 -Pro A:174

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3MDQ)

(-) 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:312
 aligned with Q11YA9_CYTH3 | Q11YA9 from UniProtKB/TrEMBL  Length:314

    Alignment length:312
                                    12        22        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  
         Q11YA9_CYTH3     3 QRIGVIDMGTNTFHLLITDIVNDRPHTLVNEKSAVGLGKGGITKGFITEEAMDRALDTLKKFRVILDEHAVVHVIATGTSAVRSGSNKQVLIDRIKKEVNIDVEVIDGAREAELIFRGVQQAVPMEDHISLAMDIGGGSVEFIIGNKNEILWKQSFEIGGQRLIDRFHVHDPMREDDRVMMHNYFDEVLVPLEKAINTWRPTQLIGCSGTFDTLAEMNIQHHREKIALEKQTSYLLSLPDFNRLRKQLVASTRRERLAIAGMIELRADMVVVAICLIEHVLKLVSTNAITVSTYSLKEGVLYTMLDGVKVGS 314
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ---------------Ppx-GppA-3mdqA01 A:18-309                                                                                                                                                                                                                                                                           ----- Pfam domains
         Sec.struct. author .eeeeeee...eeeeeeeeee..eeeeeeeeeee......hhhhh..hhhhhhhhhhhhhhhhhhhhhh...eeeeeehhhhhhh.hhhhhhhhhhhhhh..eee.hhhhhhhhhhhhhhhhh......eeeeee....eeeeee....eeeeeee..hhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhh...hhhhh.eeeeehhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3mdq A   3 QRIGVIDmGTNTFHLLITDIVNDRPHTLVNEKSAVGLGKGGITKGFITEEAmDRALDTLKKFRVILDEHAVVHVIATGTSAVRSGSNKQVLIDRIKKEVNIDVEVIDGAREAELIFRGVQQAVPmEDHISLAmDIGGGSVEFIIGNKNEILWKQSFEIGGQRLIDRFHVHDPmREDDRVmmHNYFDEVLVPLEKAINTWRPTQLIGCSGTFDTLAEmNIQHHREKIALEKQTSYLLSLPDFNRLRKQLVASTRRERLAIAGmIELRADmVVVAICLIEHVLKLVSTNAITVSTYSLKEGVLYTmLDGVKVGS 314
                                   |12        22        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  
                                  10-MSE                                      54-MSE                                                                  127-MSE 135-MSE                                 175-MSE  ||                                 219-MSE                                      264-MSE  |                                306-MSE    
                                                                                                                                                                                                             182-MSE                                                                                  271-MSE                                       
                                                                                                                                                                                                              183-MSE
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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  (0, 0)

(no "SCOP Domain" information available for 3MDQ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Actin_ATPase (173)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q11YA9_CYTH3 | Q11YA9)
molecular function
    GO:0004309    exopolyphosphatase activity    Catalysis of the reaction: polyphosphate(n) + H2O = polyphosphate(n-1) + phosphate.
    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.

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