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(-) Description

Title :  CRYSTAL STRUCTURE OF A HAD-LIKE PHOSPHATASE FROM ENTEROCOCCUS FAECALIS V583
 
Authors :  J. Seetharaman, S. Swaminathan, S. K. Burley, New York Sgx Research For Structural Genomics (Nysgxrc)
Date :  15 Feb 05  (Deposition) - 15 Mar 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hypothetical Protein, Hydrolase Haloacid Dehalogenase, Structural Genomics, Psi, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Seetharaman, S. Swaminathan
Crystal Structure Of A Hypothetical Protein, Hydrolase Haloacid Dehalogenase-Like Family
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HYDROLASE, HALOACID DEHALOGENASE FAMILY
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: ENTEROCOCCUS FAECALIS
    Organism Taxid: 226185
    Strain: V583

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1PO44Ligand/IonPHOSPHATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:11 , THR A:44 , ASN A:45 , LYS A:183 , HOH A:3044BINDING SITE FOR RESIDUE PO4 A 3001
2AC2SOFTWARETYR A:72 , LEU A:76 , ASP A:80 , ARG A:191 , HIS A:195 , HOH A:3003 , HOH A:3060BINDING SITE FOR RESIDUE PO4 A 3002
3AC3SOFTWAREASP B:11 , THR B:44 , ASN B:45 , LYS B:183 , HOH B:3053 , HOH B:3079BINDING SITE FOR RESIDUE PO4 B 3003
4AC4SOFTWARETYR B:72 , ASP B:80 , ARG B:191 , HIS B:195 , HOH B:3005 , HOH B:3025BINDING SITE FOR RESIDUE PO4 B 3004

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1YV9)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Lys A:183 -Pro A:184
2Lys B:183 -Pro B:184

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1YV9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1YV9)

(-) Exons   (0, 0)

(no "Exon" information available for 1YV9)

(-) 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:257
 aligned with Q836C7_ENTFA | Q836C7 from UniProtKB/TrEMBL  Length:256

    Alignment length:257
                                                                                                                                                                                                                                                                                        256  
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251    |  
         Q836C7_ENTFA     2 KKDYQGYLIDLDGTIYLGKEPIPAGKRFVERLQEKDLPFLFVTNNTTKSPETVAQRLANEFDIHVPASLVYTATLATIDYMKEANRGKKVFVIGEAGLIDLILEAGFEWDETNPDYVVVGLDTELSYEKVVLATLAIQKGALFIGTNPDKNIPTERGLLPGAGSVVTFVETATQTKPVYIGKPKAIIMERAIAHLGVEKEQVIMVGDNYETDIQSGIQNGIDSLLVTSGFTPKSAVPTLPTPPTYVVDSLDEWTF--   -
               SCOP domains --d1yv9a1 A:4-256 Putative hydrolase EF1188                                                                                                                                                                                                                    -- SCOP domains
               CATH domains --------------------------------------------------------------------------------------1yv9A02 A:88-180 4-nitrophenylphosphatase; domain 2                                          ------------------------------------------------------------------------------ CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee......ee..eehhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhh....hhh.eeehhhhhhhhhhhhh...eeeee.hhhhhhhhhhh..ee......eeee......hhhhhhhhhhhhhh..eeee.....eeee..eeeehhhhhhhhhhhhhh...ee....hhhhhhhhhhhhh.hhh.eeeee....hhhhhhhhhh.eeeee..................eee.hhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yv9 A   2 SLDYQGYLIDLDGTIYLGKEPIPAGKRFVERLQEKDLPFLFVTNNTTKSPETVAQRLANEFDIHVPASLVYTATLATIDYMKEANRGKKVFVIGEAGLIDLILEAGFEWDETNPDYVVVGLDTELSYEKVVLATLAIQKGALFIGTNPDKNIPTERGLLPGAGSVVTFVETATQTKPVYIGKPKAIIMERAIAHLGVEKEQVIMVGDNYETDIQSGIQNGIDSLLVTSGFTPKSAVPTLPTPPTYVVDSLDEWTFEG 258
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       


Chain B from PDB  Type:PROTEIN  Length:257
 aligned with Q836C7_ENTFA | Q836C7 from UniProtKB/TrEMBL  Length:256

    Alignment length:257
                                                                                                                                                                                                                                                                                        256  
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251    |  
         Q836C7_ENTFA     2 KKDYQGYLIDLDGTIYLGKEPIPAGKRFVERLQEKDLPFLFVTNNTTKSPETVAQRLANEFDIHVPASLVYTATLATIDYMKEANRGKKVFVIGEAGLIDLILEAGFEWDETNPDYVVVGLDTELSYEKVVLATLAIQKGALFIGTNPDKNIPTERGLLPGAGSVVTFVETATQTKPVYIGKPKAIIMERAIAHLGVEKEQVIMVGDNYETDIQSGIQNGIDSLLVTSGFTPKSAVPTLPTPPTYVVDSLDEWTF--   -
               SCOP domains d1yv9b_ B: automated matches                                                                                                                                                                                                                                      SCOP domains
               CATH domains --------------------------------------------------------------------------------------1yv9B02 B:88-180 4-nitrophenylphosphatase; domain 2                                          ------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) ------Hydrolase_6-1yv9B01 B:8-109                                                                           ----------------------------------------------------------------------Hydrolase_like-1yv9B03 B:180-254                                           ---- Pfam domains (1)
           Pfam domains (2) ------Hydrolase_6-1yv9B02 B:8-109                                                                           ----------------------------------------------------------------------Hydrolase_like-1yv9B04 B:180-254                                           ---- Pfam domains (2)
         Sec.struct. author .....eeee......ee..eehhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhh...hhh.eeehhhhhhhhhhhhh...eeeee.hhhhhhhhhhh..ee......eeee......hhhhhhhhhhhhhh..eeee.....eee....eeehhhhhhhhhhhhhh...ee....hhhhhhhhhhhhh.hhh.eeeee....hhhhhhhhh..eeeee........hhhhh.....eee.hhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yv9 B   2 SLDYQGYLIDLDGTIYLGKEPIPAGKRFVERLQEKDLPFLFVTNNTTKSPETVAQRLANEFDIHVPASLVYTATLATIDYMKEANRGKKVFVIGEAGLIDLILEAGFEWDETNPDYVVVGLDTELSYEKVVLATLAIQKGALFIGTNPDKNIPTERGLLPGAGSVVTFVETATQTKPVYIGKPKAIIMERAIAHLGVEKEQVIMVGDNYETDIQSGIQNGIDSLLVTSGFTPKSAVPTLPTPPTYVVDSLDEWTFEG 258
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251
   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  (2, 2)

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

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Clan: HAD (186)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q836C7_ENTFA | Q836C7)
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.

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 Related Entries

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(-) Related Entries Specified in the PDB File

1ydf RELATED ID: NYSGXRC-T1693 RELATED DB: TARGETDB