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(-) Description

Title :  CRYSTAL STRUCTURE OF HYPOTHETICAL PROTEIN PH1952 FROM PYROCOCCUS HORIKOSHII OT3
 
Authors :  H. Yamamoto, N. Kunishima, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  29 Apr 05  (Deposition) - 29 Apr 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Alpha/Beta Hydrolase Fold, Had Superfamily, Structural Genomics, Riken Structural Genomics/Proteomics Initiative, Rsgi, Nppsfa, National Project On Protein Structural And Functional Analyses, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Yamamoto, N. Kunishima
Crystal Structure Of Hypothetical Protein Ph1952 From Pyrococcus Horikoshii Ot3
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN PH1952
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11A
    Expression System Strain: BL21-CODONPLUS(DE3)-RIL
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: PYROCOCCUS HORIKOSHII
    Organism Taxid: 70601
    Strain: OT3
    Synonym: PUTATIVE HYDROLASE, HALOACID DEHALOGENASE-LIKE PROTEIN, 4- NITROPHENYLPHOSPHATASE-LIKE PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1MG2Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:7 , ASP A:9 , ASP A:210 , HOH A:1003 , HOH A:1014 , HOH A:1016BINDING SITE FOR RESIDUE MG A 1001
2AC2SOFTWAREASP B:7 , ASP B:9 , ASP B:210 , HOH B:1004 , HOH B:1006 , HOH B:1016BINDING SITE FOR RESIDUE MG B 1002

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Lys A:187 -Pro A:188
2Lys B:187 -Pro B:188

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1ZJJ)

(-) 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:261
 aligned with O59622_PYRHO | O59622 from UniProtKB/TrEMBL  Length:263

    Alignment length:261
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260 
         O59622_PYRHO     1 MVAIIFDMDGVLYRGNRAIPGVRELIEFLKERGIPFAFLTNNSTKTPEMYREKLLKMGIDVSSSIIITSGLATRLYMSKHLDPGKIFVIGGEGLVKEMQALGWGIVTLDEARQGSWKEVKHVVVGLDPDLTYEKLKYATLAIRNGATFIGTNPDATLPGEEGIYPGAGSIIAALKVATNVEPIIIGKPNEPMYEVVREMFPGEELWMVGDRLDTDIAFAKKFGMKAIMVLTGVSSLEDIKKSEYKPDLVLPSVYELIDYLK 261
               SCOP domains d1zjja_ A: automated matches                                                                                                                                                                                                                                          SCOP domains
               CATH domains 1zjjA01 A:1-68,A:186-261  [code=3.40.50.1000, no name defined]      1zjjA02 A:69-185 4-nitrophenylphosphatase; domain 2                                                                  1zjjA01 A:1-68,A:186-261  [code=3.40.50.1000, no name defined]               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.....ee..ee..hhhhhhhhhhhhh..eeeee.....hhhhhhhhhhh.....hhh.eeehhhhhhhhhhhhh....eeee.hhhhhhhhhhhh....hhhhhhhhhhhhh.eeee......hhhhhhhhhhhhhh..eeee.....eeee..eeeehhhhhhhhhhhhhh...ee....hhhhhhhhhhhh...eeeeee....hhhhhhhhh..eeeee.....hhhhhh.......eee.hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1zjj A   1 MVAIIFDMDGVLYRGNRAIPGVRELIEFLKERGIPFAFLTNNSTKTPEMYREKLLKMGIDVSSSIIITSGLATRLYMSKHLDPGKIFVIGGEGLVKEMQALGWGIVTLDEARQGSWKEVKHVVVGLDPDLTYEKLKYATLAIRNGATFIGTNPDATLPGEEGIYPGAGSIIAALKVATNVEPIIIGKPNEPMYEVVREMFPGEELWMVGDRLDTDIAFAKKFGMKAIMVLTGVSSLEDIKKSEYKPDLVLPSVYELIDYLK 261
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260 


Chain B from PDB  Type:PROTEIN  Length:263
 aligned with O59622_PYRHO | O59622 from UniProtKB/TrEMBL  Length:263

    Alignment length:263
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260   
         O59622_PYRHO     1 MVAIIFDMDGVLYRGNRAIPGVRELIEFLKERGIPFAFLTNNSTKTPEMYREKLLKMGIDVSSSIIITSGLATRLYMSKHLDPGKIFVIGGEGLVKEMQALGWGIVTLDEARQGSWKEVKHVVVGLDPDLTYEKLKYATLAIRNGATFIGTNPDATLPGEEGIYPGAGSIIAALKVATNVEPIIIGKPNEPMYEVVREMFPGEELWMVGDRLDTDIAFAKKFGMKAIMVLTGVSSLEDIKKSEYKPDLVLPSVYELIDYLKTL 263
               SCOP domains d1zjjb_ B: automated matches                                                                                                                                                                                                                                            SCOP domains
               CATH domains 1zjjB01 B:1-68,B:186-263  [code=3.40.50.1000, no name defined]      1zjjB02 B:69-185 4-nitrophenylphosphatase; domain 2                                                                  1zjjB01 B:1-68,B:186-263  [code=3.40.50.1000, no name defined]                 CATH domains
           Pfam domains (1) Hydrolase-1zjjB01 B:1-223                                                                                                                                                                                                      ---------------------------------------- Pfam domains (1)
           Pfam domains (2) Hydrolase-1zjjB02 B:1-223                                                                                                                                                                                                      ---------------------------------------- Pfam domains (2)
         Sec.struct. author .eeeee......ee..ee..hhhhhhhhhhhh...eeeee.....hhhhhhhhhhhh....hhh.eeehhhhhhhhhhhhh....eeee.hhhhhhhhhhhh....hhhhhhhhhhhhh.eeee......hhhhhhhhhhhhhh..eeee.....eeee..eeeehhhhhhhhhhhhhh...ee....hhhhhhhhhhhh...eeeeee....hhhhhhhhh..eeeee.....hhhhhhh......eee.hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1zjj B   1 MVAIIFDMDGVLYRGNRAIPGVRELIEFLKERGIPFAFLTNNSTKTPEMYREKLLKMGIDVSSSIIITSGLATRLYMSKHLDPGKIFVIGGEGLVKEMQALGWGIVTLDEARQGSWKEVKHVVVGLDPDLTYEKLKYATLAIRNGATFIGTNPDATLPGEEGIYPGAGSIIAALKVATNVEPIIIGKPNEPMYEVVREMFPGEELWMVGDRLDTDIAFAKKFGMKAIMVLTGVSSLEDIKKSEYKPDLVLPSVYELIDYLKTL 263
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260
   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  (1, 2)

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

(-) CATH Domains  (2, 4)

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

(-) Pfam Domains  (1, 2)

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

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (O59622_PYRHO | O59622)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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  1zjj
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