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(-) Description

Title :  CRYSTAL STRUCTURE OF PH1733, AN ASPARTATE RACEMASE HOMOLOGUE, FROM PYROCOCCUS HORIKOSHII OT3
 
Authors :  A. Kita, S. Tasaki, M. Yohda, K. Miki
Date :  12 Sep 08  (Deposition) - 21 Oct 08  (Release) - 02 Dec 08  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.55
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Alpha/Beta Fold, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Kita, S. Tasaki, M. Yohda, K. Miki
Crystal Structure Of Ph1733, An Aspartate Racemase Homologue, From Pyrococcus Horikoshii Ot3
Proteins V. 74 240 2009
PubMed-ID: 18831039  |  Reference-DOI: 10.1002/PROT.22244
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 226AA LONG HYPOTHETICAL ASPARTATE RACEMASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-23D(+)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: PH1733
    Organism Scientific: PYROCOCCUS HORIKOSHII
    Organism Taxid: 70601
    Strain: OT3
    Synonym: PH1733

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2ZSK)

(-) Sites  (0, 0)

(no "Site" information available for 2ZSK)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2ZSK)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2ZSK)

(-) 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:226
 aligned with O59384_PYRHO | O59384 from UniProtKB/TrEMBL  Length:226

    Alignment length:226
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220      
         O59384_PYRHO     1 MKKIGIIGGTTPESTLYYYKKYIEISREKFEKYFYPELIIYSINFKEFFQNPEGWEGRKKILINAAKALERAGAELIAFAANTPHLVFDDVQREVNVPMVSIIDAVAEEILKRGVRKVLLLGTKTTMTADFYIKTLEEKGLEVVVPNDEEKEELNRIIFEELAFGNLKNKEWIVRLIEKYRESEGIEGVILGCTELPLAIKQGDVSVEVFDSAEIHMRKLIELASE 226
               SCOP domains d2zska1 A:1-114 automated matches                                                                                 d2zska2 A:115-226 automated matches                                                                              SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee..hhhhhhhhhhhhhhhhhhhh.......eeeee..hhhhhh..hhhhhhhhhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhh.....hhhhhhhhhhhhh...eeeee.......hhhhhhhhhh...eee..hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh...eeee...hhhhh.hhhhh..eeeehhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2zsk A   1 MKKIGIIGGTTPESTLYYYKKYIEISREKFEKYFYPELIIYSINFKEFFQNPEGWEGRKKILINAAKALERAGAELIAFAANTPHLVFDDVQREVNVPMVSIIDAVAEEILKRGVRKVLLLGTKTTMTADFYIKTLEEKGLEVVVPNDEEKEELNRIIFEELAFGNLKNKEWIVRLIEKYRESEGIEGVILGCTELPLAIKQGDVSVEVFDSAEIHMRKLIELASE 226
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220      


Chain B from PDB  Type:PROTEIN  Length:226
 aligned with O59384_PYRHO | O59384 from UniProtKB/TrEMBL  Length:226

    Alignment length:226
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220      
         O59384_PYRHO     1 MKKIGIIGGTTPESTLYYYKKYIEISREKFEKYFYPELIIYSINFKEFFQNPEGWEGRKKILINAAKALERAGAELIAFAANTPHLVFDDVQREVNVPMVSIIDAVAEEILKRGVRKVLLLGTKTTMTADFYIKTLEEKGLEVVVPNDEEKEELNRIIFEELAFGNLKNKEWIVRLIEKYRESEGIEGVILGCTELPLAIKQGDVSVEVFDSAEIHMRKLIELASE 226
               SCOP domains d2zskb1 B:1-114 automated matches                                                                                 d2zskb2 B:115-226 automated matches                                                                              SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---Asp_Glu_race-2zskB01 B:4-221                                                                                                                                                                                              ----- Pfam domains (1)
           Pfam domains (2) ---Asp_Glu_race-2zskB02 B:4-221                                                                                                                                                                                              ----- Pfam domains (2)
         Sec.struct. author ...eeeee..hhhhhhhhhhhhhhhhhhhh.......eeeee.hhhhhhh..hhhhhhhhhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhh......hhhhhhhhhhhhh...eeeee.......hhhhhhhhhhh..eee..hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh...eeee...hhhhh.hhhhh..eeeehhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2zsk B   1 MKKIGIIGGTTPESTLYYYKKYIEISREKFEKYFYPELIIYSINFKEFFQNPEGWEGRKKILINAAKALERAGAELIAFAANTPHLVFDDVQREVNVPMVSIIDAVAEEILKRGVRKVLLLGTKTTMTADFYIKTLEEKGLEVVVPNDEEKEELNRIIFEELAFGNLKNKEWIVRLIEKYRESEGIEGVILGCTELPLAIKQGDVSVEVFDSAEIHMRKLIELASE 226
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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, 4)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: Asp-glut_race (23)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (O59384_PYRHO | O59384)
molecular function
    GO:0036361    racemase activity, acting on amino acids and derivatives    Catalysis of the interconversion of the two enantiomers of a chiral amino acid or amino acid derivative.
    GO:0016855    racemase and epimerase activity, acting on amino acids and derivatives    Catalysis of a reaction that alters the configuration of one or more chiral centers in an amino acid.
biological process
    GO:0006520    cellular amino acid metabolic process    The chemical reactions and pathways involving amino acids, carboxylic acids containing one or more amino groups, as carried out by individual cells.
    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.
    GO:0006807    nitrogen compound metabolic process    The chemical reactions and pathways involving organic or inorganic compounds that contain nitrogen.

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