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(-) Description

Title :  CRYSTAL STRUCTURE OF PUTATIVE L-ALANINE-DL-GLUTAMATE EPIMERASE FROM BURKHOLDERIA XENOVORANS STRAIN LB400 BOUND TO MAGNESIUM
 
Authors :  J. B. Bonanno, M. Dickey, K. T. Bain, S. Chang, S. Ozyurt, S. Wasserman, J. M. Sauder, S. K. Burley, S. C. Almo, New York Sgx Research Center Structural Genomics (Nysgxrc)
Date :  18 Mar 09  (Deposition) - 31 Mar 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (8x)
Keywords :  Structural Genomics, Isomerase, Psi-2, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. B. Bonanno, M. Dickey, K. T. Bain, S. Chang, S. Ozyurt, S. Wasserman, J. M. Sauder, S. K. Burley, S. C. Almo
Crystal Structure Of Putative L-Alanine-Dl-Glutamate Epimerase From Burkholderia Xenovorans Strain Lb400 Bound T Magnesium.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE L-ALANINE-DL-GLUTAMATE EPIMERASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: MODIFIED PET26
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector: PET
    Expression System Vector Type: PLASMID
    Gene: BXENO_B1104, BXE_B1897
    Organism Scientific: BURKHOLDERIA XENOVORANS
    Organism Taxid: 266265
    Strain: LB400

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (8x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1MG2Ligand/IonMAGNESIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:161 , ASP A:217 , GLU A:243 , GLU A:267 , HOH A:410 , HOH A:413 , HOH A:431BINDING SITE FOR RESIDUE MG A 408
2AC2SOFTWAREPRO A:76 , TYR A:247 , THR A:268 , HOH A:414 , HOH A:415BINDING SITE FOR RESIDUE MG A 409

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3GO2)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Cys A:124 -Pro A:125
2Gly A:136 -Pro A:137
3Val A:181 -Pro A:182

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3GO2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3GO2)

(-) Exons   (0, 0)

(no "Exon" information available for 3GO2)

(-) 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:388
 aligned with Q13PB7_PARXL | Q13PB7 from UniProtKB/TrEMBL  Length:399

    Alignment length:388
                             1                                                                                                                                                                                                                                                                                                                                                                                                  
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379        
         Q13PB7_PARXL     - -MKVVSVDTLCCDAGWRNYHFVKLTTDEGIVGWSEFDEGFGSPGVTAVIEQLGKRLVGASVMEHERFFAEAYCLTRPATGGVVSEGIGAIENALLDAKAKTLNVPCYELLGGKLRDRVPVYWSHCPTWRINHPKFFGPPVTDLDGVKRTAEEARERQFRAIKTNIFIHDDGPLHAWRPGFAVPFQPALNVDRKVLRNLRAHLEALRDGAGPDVEILLDLNFNAKPEGYLKILRELADFDLFWVEIDSYSPQGLAYVRNHSPHPISSCETLFGIREFKPFFDANAVDVAIVDTIWNGVWQSMKIAAFADAHDINVAPHNFYGHLCTMINANFAAAVPNLRIMETDIDRLAWEDELFTHAPEYQNGELIIPDRPGWGTDPVEEAILAHPP 387
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3go2A01 A:0-102,A:375-385 Enolase-like, N-terminal domain                                              3go2A02 A:103-374 Enolase superfamily                                                                                                                                                                                                                                           3go2A01    -- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeee....eeeeeeeee....eeeeee.......hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh......eeeeee...hhhhhhh.........hhhhhhhhhhhhhhh...eeee..ee......ee.hhhhh.........hhhhhhhhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhh......eee....hhhhhhhhhhh....eee....hhhhhhhhhhhh....eeeehhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhhhhh.....eee......hhhhhh.....ee..eee...........hhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3go2 A   0 SLKVVSVDTLCCDAGWRNYHFVKLTTDEGIVGWSEFDEGFGSPGVTAVIEQLGKRLVGASVMEHERFFAEAYCLTRPATGGVVSEGIGAIENALLDAKAKTLNVPCYELLGGKLRDRVPVYWSHCPTWRINHPKFFGPPVTDLDGVKRTAEEARERQFRAIKTNIFIHDDGPLHAWRPGFAVPFQPALNVDRKVLRNLRAHLEALRDGAGPDVEILLDLNFNAKPEGYLKILRELADFDLFWVEIDSYSPQGLAYVRNHSPHPISSCETLFGIREFKPFFDANAVDVAIVDTIWNGVWQSMKIAAFADAHDINVAPHNFYGHLCTMINANFAAAVPNLRIMETDIDRLAWEDELFTHAPEYQNGELIIPDRPGWGTDPVEEAILAHPP 387
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379
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  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 3GO2)

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3GO2)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q13PB7_PARXL | Q13PB7)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    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.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q13PB7_PARXL | Q13PB7: 2oo6 3sn0 3sn1 3sn4

(-) Related Entries Specified in the PDB File

2oo6 CRYSTAL STRUCTURE OF PUTATIVE L-ALANINE-DL-GLUTAMATE EPIMERASE FROM BURKHOLDERIA XENOVORANS STRAIN LB400, APO- FORM RELATED ID: NYSGXRC-9228C RELATED DB: TARGETDB