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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE MANDELATE RACEMASE/MUCONATE LACTONIZING PROTEIN FROM DINOROSEOBACTER SHIBAE DFL 12
 
Authors :  D. Kumaran, S. C. Almo, S. Swaminathan, New York Structural Genomic Research Consortium (Nysgrc)
Date :  06 Jul 11  (Deposition) - 27 Jul 11  (Release) - 02 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (8x)
Keywords :  Psi-Biology, Structural Genomics, Protein Structure Initiative, Tim Barrel, Enolase/Mandelate Racemase, Isomerase, New York Structural Genomics Research Consortium, Nysgrc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Kumaran, S. C. Almo, S. Swaminathan
Crystal Structure Of A Putative Mandelate Racemase/Muconate Lactonizing Protein From Dinoroseobacter Shibae Dfl 12
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - MANDELATE RACEMASE/MUCONATE LACTONIZING PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET3A
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: DSHI_2447
    Organism Scientific: DINOROSEOBACTER SHIBAE
    Organism Taxid: 398580
    Strain: DFL 12

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric Unit (3, 4)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2GOL1Ligand/IonGLYCEROL
3MG2Ligand/IonMAGNESIUM ION
Biological Unit 1 (2, 16)
No.NameCountTypeFull Name
1ACT8Ligand/IonACETATE ION
2GOL8Ligand/IonGLYCEROL
3MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:237 , GLU A:263 , GLU A:289 , HOH A:607 , HOH A:721BINDING SITE FOR RESIDUE MG A 450
2AC2SOFTWARETYR A:374 , PHE A:377 , ASP A:378 , HOH A:575 , HOH A:722 , HOH A:723BINDING SITE FOR RESIDUE MG A 451
3AC3SOFTWARELYS A:131 , ASP A:269 , VAL A:271 , GLY A:296 , HOH A:434 , HOH A:464 , HOH A:626BINDING SITE FOR RESIDUE GOL A 500
4AC4SOFTWAREVAL A:171 , GLN A:197 , GLY A:198 , ASP A:233 , HOH A:638 , HOH A:712BINDING SITE FOR RESIDUE ACT A 501

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3SQS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 3SQS)

(-) 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:386
 aligned with A8LS88_DINSH | A8LS88 from UniProtKB/TrEMBL  Length:391

    Alignment length:391
                                    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       270       280       290       300       310       320       330       340       350       360       370       380       390 
         A8LS88_DINSH     1 MTKIKSVRTRVWNWTGPTVPPQGNFCTNASDALWIQGDAMASFRFHQWLTCEVETEDGTIGIGNAALAPNVVKQAIDEWYAPLVIGEDPFDYAYLWEKMYRRTHAWGRKGIGMTAISAIDIAIWDLMGKLVGKPVFKLLGGRTKEKIPVYYSKLYADSIPAMQAEAEEAQKHGYQGYKTRFGYGPKDGPAGMRENLKRVEALREVLGYDVDLMLECYMGWNLDYTKRMLPKLERFEPRWLEEPVIADDVAGYAELNAMGIVPISGGEHEFSVMGCAELINRKAVSVLQYDTNRVGGITAAQKINAIAEAAQIIVIPHAGQMHNYHLTMANMNCPISEYFPVFDVEVGNELFYYIFDGDPEAVDGYLQLDDDTPGLGITISDAHLKHFEITE 391
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeee.............hhhhhh..-----......eeeeeeeee....eeeeee..hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhh......eeeeee.....hhhhhhhhhhhhhh....eeeee...hhhhhhhhhhhhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhhhhh..eee......hhhhhhhhhhh....eee.....hhhhhhhhhhh....ee..hhhhhhhhhhhhhhhhhhhhhh.ee.....hhhhhhhhhh......eee...........hhhhhee........ee...........ee...hhh.eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3sqs A  23 MTKIKSVRTRVWNWTGPTVPPQGNFCTNASDALWI-----ASFRFHQWLTCEVETEDGTIGIGNAALAPNVVKQAIDEWYAPLVIGEDPFDYAYLWEKMYRRTHAWGRKGIGMTAISAIDIAIWDLMGKLVGKPVFKLLGGRTKEKIPVYYSKLYADSIPAMQAEAEEAQKHGYQGYKTRFGYGPKDGPAGMRENLKRVEALREVLGYDVDLMLECYMGWNLDYTKRMLPKLERFEPRWLEEPVIADDVAGYAELNAMGIVPISGGEHEFSVMGCAELINRKAVSVLQYDTNRVGGITAAQKINAIAEAAQIIVIPHAGQMHNYHLTMANMNCPISEYFPVFDVEVGNELFYYIFDGDPEAVDGYLQLDDDTPGLGITISDAHLKHFEITE 413
                                    32        42        52    |    -|       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       322       332       342       352       362       372       382       392       402       412 
                                                             57    63
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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 3SQS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (A8LS88_DINSH | A8LS88)
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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