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(-) Description

Title :  CRYSTAL STRUCTURE OF ENOLASE SPEA_3858 (TARGET EFI-500646) FROM SHEWANELLA PEALEANA WITH MAGNESIUM BOUND
 
Authors :  Y. Patskovsky, J. Kim, R. Toro, R. Bhosle, B. Hillerich, R. D. Seidel, E. Washington, A. Scott Glenn, S. Chowdhury, B. Evans, J. Hammonds, W. D. Zencheck, H. J. Imker, J. A. Gerlt, S. C. Almo, Enzyme Function I (Efi)
Date :  21 Jun 11  (Deposition) - 06 Jul 11  (Release) - 22 Feb 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (4x)
Keywords :  Enolase, Magnesium Binding Site, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Patskovsky, J. Kim, R. Toro, R. Bhosle, B. Hillerich, R. D. Seidel, E. Washington, A. Scott Glenn, S. Chowdhury, B. Evans, J. Hammonds, W. D. Zencheck, H. J. Imker, J. A. Gerlt, S. C. Almo
Crystal Structure Of Enolase Spea_3858 From Shewanella Pealeana
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - MANDELATE RACEMASE/MUCONATE LACTONIZING PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: SPEA_3858
    Organism Scientific: SHEWANELLA PEALEANA
    Organism Taxid: 398579
    Strain: ATCC 700345 / ANG-SQ1

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (4x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric Unit (3, 5)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MG2Ligand/IonMAGNESIUM ION
3UNL2Ligand/IonUNKNOWN LIGAND
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1GOL4Ligand/IonGLYCEROL
2MG-1Ligand/IonMAGNESIUM ION
3UNL8Ligand/IonUNKNOWN LIGAND

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:198 , GLU A:225 , GLU A:251 , HOH A:377 , HOH A:489 , HOH A:490BINDING SITE FOR RESIDUE MG A 374
2AC2SOFTWAREARG A:131 , HOH A:464BINDING SITE FOR RESIDUE GOL A 376
3AC3SOFTWAREASP B:198 , GLU B:225 , GLU B:251 , HOH B:376 , HOH B:377 , HOH B:378BINDING SITE FOR RESIDUE MG B 374

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3SJN)

(-) 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:373
 aligned with A8H9D1_SHEPA | A8H9D1 from UniProtKB/TrEMBL  Length:373

    Alignment length:373
                                    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   
         A8H9D1_SHEPA     1 MLKITDIEVLHLRVPAMDADCEWGEDAVIVKVHTDKGIVGVGEADSSPLVVQACIEAPQTNFYCNGLKRLLIGENALEIERLWNKMYWGSNYMGRRGAGIHAISAIDIALWDIAGQFYGVPVHTLLGGKYRDKIRCYGTFIPADKPEDNVAIVQGLKDQGFSSIKFGGGVMGDDPDTDYAIVKAVREAAGPEMEVQIDLASKWHTCGHSAMMAKRLEEFNLNWIEEPVLADSLISYEKLSRQVSQKIAGGESLTTRYEFQEFITKSNADIVQPDITRCGGITEMKKIYDIAQMNGTQLIPHGFSTGILLHASVHFLAACEQGTLMEFSQSSSPLFTSLVKNQLQFDNGFVAVSDAPGLGIELDEELIAKYRVN 373
               SCOP domains d3sjna1 A:1-128 automated matches                                                                                               d3sjna2 A:129-373 automated matches                                                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeee............eeeeeeeee....eeeeee..hhhhhhhhhhh........hhhhhhh.....hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh.hhhhhh......eeeeeeee....hhhhhhhhhhhhhh....eeeee......hhhhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhhhhhhh..eee......hhhhhhhhhhhh..eeee....hhhhhhhhhhhhhh..ee.......hhhhhhhhhhhhhhhh..ee......hhhhhhhhhhhhhh.....eeeee...hhhhhhh......ee..eee...........hhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3sjn A   1 VLKITDIEVLHLRVPAMDADCEWGEDAVIVKVHTDKGIVGVGEADSSPLVVQACIEAPQTNFYCNGLKRLLIGENALEIERLWNKMYWGSNYMGRRGAGIHAISAIDIALWDIAGQFYGVPVHTLLGGKYRDKIRCYGTFIPADKPEDNVAIVQGLKDQGFSSIKFGGGVMGDDPDTDYAIVKAVREAAGPEMEVQIDLASKWHTCGHSAMMAKRLEEFNLNWIEEPVLADSLISYEKLSRQVSQKIAGGESLTTRYEFQEFITKSNADIVQPDITRCGGITEMKKIYDIAQMNGTQLIPHGFSTGILLHASVHFLAACEQGTLMEFSQSSSPLFTSLVKNQLQFDNGFVAVSDAPGLGIELDEELIAKYRVN 373
                                    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   


Chain B from PDB  Type:PROTEIN  Length:373
 aligned with A8H9D1_SHEPA | A8H9D1 from UniProtKB/TrEMBL  Length:373

    Alignment length:373
                                    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   
         A8H9D1_SHEPA     1 MLKITDIEVLHLRVPAMDADCEWGEDAVIVKVHTDKGIVGVGEADSSPLVVQACIEAPQTNFYCNGLKRLLIGENALEIERLWNKMYWGSNYMGRRGAGIHAISAIDIALWDIAGQFYGVPVHTLLGGKYRDKIRCYGTFIPADKPEDNVAIVQGLKDQGFSSIKFGGGVMGDDPDTDYAIVKAVREAAGPEMEVQIDLASKWHTCGHSAMMAKRLEEFNLNWIEEPVLADSLISYEKLSRQVSQKIAGGESLTTRYEFQEFITKSNADIVQPDITRCGGITEMKKIYDIAQMNGTQLIPHGFSTGILLHASVHFLAACEQGTLMEFSQSSSPLFTSLVKNQLQFDNGFVAVSDAPGLGIELDEELIAKYRVN 373
               SCOP domains d3sjnb1 B:1-128 automated matches                                                                                               d3sjnb2 B:129-373 automated matches                                                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---------MR_MLE_N-3sjnB01 B:10-127                                                                                             --------------------------------------------------------------------------------------------------------------------------MR_MLE_C-3sjnB03 B:250-361                                                                                      ------------ Pfam domains (1)
           Pfam domains (2) ---------MR_MLE_N-3sjnB02 B:10-127                                                                                             --------------------------------------------------------------------------------------------------------------------------MR_MLE_C-3sjnB04 B:250-361                                                                                      ------------ Pfam domains (2)
         Sec.struct. author ...eeeeeeeeee............eeeeeeeee....eeeeee..hhhhhhhhhhh........hhhhhhh.....hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh.hhhhhh......eeeeeeee....hhhhhhhhhhhhhhhh..eeeee......hhhhhhhhhhhhhhhhh...eeeee......hhhhhhhhhhhh......eee......hhhhhhhhhh....eeee....hhhhhhhhhhhhhh..ee.......hhhhhhhhhhhhhhhh..ee......hhhhhhhhhhhhhh.....eeee....hhhhhhh......ee..eee...........hhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3sjn B   1 VLKITDIEVLHLRVPAMDADCEWGEDAVIVKVHTDKGIVGVGEADSSPLVVQACIEAPQTNFYCNGLKRLLIGENALEIERLWNKMYWGSNYMGRRGAGIHAISAIDIALWDIAGQFYGVPVHTLLGGKYRDKIRCYGTFIPADKPEDNVAIVQGLKDQGFSSIKFGGGVMGDDPDTDYAIVKAVREAAGPEMEVQIDLASKWHTCGHSAMMAKRLEEFNLNWIEEPVLADSLISYEKLSRQVSQKIAGGESLTTRYEFQEFITKSNADIVQPDITRCGGITEMKKIYDIAQMNGTQLIPHGFSTGILLHASVHFLAACEQGTLMEFSQSSSPLFTSLVKNQLQFDNGFVAVSDAPGLGIELDEELIAKYRVN 373
                                    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
   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  (2, 4)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (2, 4)

Asymmetric Unit
(-)
Clan: Enolase_N (69)
(-)
Clan: Enolase_TIM (82)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (A8H9D1_SHEPA | A8H9D1)
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:0009063    cellular amino acid catabolic process    The chemical reactions and pathways resulting in the breakdown of amino acids, organic acids containing one or more amino substituents.
    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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