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(-) Description

Title :  CRYSTAL STRUCTURE OF ENOLASE FROM ENTEROCOCCUS HIRAE
 
Authors :  T. Hosaka, T. Meguro, I. Yamato, Y. Shirakihara
Date :  12 Sep 02  (Deposition) - 29 Jul 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Enolase Family, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Hosaka, T. Meguro, I. Yamato, Y. Shirakihara
Crystal Structure Of Enterococcus Hirae Enolase At 2. 8 A Resolution
J. Biochem. (Tokyo) V. 133 817 2003
PubMed-ID: 12869539  |  Reference-DOI: 10.1093/JB/MVG104

(-) Compounds

Molecule 1 - ENOLASE
    Chains: A, B
    EC Number: 4.2.1.11
    Organism Scientific: ENTEROCOCCUS HIRAE
    Organism Taxid: 1354

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric/Biological Unit (3, 10)
No.NameCountTypeFull Name
1GOL6Ligand/IonGLYCEROL
2MG2Ligand/IonMAGNESIUM ION
3SO42Ligand/IonSULFATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLN A:162 , ASP A:241 , GLU A:287 , LYS A:390BINDING SITE FOR RESIDUE MG A 1432
02AC2SOFTWAREASP B:241 , GLU B:287 , ASP B:288 , ASP B:314 , HOH B:2084BINDING SITE FOR RESIDUE MG B 1432
03AC3SOFTWAREGLY B:39 , ALA B:40 , LYS B:339 , ARG B:368 , SER B:369BINDING SITE FOR RESIDUE SO4 B 1001
04AC4SOFTWARELYS A:339 , ARG A:368 , SER A:369 , HOH A:2032 , HOH A:2087BINDING SITE FOR RESIDUE SO4 A 1002
05AC5SOFTWAREASP A:411 , HOH A:2057 , TYR B:7BINDING SITE FOR RESIDUE GOL A 2001
06AC6SOFTWAREASP A:5 , TYR A:7 , TYR A:25 , HOH A:2070BINDING SITE FOR RESIDUE GOL A 2002
07AC7SOFTWAREALA A:77 , ILE A:79BINDING SITE FOR RESIDUE GOL A 2003
08AC8SOFTWAREALA B:77 , ILE B:79 , TYR B:81BINDING SITE FOR RESIDUE GOL B 2004
09AC9SOFTWAREMET A:87 , GLU A:348 , GLU A:351BINDING SITE FOR RESIDUE GOL A 2005
10BC1SOFTWARELEU A:125 , HIS A:131 , TYR A:132 , HOH A:2084 , LEU B:125 , HIS B:131 , GLY B:135 , HOH B:2083BINDING SITE FOR RESIDUE GOL B 2006

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1IYX)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ENOLASEPS00164 Enolase signature.ENO_ENTHR337-350
 		  2A:336-349
B:336-349

(-) Exons   (0, 0)

(no "Exon" information available for 1IYX)

(-) 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:431
 aligned with ENO_ENTHR | Q8GR70 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:431
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431 
            ENO_ENTHR     2 SIITDVYAREILDSRGNPTIEVEVYTESGAFGRGMVPSGASTGEYEAVELRDGDKARYGGKGVTKAVDNVNNIIAEAIIGYDVRDQMAIDKAMIALDGTPNKGKLGANAILGVSIAVARAAADYLEVPLYHYLGGFNTKVLPTPMMNIINGGSHADNSIDFQEFMIMPVGAPTFKEALRMGAEVFHALAAILKSRGLATSVGDEGGFAPNLGSNEEGFEVIIEAIEKAGYVPGKDVVLAMDAASSEFYDKEKGVYVLADSGEGEKTTDEMIKFYEELVSKYPIISIEDGLDENDWDGFKKLTDVLGDKVQLVGDDLFVTNTQKLSEGIEKGIANSILIKVNQIGTLTETFEAIEMAKEAGYTAVVSHRSGETEDSTISDIAVATNAGQIKTGSLSRTDRIAKYNQLLRIEDQLGEVAEYKGLKSFYNLKAA 432
               SCOP domains d1iyxa2 A:1-136 Enolase                                                                                                                 d1iyxa1 A:137-431 Enolase                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains -1iyxA01 A:2-126 Enolase-like, N-terminal domain                                                                              1iyxA02 A:127-430 Enolase superfamily                                                                                                                                                                                                                                                                           - CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeee.....eeeeeeeee....eeeee.....................hhhhh.hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh.hhhhhhhh....ee.ee.eeeee.hhhh.......eeeee.....hhhhhhhhhhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhh.......eeeee.............ee.......eehhhhhhhhhhhhhhhh.eeeee......hhhhhhhhhhhhh...eee.......hhhhhhhhhhhh....eeehhhhhhhhhhhhhhhhhhhhh...eeee........hhhhhhhhhh...eee.....hhhhhhhhhhhhhhhhhhhhhhee.hhhhh...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ENOLASE       ---------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1iyx A   1 SIITDVYAREILDSRGNPTIEVEVYTESGAFGRGMVPSGASTGEYEAVELRDGDKARYGGKGVTKAVDNVNNIIAEAIIGYDVRDQMAIDKAMIALDGTPNKGKLGANAILGVSIAVARAAADYLEVPLYHYLGGFNTKVLPTPMMNIINGGSHADNSIDFQEFMIMPVGAPTFKEALRMGAEVFHALAAILKSRGLATSVGDEGGFAPNLGSNEEGFEVIIEAIEKAGYVPGKDVVLAMDAASSEFYDKEKGVYVLADSGEGEKTTDEMIKFYEELVSKYPIISIEDGLDENDWDGFKKLTDVLGDKVQLVGDDLFVTNTQKLSEGIEKGIANSILIKVNQIGTLTETFEAIEMAKEAGYTAVVSHRSGETEDSTISDIAVATNAGQIKTGSLSRTDRIAKYNQLLRIEDQLGEVAEYKGLKSFYNLKAA 431
                                    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       400       410       420       430 


Chain B from PDB  Type:PROTEIN  Length:431
 aligned with ENO_ENTHR | Q8GR70 from UniProtKB/Swiss-Prot  Length:432

    Alignment length:431
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431 
            ENO_ENTHR     2 SIITDVYAREILDSRGNPTIEVEVYTESGAFGRGMVPSGASTGEYEAVELRDGDKARYGGKGVTKAVDNVNNIIAEAIIGYDVRDQMAIDKAMIALDGTPNKGKLGANAILGVSIAVARAAADYLEVPLYHYLGGFNTKVLPTPMMNIINGGSHADNSIDFQEFMIMPVGAPTFKEALRMGAEVFHALAAILKSRGLATSVGDEGGFAPNLGSNEEGFEVIIEAIEKAGYVPGKDVVLAMDAASSEFYDKEKGVYVLADSGEGEKTTDEMIKFYEELVSKYPIISIEDGLDENDWDGFKKLTDVLGDKVQLVGDDLFVTNTQKLSEGIEKGIANSILIKVNQIGTLTETFEAIEMAKEAGYTAVVSHRSGETEDSTISDIAVATNAGQIKTGSLSRTDRIAKYNQLLRIEDQLGEVAEYKGLKSFYNLKAA 432
               SCOP domains d1iyxb2 B:1-136 Enolase                                                                                                                 d1iyxb1 B:137-431 Enolase                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains -1iyxB01 B:2-126 Enolase-like, N-terminal domain                                                                              1iyxB02 B:127-430 Enolase superfamily                                                                                                                                                                                                                                                                           - CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeee.....eeeeeeeee....eeeee.....................hhhhh.hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh.hhhhhhhh....ee.eeeeeeee............eeeee.....hhhhhhhhhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhh........eeeee.hhhhhh.....eee.......eeehhhhhhhhhhhhhhh.eeeee......hhhhhhhhhhhhh.....ee......hhhhhhhhhhhh...eeeehhhhhhhhhhhhhhhhhhhhh..eeeee........hhhhhhhhhh...eeeee...hhhhhhhhhhhhhhhhhhhhhhee.hhhhh...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ENOLASE       ---------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1iyx B   1 SIITDVYAREILDSRGNPTIEVEVYTESGAFGRGMVPSGASTGEYEAVELRDGDKARYGGKGVTKAVDNVNNIIAEAIIGYDVRDQMAIDKAMIALDGTPNKGKLGANAILGVSIAVARAAADYLEVPLYHYLGGFNTKVLPTPMMNIINGGSHADNSIDFQEFMIMPVGAPTFKEALRMGAEVFHALAAILKSRGLATSVGDEGGFAPNLGSNEEGFEVIIEAIEKAGYVPGKDVVLAMDAASSEFYDKEKGVYVLADSGEGEKTTDEMIKFYEELVSKYPIISIEDGLDENDWDGFKKLTDVLGDKVQLVGDDLFVTNTQKLSEGIEKGIANSILIKVNQIGTLTETFEAIEMAKEAGYTAVVSHRSGETEDSTISDIAVATNAGQIKTGSLSRTDRIAKYNQLLRIEDQLGEVAEYKGLKSFYNLKAA 431
                                    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       400       410       420       430
   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  (2, 4)

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

(-) CATH Domains  (2, 4)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1IYX)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (ENO_ENTHR | Q8GR70)
molecular function
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004634    phosphopyruvate hydratase activity    Catalysis of the reaction: 2-phospho-D-glycerate = phosphoenolpyruvate + H2O.
biological process
    GO:0006096    glycolytic process    The chemical reactions and pathways resulting in the breakdown of a carbohydrate into pyruvate, with the concomitant production of a small amount of ATP and the reduction of NAD(P) to NAD(P)H. Glycolysis begins with the metabolism of a carbohydrate to generate products that can enter the pathway and ends with the production of pyruvate. Pyruvate may be converted to acetyl-coenzyme A, ethanol, lactate, or other small molecules.
cellular component
    GO:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0000015    phosphopyruvate hydratase complex    A multimeric enzyme complex, usually a dimer or an octamer, that catalyzes the conversion of 2-phospho-D-glycerate to phosphoenolpyruvate and water.

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