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(-) Description

Title :  CRYSTAL STRUCTURE OF K220A MUTANT OF L-FUCONATE DEHYDRATASE FROM XANTHOMONAS CAMPESTRIS LIGANDED WITH MG++ AND L-FUCONATE
 
Authors :  A. A. Fedorov, E. V. Fedorov, W. S. Yew, J. F. Rakus, J. A. Gerlt, S. C. Almo
Date :  03 Aug 06  (Deposition) - 19 Dec 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  L-Fuconate Dehydratase, Enolase Superfamily, L-Fuconate, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. S. Yew, A. A. Fedorov, E. V. Fedorov, J. F. Rakus, R. W. Pierce, S. C. Almo, J. A. Gerlt
Evolution Of Enzymatic Activities In The Enolase Superfamily: L-Fuconate Dehydratase From Xanthomonas Campestris.
Biochemistry V. 45 14582 2006
PubMed-ID: 17144652  |  Reference-DOI: 10.1021/BI061687O

(-) Compounds

Molecule 1 - L-FUCONATE DEHYDRATASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: XANTHOMONAS CAMPESTRIS PV. CAMPESTRIS
    Organism Taxid: 340
    Strain: ATCC 33913

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 5)
No.NameCountTypeFull Name
1LFC1Ligand/Ion6-DEOXY-L-GALACTONIC ACID
2MG1Ligand/IonMAGNESIUM ION
3SO43Ligand/IonSULFATE ION
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
1LFC2Ligand/Ion6-DEOXY-L-GALACTONIC ACID
2MG-1Ligand/IonMAGNESIUM ION
3SO46Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:248 , GLU A:274 , GLU A:301 , LFC A:501 , HOH A:959BINDING SITE FOR RESIDUE MG A 601
2AC2SOFTWAREARG A:2 , ALA A:44 , LEU A:47BINDING SITE FOR RESIDUE SO4 A 602
3AC3SOFTWARETHR A:140 , PRO A:141 , GLU A:142 , ARG A:167BINDING SITE FOR RESIDUE SO4 A 603
4AC4SOFTWAREHIS A:386 , LEU A:387 , GLN A:389 , HOH A:781 , HOH A:798 , HOH A:879BINDING SITE FOR RESIDUE SO4 A 604
5AC5SOFTWAREGLY A:22 , ASP A:24 , TYR A:32 , TRP A:194 , LYS A:218 , ASP A:248 , ASN A:250 , GLU A:274 , GLU A:301 , HIS A:351 , GLY A:353 , GLU A:382 , MG A:601BINDING SITE FOR RESIDUE LFC A 501

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Gly A:103 -Pro A:104
2Thr A:293 -Pro A:294
3Tyr A:424 -Pro A:425

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2HXU)

(-) 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:434
 aligned with FUCD_XANCP | Q8P3K2 from UniProtKB/Swiss-Prot  Length:441

    Alignment length:434
                                    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    
           FUCD_XANCP     2 RTIIALETHDVRFPTSRELDGSDAMNPDPDYSAAYVVLRTDGAEDLAGYGLVFTIGRGNDVQTAAVAALAEHVVGLSVDKVIADLGAFARRLTNDSQLRWLGPEKGVMHMAIGAVINAAWDLAARAANKPLWRFIAELTPEQLVDTIDFRYLSDALTRDEALAILRDAQPQRAARTATLIEQGYPAYTTSPGWLGYSDEKLVRLAKEAVADGFRTIKLKVGANVQDDIRRCRLARAAIGPDIAMAVDANQRWDVGPAIDWMRQLAEFDIAWIEEPTSPDDVLGHAAIRQGITPVPVSTGEHTQNRVVFKQLLQAGAVDLIQIDAARVGGVNENLAILLLAAKFGVRVFPHAGGVGLCELVQHLAMADFVAITGKMEDRAIEFVDHLHQHFLDPVRIQHGRYLAPEVPGFSAEMHPASIAEFSYPDGRFWVEDLA 435
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------2hxuA02 A:132-435 Enolase superfamily                                                                                                                                                                                                                                                                            CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeee.hhhhh.............eeeeeeeee......eeeeeeee...hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.hhhhhhh...........hhhhhhhhhhhhh.hhhhhhhhhhhhheeeeeeeee....hhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhhhh...eeeee.....hhhhhhhhhhhhh...eeeee......hhhhhhhhhhhhh...eee.....hhhhhhhhhhh....ee.......hhhhhhhhhhhhhhhhh.ee.......hhhhhhhhhhhhhhhhh........eee...hhhhh.....ee..ee............hhhhhhhhh...hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2hxu A   2 RTIIALETHDVRFPTSRELDGSDAMNPDPDYSAAYVVLRTDGAEDLAGYGLVFTIGRGNDVQTAAVAALAEHVVGLSVDKVIADLGAFARRLTNDSQLRWLGPEKGVMHMAIGAVINAAWDLAARAANKPLWRFIAELTPEQLVDTIDFRYLSDALTRDEALAILRDAQPQRAARTATLIEQGYPAYTTSPGWLGYSDEKLVRLAKEAVADGFRTIKLAVGANVQDDIRRCRLARAAIGPDIAMAVDANQRWDVGPAIDWMRQLAEFDIAWIEEPTSPDDVLGHAAIRQGITPVPVSTGEHTQNRVVFKQLLQAGAVDLIQIDAARVGGVNENLAILLLAAKFGVRVFPHAGGVGLCELVQHLAMADFVAITGKMEDRAIEFVDHLHQHFLDPVRIQHGRYLAPEVPGFSAEMHPASIAEFSYPDGRFWVEDLA 435
                                    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
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 2HXU)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2HXU)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A   (FUCD_XANCP | Q8P3K2)
molecular function
    GO:0050023    L-fuconate dehydratase activity    Catalysis of the reaction: L-fuconate = 2-dehydro-3-deoxy-L-fuconate + H(2)O.
    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: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.
biological process
    GO:0016052    carbohydrate catabolic process    The chemical reactions and pathways resulting in the breakdown of carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y.
    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/Swiss-Prot
        FUCD_XANCP | Q8P3K2: 1yey 2hne 2hxt

(-) Related Entries Specified in the PDB File

2hne THE WILD TYPE OF THE SAME PROTEIN UNCOMPLEXED