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(-) Description

Title :  L-FUCULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI MUTANT T26A
 
Authors :  A. C. Joerger, G. E. Schulz
Date :  07 Mar 00  (Deposition) - 02 Jun 00  (Release) - 05 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.09
Chains :  Asym. Unit :  P
Biol. Unit 1:  P  (4x)
Keywords :  Lyase (Aldehyde), Aldolase (Class Ii), Bacterial L-Fucose Metabolism, Cleavage Of L-Fuculose-1-Phosphate To Dihydroxyacetonephosphate And L-Lactaldehyde, Mutant Structure (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. C. Joerger, C. Gosse, W. -D. Fessner, G. E. Schulz
Catalytic Action Of Fuculose 1-Phosphate Aldolase (Class Ii As Derived From Structure-Directed Mutagenesis
Biochemistry V. 39 6033 2000
PubMed-ID: 10821675  |  Reference-DOI: 10.1021/BI9927686
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - L-FUCULOSE-1-PHOSPHATE ALDOLASE
    Chains: P
    EC Number: 4.1.2.17
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PKKFA2-T26A
    Expression System Strain: JM 105
    Expression System Taxid: 562
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Other Details: T26A SUBSTITUTION PERFORMED WITH PHOSPHOROTHIOATE METHOD USING M13MP19

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : P
Biological Unit 1 (4x): P

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 4)
No.NameCountTypeFull Name
1BME1Ligand/IonBETA-MERCAPTOETHANOL
2SO42Ligand/IonSULFATE ION
3ZN1Ligand/IonZINC ION
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1BME4Ligand/IonBETA-MERCAPTOETHANOL
2SO48Ligand/IonSULFATE ION
3ZN-1Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU P:73 , HIS P:92 , HIS P:94 , TYR P:113 , HIS P:155BINDING SITE FOR RESIDUE ZN P 999
2AC2SOFTWAREASN P:29 , THR P:43 , SER P:71 , SER P:72 , HOH P:2012 , HOH P:2013 , HOH P:2019 , HOH P:2022BINDING SITE FOR RESIDUE SO4 P 300
3AC3SOFTWAREHIS P:64 , GLU P:66 , GLY P:67 , TRP P:74 , ARG P:75 , TYR P:209 , HOH P:2042 , HOH P:2105 , HOH P:2106 , HOH P:2107BINDING SITE FOR RESIDUE SO4 P 301
4AC4SOFTWARECYS P:14 , GLY P:28 , HOH P:2013 , HOH P:2108BINDING SITE FOR RESIDUE BME P 314

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Asp P:189 -Pro P:190

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1DZU)

(-) Exons   (0, 0)

(no "Exon" information available for 1DZU)

(-) 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 P from PDB  Type:PROTEIN  Length:209
 aligned with FUCA_ECOLI | P0AB87 from UniProtKB/Swiss-Prot  Length:215

    Alignment length:209
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200         
           FUCA_ECOLI     1 MERNKLARQIIDTCLEMTRLGLNQGTAGNVSVRYQDGMLITPTGIPYEKLTESHIVFIDGNGKHEEGKLPSSEWRFHMAAYQSRPDANAVVHNHAVHCTAVSILNRSIPAIHYMIAAAGGNSIPCAPYATFGTRELSEHVALALKNRKATLLQHHGLIACEVNLEKALWLAHEVEVLAQLYLTTLAITDPVPVLSDEEIAVVLEKFKTY 209
               SCOP domains d1dzup_ P: L-fuculose-1-phosphate aldolase                                                                                                                                                                        SCOP domains
               CATH domains 1dzuP00 P:1-209 L-fuculose-1-phosphate Aldolase                                                                                                                                                                   CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh........eeeeee..eeee.....hhhhhhhhhheee..............hhhhhhhhhhhh....eeeee.hhhhhhhhhh.......hhhhhhhh....eee......hhhhhhhhhhhh....eeee...eeeeee.hhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dzu P   1 MERNKLARQIIDTCLEMTRLGLNQGAAGNVSVRYQDGMLITPTGIPYEKLTESHIVFIDGNGKHEEGKLPSSEWRFHMAAYQSRPDANAVVHNHAVHCTAVSILNRSIPAIHYMIAAAGGNSIPCAPYATFGTRELSEHVALALKNRKATLLQHHGLIACEVNLEKALWLAHEVEVLAQLYLTTLAITDPVPVLSDEEIAVVLEKFKTY 209
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200         


Chain P from PDB  Type:PROTEIN  Length:209
 aligned with FUCA_SHIFL | P0AB88 from UniProtKB/Swiss-Prot  Length:215

    Alignment length:209
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200         
           FUCA_SHIFL     1 MERNKLARQIIDTCLEMTRLGLNQGTAGNVSVRYQDGMLITPTGIPYEKLTESHIVFIDGNGKHEEGKLPSSEWRFHMAAYQSRPDANAVVHNHAVHCTAVSILNRSIPAIHYMIAAAGGNSIPCAPYATFGTRELSEHVALALKNRKATLLQHHGLIACEVNLEKALWLAHEVEVLAQLYLTTLAITDPVPVLSDEEIAVVLEKFKTY 209
               SCOP domains d1dzup_ P: L-fuculose-1-phosphate aldolase                                                                                                                                                                        SCOP domains
               CATH domains 1dzuP00 P:1-209 L-fuculose-1-phosphate Aldolase                                                                                                                                                                   CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh........eeeeee..eeee.....hhhhhhhhhheee..............hhhhhhhhhhhh....eeeee.hhhhhhhhhh.......hhhhhhhh....eee......hhhhhhhhhhhh....eeee...eeeeee.hhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dzu P   1 MERNKLARQIIDTCLEMTRLGLNQGAAGNVSVRYQDGMLITPTGIPYEKLTESHIVFIDGNGKHEEGKLPSSEWRFHMAAYQSRPDANAVVHNHAVHCTAVSILNRSIPAIHYMIAAAGGNSIPCAPYATFGTRELSEHVALALKNRKATLLQHHGLIACEVNLEKALWLAHEVEVLAQLYLTTLAITDPVPVLSDEEIAVVLEKFKTY 209
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200
   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  (1, 1)

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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 19)

Asymmetric Unit(hide GO term definitions)
Chain P   (FUCA_SHIFL | P0AB88)
molecular function
    GO:0008738    L-fuculose-phosphate aldolase activity    Catalysis of the reaction: L-fuculose 1-phosphate = (S)-lactaldehyde + glycerone phosphate.
    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:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0042355    L-fucose catabolic process    The chemical reactions and pathways resulting in the breakdown of L-fucose (6-deoxy-Lgalactose).
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0019317    fucose catabolic process    The chemical reactions and pathways resulting in the breakdown of fucose (6-deoxygalactose).
    GO:0006004    fucose metabolic process    The chemical reactions and pathways involving fucose, or 6-deoxygalactose, which has two enantiomers, D-fucose and L-fucose.

Chain P   (FUCA_ECOLI | P0AB87)
molecular function
    GO:0008738    L-fuculose-phosphate aldolase activity    Catalysis of the reaction: L-fuculose 1-phosphate = (S)-lactaldehyde + glycerone phosphate.
    GO:0016832    aldehyde-lyase activity    Catalysis of the cleavage of a C-C bond in a molecule containing a hydroxyl group and a carbonyl group to form two smaller molecules, each being an aldehyde or a ketone.
    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:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0019571    D-arabinose catabolic process    The chemical reactions and pathways resulting in the breakdown of D-arabinose, the D-enantiomer of arabino-pentose.
    GO:0042355    L-fucose catabolic process    The chemical reactions and pathways resulting in the breakdown of L-fucose (6-deoxy-Lgalactose).
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0019317    fucose catabolic process    The chemical reactions and pathways resulting in the breakdown of fucose (6-deoxygalactose).
    GO:0006004    fucose metabolic process    The chemical reactions and pathways involving fucose, or 6-deoxygalactose, which has two enantiomers, D-fucose and L-fucose.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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  FUCA_SHIFL | P0AB88
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 Related Entries

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

UniProtKB/Swiss-Prot
        FUCA_ECOLI | P0AB87: 1dzv 1dzw 1dzx 1dzy 1dzz 1e46 1e47 1e48 1e49 1e4a 1e4b 1e4c 1fua 2fua 3fua 4fua
        FUCA_SHIFL | P0AB88: 1dzv 1dzw 1dzx 1dzz 1e46 1e47 1e48 1e49 1e4a 1e4b 1e4c

(-) Related Entries Specified in the PDB File

1dzv L-FUCULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI MUTANT Y113F/ Y209F
1dzw L-FUCULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI MUTANT F131A
1dzx L-FUCULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI MUTANT R212A
1dzy L-FUCULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI MUTANT E214A
1dzz L-FUCULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI MUTANT Y113F
1fua L-FUCULOSE 1-PHOSPHATE ALDOLASE CRYSTAL FORM T
2fua L-FUCULOSE 1-PHOSPHATE ALDOLASE CRYSTAL FORM T WITH COBALT
3fua L-FUCULOSE 1-PHOSPHATE ALDOLASE CRYSTAL FORM K
4fua L-FUCULOSE 1-PHOSPHATE ALDOLASE COMPLEX WITH PGH