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Title :   L-FUCULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI MUTANT R212A

Authors :   A. C. Joerger, G. E. Schulz

Date :   07 Mar 00 (Deposition) - 02 Jun 00 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.18

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)

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-R212A
	Expression System Strain	:	JM 105
	Expression System Taxid	:	562
	Mutation	:	YES
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Other Details	:	R212A SUBSTITUTION PERFORMED WITH KUNKEL METHOD USING M13MP19

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 4)

No.	Name	Count	Type	Full Name
1	BME	1	Ligand/Ion	BETA-MERCAPTOETHANOL
2	SO4	2	Ligand/Ion	SULFATE ION
3	ZN	1	Ligand/Ion	ZINC ION

Biological Unit 1 (2, 12)

No.	Name	Count	Type	Full Name
1	BME	4	Ligand/Ion	BETA-MERCAPTOETHANOL
2	SO4	8	Ligand/Ion	SULFATE ION
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLU P:73 , HIS P:92 , HIS P:94 , TYR P:113 , HIS P:155	BINDING SITE FOR RESIDUE ZN P 999
2	AC2	SOFTWARE	THR P:26 , ASN P:29 , THR P:43 , SER P:71 , SER P:72 , HOH P:2015 , HOH P:2016 , HOH P:2040 , HOH P:2094	BINDING SITE FOR RESIDUE SO4 P 300
3	AC3	SOFTWARE	HIS P:64 , GLU P:66 , GLY P:67 , TRP P:74 , ARG P:75 , HOH P:2095 , HOH P:2096	BINDING SITE FOR RESIDUE SO4 P 301
4	AC4	SOFTWARE	CYS P:14 , GLY P:28 , HOH P:2018 , HOH P:2094	BINDING SITE FOR RESIDUE BME P 314

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

Asymmetric Unit

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

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

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

(no "Exon" information available for 1DZX)

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:208
 aligned with FUCA_ECOLI | P0AB87 from UniProtKB/Swiss-Prot  Length:215

    Alignment length:208
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200        
           FUCA_ECOLI     1 MERNKLARQIIDTCLEMTRLGLNQGTAGNVSVRYQDGMLITPTGIPYEKLTESHIVFIDGNGKHEEGKLPSSEWRFHMAAYQSRPDANAVVHNHAVHCTAVSILNRSIPAIHYMIAAAGGNSIPCAPYATFGTRELSEHVALALKNRKATLLQHHGLIACEVNLEKALWLAHEVEVLAQLYLTTLAITDPVPVLSDEEIAVVLEKFKT 208
               SCOP domains d1dzxp_ P: L-fuculose-1-phosphate aldolase                                                                                                                                                                       SCOP domains
               CATH domains 1dzxP00 P:1-208 L-fuculose-1-phosphate Aldolase                                                                                                                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh........eeeeee..eeee.....hhhhhhhhhheee..............hhhhhhhhhhhh....eeeee.hhhhhhhhhhh......hhhhhhhh....eee......hhhhhhhhhhhh....eeee...eeeeee.hhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dzx P   1 MERNKLARQIIDTCLEMTRLGLNQGTAGNVSVRYQDGMLITPTGIPYEKLTESHIVFIDGNGKHEEGKLPSSEWRFHMAAYQSRPDANAVVHNHAVHCTAVSILNRSIPAIHYMIAAAGGNSIPCAPYATFGTRELSEHVALALKNRKATLLQHHGLIACEVNLEKALWLAHEVEVLAQLYLTTLAITDPVPVLSDEEIAVVLEKFKT 208
                                    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:208
 aligned with FUCA_SHIFL | P0AB88 from UniProtKB/Swiss-Prot  Length:215

    Alignment length:208
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200        
           FUCA_SHIFL     1 MERNKLARQIIDTCLEMTRLGLNQGTAGNVSVRYQDGMLITPTGIPYEKLTESHIVFIDGNGKHEEGKLPSSEWRFHMAAYQSRPDANAVVHNHAVHCTAVSILNRSIPAIHYMIAAAGGNSIPCAPYATFGTRELSEHVALALKNRKATLLQHHGLIACEVNLEKALWLAHEVEVLAQLYLTTLAITDPVPVLSDEEIAVVLEKFKT 208
               SCOP domains d1dzxp_ P: L-fuculose-1-phosphate aldolase                                                                                                                                                                       SCOP domains
               CATH domains 1dzxP00 P:1-208 L-fuculose-1-phosphate Aldolase                                                                                                                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh........eeeeee..eeee.....hhhhhhhhhheee..............hhhhhhhhhhhh....eeeee.hhhhhhhhhhh......hhhhhhhh....eee......hhhhhhhhhhhh....eeee...eeeeee.hhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dzx P   1 MERNKLARQIIDTCLEMTRLGLNQGTAGNVSVRYQDGMLITPTGIPYEKLTESHIVFIDGNGKHEEGKLPSSEWRFHMAAYQSRPDANAVVHNHAVHCTAVSILNRSIPAIHYMIAAAGGNSIPCAPYATFGTRELSEHVALALKNRKATLLQHHGLIACEVNLEKALWLAHEVEVLAQLYLTTLAITDPVPVLSDEEIAVVLEKFKT 208
                                    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 '\|'

Asymmetric Unit

Classes(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

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Organisms( (-)

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

Fold: AraD/HMP-PK domain-like (40)

Superfamily: AraD/HMP-PK domain-like (40)

Family: AraD-like aldolase/epimerase (35)

Protein domain: L-fuculose-1-phosphate aldolase (17)

Escherichia coli [TaxId: 562] (17)

d1dzxp_

Asymmetric Unit

Classes(

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Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

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Organisms( (-)

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Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: L-fuculose-1-phosphate Aldolase (38)

Homologous Superfamily: L-fuculose-1-phosphate Aldolase (38)

Escherichia coli. Organism_taxid: 562. (28)

1dzxP00

P:1-208

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

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.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
		Asp P:189 - Pro P:190	[ RasMol ]

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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1dzu	L-FUCULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI MUTANT T26A
1dzv	L-FUCULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI MUTANT Y113F/Y209F
1dzw	L-FUCULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI MUTANT F131A
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

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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SCOP Domains (1, 1)

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Gene Ontology (11, 19)

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