garL:Gene Product(s)

Standard name	GarL
Synonyms	alpha-dehydro-beta-deoxy-D-glucarate aldolase^[1], B3126^[2]^[1], YhaF^[2]^[1], GarL^[2]^[1]
Product description	2-dehydro-3-deoxygalactarate aldolase; homohexameric^[3]
EC number (for enzymes)	4.1.2.20^[1]
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Notes

Function

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Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier	GO ID	GO term name	Reference(s)	Evidence Code	with/from	Aspect	Notes	Status
	GO:0008672	2-dehydro-3-deoxyglucarate aldolase activity		IDA: Inferred from Direct Assay		F	Seeded from EcoCyc 12.5 ^[4]	required field missing
	GO:0019582	D-galactarate catabolic process	PMID:9772162^[5]	IDA: Inferred from Direct Assay		P	Seeded from EcoCyc 12.5 ^[4]	complete
	GO:0042838	D-glucarate catabolic process	PMID:9772162^[5]	IDA: Inferred from Direct Assay		P	Seeded from EcoCyc ^[6]	complete
	GO:0000287	magnesium ion binding	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0460	F	Seeded from EcoCyc ^[6]	complete
	GO:0006725	cellular aromatic compound metabolic process	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005000	P	Seeded from EcoCyc ^[6]	complete
	GO:0008672	2-dehydro-3-deoxyglucarate aldolase activity	GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:4.1.2.20	F	Seeded from EcoCyc 12.5 ^[4]	complete
	GO:0046872	metal ion binding	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0479	F	Seeded from EcoCyc ^[6]	complete
	GO:0005737	cytoplasm				C	Seeded from Riley et al 2006 ^[1].	required fields missing
	GO:0003824	catalytic activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR015813	F	Seeded from EcoCyc ^[6]	complete
	GO:0005506	iron ion binding	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0408	F	Seeded from EcoCyc ^[6]	complete
	GO:0016829	lyase activity	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0456	F	Seeded from EcoCyc ^[6]	complete
	GO:0016830	carbon-carbon lyase activity	GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005000	F	Seeded from EcoCyc ^[6]	complete
	GO:0019394	glucarate catabolic process	GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01291	P	Seeded from EcoCyc ^[6]	complete
	GO:0030145	manganese ion binding	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0464	F	Seeded from EcoCyc ^[6]	complete
	GO:0050897	cobalt ion binding	GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0170	F	Seeded from EcoCyc ^[6]	complete
	GO:0016052	carbohydrate catabolic process				P	Seeded from EcoCyc 11.1^[7].	required fields missing
	GO:0005737	cytoplasm	PMID:9772162^[5]	IDA: Inferred from Direct Assay		C		complete
	GO:0019394	glucarate catabolic process	PMID:9772162^[5]	IDA: Inferred from Direct Assay		P		complete
	GO:0008672	2-dehydro-3-deoxyglucarate aldolase activity	PMID:9772162^[5]	IDA: Inferred from Direct Assay		F		complete
	GO:0016830	carbon-carbon lyase activity	PMID:9772162^[5]	IDA: Inferred from Direct Assay		F		complete
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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type	Partner	References	Evidence
Protein	uvrY	PMID:16606699^[8]	Experiment(s):EBI-1144847
Protein	mfd	PMID:16606699^[8]	Experiment(s):EBI-1144847
Protein	mngB	PMID:16606699^[8]	Experiment(s):EBI-1144847
Protein	lacZ	PMID:16606699^[8]	Experiment(s):EBI-1144847
Protein	nadE	PMID:16606699^[8]	Experiment(s):EBI-1144847
Protein	yebT	PMID:16606699^[8]	Experiment(s):EBI-1144847
Protein	modB	PMID:16606699^[8]	Experiment(s):EBI-1144847
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Notes

Localization

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Compartment	Description	Evidence	Source	Notes
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Notes

Structure and Physical Properties

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Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Sequence	at EcoCyc MNNDVFPNKF KAALAAKQVQ IGCWSALSNP ISTEVLGLAG FDWLVLDGEH APNDISTFIP QLMALKGSAS APVVRVPTNE PVIIKRLLDI GFYNFLIPFV ETKEEAELAV ASTRYPPEGI RGVSVSHRAN MFGTVADYFA QSNKNITILV QIESQQGVDN VDAIAATEGV DGIFVGPSDL AAALGHLGNA SHPDVQKAIQ HIFNRASAHG KPSGILAPVE ADARRYLEWG ATFVAVGSDL GVFRSATQKL ADTFKK
Length	256
Mol. Wt	27.383 kDa
pI	6.0 (calculated)
Extinction coefficient	22,460 - 22,585 (calc based on 4 Y, 3 W, and 1 C residues)
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Domains/Motifs/Modification Sites

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Type	Residues	Description	Notes	References
Modification Site	124	phosphorylation site at S124	probability greater than 75%	PMID:17938405^[9]
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Structure
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Structures

Representative Escherichia coli structure:
1DXE|A
1-256 of 256 residues (E-value: 3e-134) (Percent Identity: 100.00)
View the PDB Table for garL

Models

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Structure figures

Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type	Source	Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc (EcoliWiki Page)	EcoCyc:KDGALDOL-MONOMER
UniProt (EcoliWiki Page)	UniProt:P23522
PFAM (EcoliWiki Page)	PFAM:PF03328
RefSeq (EcoliWiki Page)	RefSeq:NP_417595
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^4.0 ^4.1 ^4.2 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^5.0 ^5.1 ^5.2 ^5.3 ^5.4 ^5.5 Hubbard BK et al. (1998) Evolution of enzymatic activities in the enolase superfamily: characterization of the (D)-glucarate/galactarate catabolic pathway in Escherichia coli. Biochemistry 37: 14369-75 PubMed EcoliWiki page
↑ ^6.00 ^6.01 ^6.02 ^6.03 ^6.04 ^6.05 ^6.06 ^6.07 ^6.08 ^6.09 ^6.10 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^8.0 ^8.1 ^8.2 ^8.3 ^8.4 ^8.5 ^8.6 Arifuzzaman M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res 16: 686-91 PubMed EcoliWiki page
↑ Macek B et al. (2007) Phosphoproteome analysis of E. coli reveals evolutionary conservation of bacterial Ser/Thr/Tyr phosphorylation. Mol Cell Proteomics PubMed EcoliWiki page

garL:Gene Product(s)

From EcoliWiki

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

References

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