Q3YXA5 (GARL_SHISS) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
5-keto-4-deoxy-D-glucarate aldolase
Short name=KDGluc aldolase
Short name=KDGlucA
EC=4.1.2.20

Alternative name(s):
2-dehydro-3-deoxy-D-glucarate aldolase
2-keto-3-deoxy-D-glucarate aldolase
5-dehydro-4-deoxy-D-glucarate aldolase
Alpha-keto-beta-deoxy-D-glucarate aldolase

Gene names

Name:	garL
Ordered Locus Names:	SSON_3281

Organism

Shigella sonnei (strain Ss046) [Complete proteome] [HAMAP]

Taxonomic identifier

300269 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Shigella

Protein attributes

Sequence length	256 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Catalyzes the reversible retro-aldol cleavage of both 5-keto-4-deoxy-D-glucarate and 2-keto-3-deoxy-D-glucarate to pyruvate and tartronic semialdehyde By similarity. HAMAP MF_01291
Catalytic activity	5-dehydro-4-deoxy-D-glucarate = pyruvate + tartronate semialdehyde. HAMAP MF_01291 2-dehydro-3-deoxy-D-glucarate = pyruvate + tartronate semialdehyde. HAMAP MF_01291
Cofactor	Binds 1 magnesium ion per subunit By similarity. HAMAP MF_01291
Pathway	Carbohydrate acid metabolism; D-galactarate degradation; D-glycerate from D-galactarate: step 2/3. HAMAP MF_01291
Subunit structure	Homohexamer; trimer of dimers By similarity. HAMAP MF_01291
Sequence similarities	Belongs to the HpcH/HpaI aldolase family. KDGluc aldolase subfamily.

Ontologies

Keywords
Ligand	Magnesium Metal-binding
Molecular function	Lyase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	cellular aromatic compound metabolic process Inferred from electronic annotation. Source: InterPro
Molecular function	2-dehydro-3-deoxyglucarate aldolase activity Inferred from electronic annotation. Source: EC metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 256	256	5-keto-4-deoxy-D-glucarate aldolase HAMAP MF_01291		PRO_0000353162
Sites
	Active site	50	1	Proton acceptor By similarity
	Metal binding	153	1	Magnesium By similarity
	Metal binding	179	1	Magnesium By similarity
	Binding site	151	1	Substrate By similarity
	Binding site	178	1	Substrate; via amide nitrogen By similarity
	Binding site	179	1	Substrate By similarity
	Site	75	1	Transition state stabilizer By similarity
	Site	89	1	Increases basicity of active site His By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q3YXA5 [UniParc]. Last modified September 27, 2005. Version 1. Checksum: E27F293FFB0B6408	FASTA	256	27,429
	10 20 30 40 50 60 MNNDVFPNKF KAALAAKQVQ IGCWSALSNP ISTEVLGLAG FDWLVLDGEH APNDISTFIP 70 80 90 100 110 120 QLMALKGSAS APVVRVPTNE PVIIKRLLDI GFYNFLIPFV ETKEEAEQAV ASTRYPPEGI 130 140 150 160 170 180 RGVSVSHRTN MFGTVADYFA QSNKNITILV QIESQQGVDN VDAIAATEGV DGIFVGPSDL 190 200 210 220 230 240 AAALGHLGNA SHPDVQKAIQ HIFNRASAHG KPSGILAPVE ADARRYLEWG ATFVAVGSDL 250 GVFRSATQKL ADTFKK

References

[1]

"Genome dynamics and diversity of Shigella species, the etiologic agents of bacillary dysentery." Yang F., Yang J., Zhang X., Chen L., Jiang Y., Yan Y., Tang X., Wang J., Xiong Z., Dong J., Xue Y., Zhu Y., Xu X., Sun L., Chen S., Nie H., Peng J., Xu J. , Wang Y., Yuan Z., Wen Y., Yao Z., Shen Y., Qiang B., Hou Y., Yu J., Jin Q. Nucleic Acids Res. 33:6445-6458(2005) [PubMed: 16275786] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: Ss046.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000038 Genomic DNA. Translation: AAZ89857.1.
RefSeq	YP_312092.1. NC_007384.1.
3D structure databases
ProteinModelPortal	Q3YXA5.
SMR	Q3YXA5. Positions 4-256.
ModBase	Search...
Protein-protein interaction databases
STRING	Q3YXA5.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	EBESCT00000101135; EBESCP00000097164; EBESCG00000100179.
GeneID	3668964.
GenomeReviews	Gene locus SSON_3281 in contig CP000038_GR.
KEGG	ssn:SSON_3281.
PATRIC	18741204. VBIShiSon107113_3904.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG3836.
GeneTree	EBGT00050000008793.
HOGENOM	HBG747616.
OMA	IGCWCAL.
PhylomeDB	Q3YXA5.
ProtClustDB	PRK10558.
Enzyme and pathway databases
BioCyc	SSON300269:SSO_3281-MONOMER.
Family and domain databases
HAMAP	MF_01291. KDGluc_aldolase. [Tree]
InterPro	IPR005000. Aldehyde-lyase_domain. IPR017648. Dehyd-dGlucarate-aldolase_GarL. IPR015813. Pyrv/PenolPyrv_Kinase. [Graphical view]
Gene3D	G3DSA:3.20.20.60. Pyrv/PenolPyrv_Kinase_cat. 1 hit.
KO	K01630.
Pfam	PF03328. HpcH_HpaI. 1 hit. [Graphical view]
SUPFAM	SSF51621. Pyrv/PenolPyrv_Kinase_cat. 1 hit.
TIGRFAMs	TIGR03239. GarL. 1 hit.
ProtoNet	Search...

Entry information

Entry name

GARL_SHISS

Accession

Primary (citable) accession number: Q3YXA5

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 4, 2008
Last sequence update:	September 27, 2005
Last modified:	January 25, 2012
This is version 51 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program