B6JGA4 (DAPA_OLICO) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Dihydrodipicolinate synthase
Short name=DHDPS
EC=4.2.1.52

Gene names

Name:	dapA
Ordered Locus Names:	OCAR_5830, OCA5_c21860

Organism

Oligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5) [Complete proteome] [HAMAP]

Taxonomic identifier

504832 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Alphaproteobacteria › Rhizobiales › Bradyrhizobiaceae › Oligotropha

Protein attributes

Sequence length	296 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Catalytic activity	L-aspartate 4-semialdehyde + pyruvate = dihydrodipicolinate + 2 H2O. HAMAP MF_00418
Pathway	Amino-acid biosynthesis; L-lysine biosynthesis via DAP pathway; (S)-tetrahydrodipicolinate from L-aspartate: step 3/4. HAMAP MF_00418
Subunit structure	Homotetramer By similarity. HAMAP MF_00418
Subcellular location	Cytoplasm By similarity HAMAP MF_00418.
Sequence similarities	Belongs to the DHDPS family.
Sequence caution	The sequence AEI06889.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

Ontologies

Keywords
Biological process	Amino-acid biosynthesis Diaminopimelate biosynthesis Lysine biosynthesis
Cellular component	Cytoplasm
Ligand	Schiff base
Molecular function	Lyase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	diaminopimelate biosynthetic process Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	dihydrodipicolinate synthase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 296	296	Dihydrodipicolinate synthase HAMAP MF_00418		PRO_1000124054
Regions
	Region	52 – 53	2	Pyruvate binding By similarity
Sites
	Active site	165	1	Schiff-base intermediate with substrate By similarity
	Binding site	110	1	Pyruvate By similarity
	Site	137	1	Involved in proton transfer during cleavage By similarity

Sequences

	Sequence		Length	Mass (Da)
	B6JGA4 [UniParc]. Last modified December 16, 2008. Version 1. Checksum: 216026D2DB673D61	FASTA	296	31,659
	10 20 30 40 50 60 MTAKSKFRGS FTALVTPFKN GGLDEAAFRG LVSWQIAEGT HGLVPVGTTG ESPTVTHDEH 70 80 90 100 110 120 KQLVEWCVDE AKARVPVIAG AGSNSTAEAI GLAKHAEKVG AAAVLVVTPY YNKPTQEGLY 130 140 150 160 170 180 QHFKAVNDAI GIPIIIYNIP GRSVVDMSTD TMKRLFELKN ISGVKDATAN IARVSAQRAA 190 200 210 220 230 240 MGEDFNQLSG EDITALGYMA HGGHGCISVT SNVAPRLCSE FQTACLKGDY ATALKIQDKL 250 260 270 280 290 VPLHTNLFIE ANPAPVKYAL SLLGKMSNTL RLPMVELSEA NREIVRQSMV HAGLLN

References

[1]	"Genome sequence of the chemolithoautotrophic bacterium Oligotropha carboxidovorans OM5T." Paul D., Bridges S., Burgess S.C., Dandass Y., Lawrence M.L. J. Bacteriol. 190:5531-5532(2008) [PubMed: 18539730] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 49405 / DSM 1227 / OM5.
[2]	"Complete genome sequences of the chemolithoautotrophic Oligotropha carboxidovorans strains OM4 and OM5." Volland S., Rachinger M., Strittmatter A., Daniel R., Gottschalk G., Meyer O. J. Bacteriol. 193:5043-5043(2011) [PubMed: 21742883] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 49405 / DSM 1227 / OM5.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP001196 Genomic DNA. Translation: ACI92955.1. CP002826 Genomic DNA. Translation: AEI06889.1. Different initiation.
RefSeq	YP_002288820.1. NC_011386.1.
3D structure databases
ProteinModelPortal	B6JGA4.
SMR	B6JGA4. Positions 7-291.
ModBase	Search...
Protein-protein interaction databases
STRING	B6JGA4.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	6991972.
GenomeReviews	Gene locus OCAR_5830 in contig CP001196_GR.
KEGG	oca:OCAR_5830.
PATRIC	22805549. VBIOliCar134280_1736.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	HBG358848.
OMA	HGCISVV.
ProtClustDB	PRK03170.
Family and domain databases
HAMAP	MF_00418. DapA. [Tree]
InterPro	IPR013785. Aldolase_TIM. IPR002220. Dihydrodipicolinate_synth-like. IPR020625. Dihydrodipicolinate_synth_AS. IPR020624. Dihydrodipicolinate_synth_CS. IPR005263. Dihydrodipicolinate_synth_DapA. [Graphical view]
Gene3D	G3DSA:3.20.20.70. Aldolase_TIM. 1 hit.
KO	K01714.
PANTHER	PTHR12128. DHDPS. 1 hit.
Pfam	PF00701. DHDPS. 1 hit. [Graphical view]
PIRSF	PIRSF001365. DHDPS. 1 hit.
PRINTS	PR00146. DHPICSNTHASE.
TIGRFAMs	TIGR00674. DapA. 1 hit.
PROSITE	PS00665. DHDPS_1. 1 hit. PS00666. DHDPS_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

DAPA_OLICO

Accession

Primary (citable) accession number: B6JGA4
Secondary accession number(s): F8BXQ2

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 14, 2009
Last sequence update:	December 16, 2008
Last modified:	January 25, 2012
This is version 23 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program