B3DTC8 (DAPA_BIFLD) 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:	BLD_0951

Organism

Bifidobacterium longum (strain DJO10A) [Complete proteome] [HAMAP]

Taxonomic identifier

205913 [NCBI]

Taxonomic lineage

Bacteria › Actinobacteria › Actinobacteridae › Bifidobacteriales › Bifidobacteriaceae › Bifidobacterium

Protein attributes

Sequence length	301 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.

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 – 301	301	Dihydrodipicolinate synthase HAMAP MF_00418		PRO_1000124018
Regions
	Region	60 – 61	2	Pyruvate binding By similarity
Sites
	Active site	171	1	Schiff-base intermediate with substrate By similarity
	Binding site	116	1	Pyruvate By similarity
	Site	143	1	Involved in proton transfer during cleavage By similarity

Sequences

	Sequence		Length	Mass (Da)
	B3DTC8 [UniParc]. Last modified July 22, 2008. Version 1. Checksum: 75D9FA988C9635C2	FASTA	301	31,850
	10 20 30 40 50 60 MSEHDMHLLD SAPFGRILPA MVTPMKSDGS VDFAAAQKLA KYLVADGADG LVVNGTTGES 70 80 90 100 110 120 PVTHMDEKVE LVRAVKEVVD VPVISGAGSN DTAHTVRMVE QTQEAGADAV LVVMPYYSRP 130 140 150 160 170 180 SQDGIVGHYK AVDESAEKPI IVYDVPGRTG LKVKVGTYDR LAELEHVKAV KDATGDLAAA 190 200 210 220 230 240 VEKQQRTGLA WYSGDDGLFL PFLSIGAVGI ISVIAHVASN PMQQLVQAFD RGDITTARRL 250 260 270 280 290 300 ANQLAPLVHA LNGDGYQAVM AKAALKVKGV IPSTTMRLPN IGPDATQLDK AEEGMRAAGL L

References

[1]

"Comparative genomic analysis of the gut bacterium Bifidobacterium longum reveals loci susceptible to deletion during pure culture growth." Lee J.H., Karamychev V.N., Kozyavkin S.A., Mills D., Pavlov A.R., Pavlova N.V., Polouchine N.N., Richardson P.M., Shakhova V.V., Slesarev A.I., Weimer B., O'Sullivan D.J. BMC Genomics 9:247-247(2008) [PubMed: 18505588] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: DJO10A.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000605 Genomic DNA. Translation: ACD98397.1.
RefSeq	YP_001954895.1. NC_010816.1.
3D structure databases
ProteinModelPortal	B3DTC8.
ModBase	Search...
Protein-protein interaction databases
STRING	B3DTC8.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	6364373.
GenomeReviews	Gene locus BLD_0951 in contig CP000605_GR.
KEGG	blj:BLD_0951.
PATRIC	21114852. VBIBifLon134794_0964.
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_BIFLD

Accession

Primary (citable) accession number: B3DTC8

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 14, 2009
Last sequence update:	July 22, 2008
Last modified:	January 25, 2012
This is version 26 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program