B4RCW4 (DAPA_PHEZH) 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:	PHZ_c1890

Organism

Phenylobacterium zucineum (strain HLK1) [Complete proteome] [HAMAP]

Taxonomic identifier

450851 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Alphaproteobacteria › Caulobacterales › Caulobacteraceae › Phenylobacterium

Protein attributes

Sequence length	294 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 – 294	294	Dihydrodipicolinate synthase HAMAP MF_00418		PRO_1000124056
Regions
	Region	51 – 52	2	Pyruvate binding By similarity
Sites
	Active site	164	1	Schiff-base intermediate with substrate By similarity
	Binding site	109	1	Pyruvate By similarity
	Site	136	1	Involved in proton transfer during cleavage By similarity

Sequences

	Sequence		Length	Mass (Da)
	B4RCW4 [UniParc]. Last modified September 23, 2008. Version 1. Checksum: 550CF9380B11141C	FASTA	294	31,453
	10 20 30 40 50 60 MIDPMFRGVL PALVTPYRNG QVDEDAFVAL VERQIAGGVH GLVPVGTTGE SATLTHEEHR 70 80 90 100 110 120 RVVELCVKTA RGRVPVVAGA GSNSTAEAIE LVRHAKTVGA DAALVVTPYY NRPSQEGLYA 130 140 150 160 170 180 HYRAINDAVQ LPILVYNVPT RTSVDISNDV LVRLSKLPNV VGIKDATSDL VRASFQRLHC 190 200 210 220 230 240 GEEWVMLSGD DPVALGYMAH GGHGCISVTA NVAPEQCADF YNAALSGDWA TALQWQDRLV 250 260 270 280 290 RLHKALFADA SPAPTKFALS HLGLCSEETR LPITPASEAA RAEVLAAMRD AGLI

References

[1]

"Complete genome of Phenylobacterium zucineum - a novel facultative intracellular bacterium isolated from human erythroleukemia cell line K562." Luo Y., Xu X., Ding Z., Liu Z., Zhang B., Yan Z., Sun J., Hu S., Hu X. BMC Genomics 9:386-386(2008) [PubMed: 18700039] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: HLK1.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000747 Genomic DNA. Translation: ACG78301.1.
RefSeq	YP_002130730.1. NC_011144.1.
3D structure databases
ProteinModelPortal	B4RCW4.
ModBase	Search...
Protein-protein interaction databases
STRING	B4RCW4.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	6791405.
GenomeReviews	Gene locus PHZ_c1890 in contig CP000747_GR.
KEGG	pzu:PHZ_c1890.
PATRIC	22926750. VBIPheZuc44517_2445.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	HBG358848.
OMA	GSTNHAE.
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_PHEZH

Accession

Primary (citable) accession number: B4RCW4

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 14, 2009
Last sequence update:	September 23, 2008
Last modified:	January 25, 2012
This is version 24 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program