Q9LZX6 (DAPA1_ARATH) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
4-hydroxy-tetrahydrodipicolinate synthase 1, chloroplastic
Short name=HTPA synthase 1
EC=4.3.3.7

Gene names

Name:	DHDPS1
Synonyms:	DHDPS, DHPS1
Ordered Locus Names:	At3g60880
ORF Names:	T4C21_290

Organism

Arabidopsis thaliana (Mouse-ear cress) [Reference proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Viridiplantae › Streptophyta › Streptophytina › Embryophyta › Tracheophyta › Euphyllophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length	365 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at transcript level

General annotation (Comments)

Function	Catalyzes the condensation of (S)-aspartate-beta-semialdehyde [(S)-ASA] and pyruvate to 4-hydroxy-tetrahydrodipicolinate (HTPA) By similarity.
Catalytic activity	Pyruvate + L-aspartate-4-semialdehyde = (4S)-4-hydroxy-2,3,4,5-tetrahydro-(2S)-dipicolinate + H2O.
Pathway	Amino-acid biosynthesis; L-lysine biosynthesis via DAP pathway; (S)-tetrahydrodipicolinate from L-aspartate: step 3/4.
Subcellular location	Plastid › chloroplast.
Sequence similarities	Belongs to the DapA family.
Caution	Was originally thought to be a dihydrodipicolinate synthase (DHDPS), catalyzing the condensation of (S)-aspartate-beta-semialdehyde [(S)-ASA] and pyruvate to dihydrodipicolinate (DHDP). However, it was shown in E.coli (PubMed:8993314 and PubMed:20503968) that the product of the enzymatic reaction is not dihydrodipicolinate but in fact (4S)-4-hydroxy-2,3,4,5-tetrahydro-(2S)-dipicolinic acid (HTPA), and that the consecutive dehydration reaction leading to DHDP is not spontaneous but catalyzed by DapB (PubMed:20503968).

Ontologies

Keywords
Biological process	Amino-acid biosynthesis Diaminopimelate biosynthesis Lysine biosynthesis
Cellular component	Chloroplast Plastid
Coding sequence diversity	Alternative splicing
Domain	Transit peptide
Ligand	Schiff base
Molecular function	Lyase
Technical term	Allosteric enzyme Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	diaminopimelate biosynthetic process Inferred from electronic annotation. Source: UniProtKB-KW lysine biosynthetic process via diaminopimelate Inferred from electronic annotation. Source: UniProtKB-UniPathway
Cellular_component	chloroplast Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	4-hydroxy-tetrahydrodipicolinate synthase Inferred from direct assay PubMed 10758475. Source: TAIR
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q9LZX6-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

Note: May be due to a competing acceptor splice site.

Isoform 2 (identifier: Q9LZX6-2)

The sequence of this isoform differs from the canonical sequence as follows:
     30-30: Missing.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Transit peptide	1 – 39	39	Chloroplast Potential
	Chain	40 – 365	326	4-hydroxy-tetrahydrodipicolinate synthase 1, chloroplastic		PRO_0000007197
Sites
	Active site	194	1	Proton donor/acceptor By similarity
	Active site	222	1	Schiff-base intermediate with substrate By similarity
	Binding site	108	1	Pyruvate By similarity
	Binding site	261	1	Pyruvate; via carbonyl oxygen By similarity
	Site	107	1	Part of a proton relay during catalysis By similarity
	Site	170	1	Part of a proton relay during catalysis By similarity
Natural variations
	Alternative sequence	30	1	Missing in isoform 2.		VSP_009000
Experimental info
	Sequence conflict	286	1	A → E in CAB45642. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified November 21, 2003. Version 2. Checksum: F07BBAE68F004484	FASTA	365	40,620
	10 20 30 40 50 60 MSALKNYGLI SIDSALHFPR SNQLQSYKRR NAKWVSPIAA VVPNFHLPMR SLEDKNRTNT 70 80 90 100 110 120 DDIRSLRVIT AIKTPYLPDG RFDLQAYDDL VNTQIENGAE GVIVGGTTGE GQLMSWDEHI 130 140 150 160 170 180 MLIGHTVNCF GGRIKVIGNT GSNSTREAIH ATEQGFAMGM HGALHINPYY GKTSIEGMNA 190 200 210 220 230 240 HFQTVLHMGP TIIYNVPGRT CQDIPPQVIF KLSQNPNMAG VKECVGNNRV EEYTEKGIVV 250 260 270 280 290 300 WSGNDDQCHD SRWDHGATGV ISVTSNLVPG LMRKLMFEGR NSALNAKLLP LMDWLFQEPN 310 320 330 340 350 360 PIGVNTALAQ LGVARPVFRL PYVPLPLSKR IEFVKLVKEI GREHFVGDRD VQVLDDDDFI LIGRY
	Isoform 2 [UniParc]. Checksum: 73895B17AA79E6EE	FASTA	364	40,464
	10 20 30 40 50 60 MSALKNYGLI SIDSALHFPR SNQLQSYKRN AKWVSPIAAV VPNFHLPMRS LEDKNRTNTD 70 80 90 100 110 120 DIRSLRVITA IKTPYLPDGR FDLQAYDDLV NTQIENGAEG VIVGGTTGEG QLMSWDEHIM 130 140 150 160 170 180 LIGHTVNCFG GRIKVIGNTG SNSTREAIHA TEQGFAMGMH GALHINPYYG KTSIEGMNAH 190 200 210 220 230 240 FQTVLHMGPT IIYNVPGRTC QDIPPQVIFK LSQNPNMAGV KECVGNNRVE EYTEKGIVVW 250 260 270 280 290 300 SGNDDQCHDS RWDHGATGVI SVTSNLVPGL MRKLMFEGRN SALNAKLLPL MDWLFQEPNP 310 320 330 340 350 360 IGVNTALAQL GVARPVFRLP YVPLPLSKRI EFVKLVKEIG REHFVGDRDV QVLDDDDFIL IGRY

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Isolation of a poplar and an Arabidopsis thaliana dihydrodipicolinate synthase cDNA clone." Vauterin M., Jacobs M. Plant Mol. Biol. 25:545-550(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2).
[2]	"Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana." Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V., Choisne N., Artiguenave F. , Robert C., Brottier P., Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D., de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E., Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S. Nature 408:820-822(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[3]	The Arabidopsis Information Resource (TAIR) Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: cv. Columbia.
[4]	"Empirical analysis of transcriptional activity in the Arabidopsis genome." Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G. , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R. Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Strain: cv. Columbia.
[5]	"Full-length cDNA from Arabidopsis thaliana." Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B., Feldmann K.A. Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
[6]	Vauterin M. Submitted (MAY-1996) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE OF 1-159 (ISOFORM 2).
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	X72971 mRNA. Translation: CAB45642.1. AL162295 Genomic DNA. Translation: CAB82692.1. CP002686 Genomic DNA. Translation: AEE80120.1. CP002686 Genomic DNA. Translation: AEE80121.1. AY063943 mRNA. Translation: AAL36299.1. AY096442 mRNA. Translation: AAM20082.1. AY087718 mRNA. Translation: AAM65255.1. X98080 Genomic DNA. Translation: CAA66703.1.
IPI	IPI00534659. IPI00545708.
PIR	S46304. T47899.
RefSeq	NP_191647.1. NM_115952.2. NP_850730.1. NM_180399.2.
UniGene	At.437.
3D structure databases
ProteinModelPortal	Q9LZX6.
SMR	Q9LZX6. Positions 59-365.
ModBase	Search...
Proteomic databases
PaxDb	Q9LZX6.
PRIDE	Q9LZX6.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	AT3G60880.2; AT3G60880.2; AT3G60880.
GeneID	825259.
KEGG	ath:AT3G60880.
Organism-specific databases
TAIR	At3g60880.
Phylogenomic databases
eggNOG	COG0329.
HOGENOM	HOG000173604.
InParanoid	Q9LZX6.
KO	K01714.
OMA	VNALFSV.
PhylomeDB	Q9LZX6.
ProtClustDB	PLN02417.
Enzyme and pathway databases
UniPathway	UPA00034; UER00017.
Gene expression databases
Genevestigator	Q9LZX6.
GermOnline	AT3G60880. Arabidopsis thaliana.
Family and domain databases
Gene3D	3.20.20.70. 1 hit.
InterPro	IPR013785. Aldolase_TIM. IPR002220. Dihydrodipicolinate_synth-like. IPR020625. Dihydrodipicolinate_synth_AS. IPR020624. Dihydrodipicolinate_synth_CS. IPR005263. Dihydrodipicolinate_synth_DapA. [Graphical view]
PANTHER	PTHR12128. PTHR12128. 1 hit.
Pfam	PF00701. DHDPS. 1 hit. [Graphical view]
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

DAPA1_ARATH

Accession

Primary (citable) accession number: Q9LZX6
Secondary accession number(s): O49355, Q8VZQ1, Q9SW58

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 20, 2001
Last sequence update:	November 21, 2003
Last modified:	May 1, 2013
This is version 102 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program