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Protein

4-hydroxy-tetrahydrodipicolinate synthase 1, chloroplastic

Gene

DHDPS1

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Catalyzes the condensation of (S)-aspartate-beta-semialdehyde [(S)-ASA] and pyruvate to 4-hydroxy-tetrahydrodipicolinate (HTPA).By similarity

Catalytic activityi

Pyruvate + L-aspartate-4-semialdehyde = (4S)-4-hydroxy-2,3,4,5-tetrahydro-(2S)-dipicolinate + H2O.

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei107 – 1071Part of a proton relay during catalysisBy similarity
Binding sitei108 – 1081PyruvateBy similarity
Sitei170 – 1701Part of a proton relay during catalysisBy similarity
Active sitei194 – 1941Proton donor/acceptorBy similarity
Active sitei222 – 2221Schiff-base intermediate with substrateBy similarity
Binding sitei261 – 2611Pyruvate; via carbonyl oxygenBy similarity

GO - Molecular functioni

  • 4-hydroxy-tetrahydrodipicolinate synthase Source: TAIR

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

Amino-acid biosynthesis, Diaminopimelate biosynthesis, Lysine biosynthesis

Keywords - Ligandi

Schiff base

Enzyme and pathway databases

BioCyciARA:AT3G60880-MONOMER.
UniPathwayiUPA00034; UER00017.

Names & Taxonomyi

Protein namesi
Recommended name:
4-hydroxy-tetrahydrodipicolinate synthase 1, chloroplastic (EC:4.3.3.7)
Short name:
HTPA synthase 1
Gene namesi
Name:DHDPS1
Synonyms:DHDPS, DHPS1
Ordered Locus Names:At3g60880
ORF Names:T4C21_290
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G60880.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Plastid

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 3939ChloroplastSequence AnalysisAdd
BLAST
Chaini40 – 3653264-hydroxy-tetrahydrodipicolinate synthase 1, chloroplasticPRO_0000007197Add
BLAST

Proteomic databases

PaxDbiQ9LZX6.
PRIDEiQ9LZX6.

Expressioni

Gene expression databases

GenevestigatoriQ9LZX6.

Interactioni

Protein-protein interaction databases

BioGridi10573. 1 interaction.

Structurei

3D structure databases

ProteinModelPortaliQ9LZX6.
SMRiQ9LZX6. Positions 59-365.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the DapA family.Curated

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiCOG0329.
HOGENOMiHOG000173604.
InParanoidiQ9LZX6.
KOiK01714.
OMAiLVNMQIV.
PhylomeDBiQ9LZX6.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00418. DapA.
InterProiIPR013785. Aldolase_TIM.
IPR005263. DapA.
IPR002220. DapA-like.
IPR020625. Schiff_base-form_aldolases_AS.
IPR020624. Schiff_base-form_aldolases_CS.
[Graphical view]
PANTHERiPTHR12128. PTHR12128. 1 hit.
PfamiPF00701. DHDPS. 1 hit.
[Graphical view]
PRINTSiPR00146. DHPICSNTHASE.
TIGRFAMsiTIGR00674. dapA. 1 hit.
PROSITEiPS00665. DHDPS_1. 1 hit.
PS00666. DHDPS_2. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9LZX6-1) [UniParc]FASTAAdd to basket

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.

« Hide

        10         20         30         40         50
MSALKNYGLI SIDSALHFPR SNQLQSYKRR NAKWVSPIAA VVPNFHLPMR
60 70 80 90 100
SLEDKNRTNT DDIRSLRVIT AIKTPYLPDG RFDLQAYDDL VNTQIENGAE
110 120 130 140 150
GVIVGGTTGE GQLMSWDEHI MLIGHTVNCF GGRIKVIGNT GSNSTREAIH
160 170 180 190 200
ATEQGFAMGM HGALHINPYY GKTSIEGMNA HFQTVLHMGP TIIYNVPGRT
210 220 230 240 250
CQDIPPQVIF KLSQNPNMAG VKECVGNNRV EEYTEKGIVV WSGNDDQCHD
260 270 280 290 300
SRWDHGATGV ISVTSNLVPG LMRKLMFEGR NSALNAKLLP LMDWLFQEPN
310 320 330 340 350
PIGVNTALAQ LGVARPVFRL PYVPLPLSKR IEFVKLVKEI GREHFVGDRD
360
VQVLDDDDFI LIGRY

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

Length:365
Mass (Da):40,620
Last modified:November 21, 2003 - v2
Checksum:iF07BBAE68F004484
GO
Isoform 2 (identifier: Q9LZX6-2) [UniParc]FASTAAdd to basket

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

Show »
Length:364
Mass (Da):40,464
Checksum:i73895B17AA79E6EE
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti286 – 2861A → E in CAB45642 (PubMed:8049377).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei30 – 301Missing in isoform 2. 2 PublicationsVSP_009000

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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.
PIRiS46304.
T47899.
RefSeqiNP_191647.1. NM_115952.2. [Q9LZX6-2]
NP_850730.1. NM_180399.2. [Q9LZX6-1]
UniGeneiAt.437.

Genome annotation databases

EnsemblPlantsiAT3G60880.2; AT3G60880.2; AT3G60880. [Q9LZX6-1]
GeneIDi825259.
KEGGiath:AT3G60880.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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.
PIRiS46304.
T47899.
RefSeqiNP_191647.1. NM_115952.2. [Q9LZX6-2]
NP_850730.1. NM_180399.2. [Q9LZX6-1]
UniGeneiAt.437.

3D structure databases

ProteinModelPortaliQ9LZX6.
SMRiQ9LZX6. Positions 59-365.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi10573. 1 interaction.

Proteomic databases

PaxDbiQ9LZX6.
PRIDEiQ9LZX6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G60880.2; AT3G60880.2; AT3G60880. [Q9LZX6-1]
GeneIDi825259.
KEGGiath:AT3G60880.

Organism-specific databases

TAIRiAT3G60880.

Phylogenomic databases

eggNOGiCOG0329.
HOGENOMiHOG000173604.
InParanoidiQ9LZX6.
KOiK01714.
OMAiLVNMQIV.
PhylomeDBiQ9LZX6.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00017.
BioCyciARA:AT3G60880-MONOMER.

Miscellaneous databases

PROiQ9LZX6.

Gene expression databases

GenevestigatoriQ9LZX6.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00418. DapA.
InterProiIPR013785. Aldolase_TIM.
IPR005263. DapA.
IPR002220. DapA-like.
IPR020625. Schiff_base-form_aldolases_AS.
IPR020624. Schiff_base-form_aldolases_CS.
[Graphical view]
PANTHERiPTHR12128. PTHR12128. 1 hit.
PfamiPF00701. DHDPS. 1 hit.
[Graphical view]
PRINTSiPR00146. DHPICSNTHASE.
TIGRFAMsiTIGR00674. dapA. 1 hit.
PROSITEiPS00665. DHDPS_1. 1 hit.
PS00666. DHDPS_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  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).

Entry informationi

Entry nameiDAPA1_ARATH
AccessioniPrimary (citable) accession number: Q9LZX6
Secondary accession number(s): O49355, Q8VZQ1, Q9SW58
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 20, 2001
Last sequence update: November 21, 2003
Last modified: May 27, 2015
This is version 119 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

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 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.Curated

Keywords - Technical termi

Allosteric enzyme, Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.