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Protein

4-hydroxy-tetrahydrodipicolinate synthase

Gene

dapA

Organism
Pedobacter saltans (strain ATCC 51119 / DSM 12145 / JCM 21818 / LMG 10337 / NBRC 100064 / NCIMB 13643)
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

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

Catalytic activityi

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

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei46 – 461Part of a proton relay during catalysisUniRule annotation
Binding sitei47 – 471PyruvateUniRule annotation
Sitei109 – 1091Part of a proton relay during catalysisUniRule annotation
Active sitei135 – 1351Proton donor/acceptorUniRule annotation
Active sitei164 – 1641Schiff-base intermediate with substrateUniRule annotation
Binding sitei206 – 2061Pyruvate; via carbonyl oxygenUniRule annotation

GO - Molecular functioni

  1. 4-hydroxy-tetrahydrodipicolinate synthase Source: UniProtKB-HAMAP

GO - Biological processi

  1. diaminopimelate biosynthetic process Source: UniProtKB-HAMAP
  2. lysine biosynthetic process via diaminopimelate Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

LyaseUniRule annotation

Keywords - Biological processi

Amino-acid biosynthesis, Diaminopimelate biosynthesisUniRule annotationSAAS annotation, Lysine biosynthesisUniRule annotationSAAS annotation

Keywords - Ligandi

Schiff baseUniRule annotationSAAS annotation

Enzyme and pathway databases

BioCyciPSAL762903:GHB2-155-MONOMER.
UniPathwayiUPA00034; UER00017.

Names & Taxonomyi

Protein namesi
Recommended name:
4-hydroxy-tetrahydrodipicolinate synthaseUniRule annotationSAAS annotation (EC:4.3.3.7UniRule annotationSAAS annotation)
Short name:
HTPA synthaseUniRule annotation
Gene namesi
Name:dapAUniRule annotation
Ordered Locus Names:Pedsa_0154Imported
OrganismiPedobacter saltans (strain ATCC 51119 / DSM 12145 / JCM 21818 / LMG 10337 / NBRC 100064 / NCIMB 13643)Imported
Taxonomic identifieri762903 [NCBI]
Taxonomic lineageiBacteriaBacteroidetesSphingobacteriiaSphingobacterialesSphingobacteriaceaePedobacter
ProteomesiUP000000310 Componenti: Chromosome

Subcellular locationi

Cytoplasm UniRule annotationSAAS annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 1919 PotentialImportedAdd
BLAST
Chaini20 – 292273 PotentialImportedPRO_5000720397Add
BLAST

Interactioni

Subunit structurei

Homotetramer; dimer of dimers.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliF0SDL3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the DapA family.UniRule annotation

Keywords - Domaini

SignalImported

Phylogenomic databases

KOiK01714.
OMAiHAVYLSK.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00418. DapA.
InterProiIPR013785. Aldolase_TIM.
IPR005263. DapA.
IPR002220. DapA-like.
[Graphical view]
PANTHERiPTHR12128. PTHR12128. 1 hit.
PfamiPF00701. DHDPS. 1 hit.
[Graphical view]
PIRSFiPIRSF001365. DHDPS. 1 hit.
PRINTSiPR00146. DHPICSNTHASE.
TIGRFAMsiTIGR00674. dapA. 1 hit.

Sequencei

Sequence statusi: Complete.

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

F0SDL3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSRFLGTGVA MVTPFQANGS IDFDGLAATI EHLINGKVEY IVVLGTTAES
60 70 80 90 100
ATLSKDEKKQ VFKFVTERVN GRIPLVAGIG GNNTTEVVAE VNQFEMVGYE
110 120 130 140 150
AILSVVPYYN KPTQEGIYQH YKSIAQAAKL PIILYNVPGR TGVSMSAETT
160 170 180 190 200
IRLAREFKNI IATKEASGSF DQFNAIMADK PEGFELISGD DPITLPMVAL
210 220 230 240 250
GAIGVISVVG NAFPVKFSEM VRLSLNGDFK AARPLHSSFL EFTRLCFVES
260 270 280 290
NPCGVKAAMK ELGIIEDYVR LPLTPIGDST RAKVVAEVAK LK
Length:292
Mass (Da):31,574
Last modified:May 3, 2011 - v1
Checksum:i871A8139E06C7B61
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002545 Genomic DNA. Translation: ADY50740.1.
RefSeqiWP_013631243.1. NC_015177.1.
YP_004272562.1. NC_015177.1.

Genome annotation databases

EnsemblBacteriaiADY50740; ADY50740; Pedsa_0154.
KEGGipsn:Pedsa_0154.
PATRICi47000875. VBIPedSal163994_0162.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002545 Genomic DNA. Translation: ADY50740.1.
RefSeqiWP_013631243.1. NC_015177.1.
YP_004272562.1. NC_015177.1.

3D structure databases

ProteinModelPortaliF0SDL3.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADY50740; ADY50740; Pedsa_0154.
KEGGipsn:Pedsa_0154.
PATRICi47000875. VBIPedSal163994_0162.

Phylogenomic databases

KOiK01714.
OMAiHAVYLSK.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00017.
BioCyciPSAL762903:GHB2-155-MONOMER.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00418. DapA.
InterProiIPR013785. Aldolase_TIM.
IPR005263. DapA.
IPR002220. DapA-like.
[Graphical view]
PANTHERiPTHR12128. PTHR12128. 1 hit.
PfamiPF00701. DHDPS. 1 hit.
[Graphical view]
PIRSFiPIRSF001365. DHDPS. 1 hit.
PRINTSiPR00146. DHPICSNTHASE.
TIGRFAMsiTIGR00674. dapA. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 51119 / DSM 12145 / JCM 21818 / LMG 10337 / NBRC 100064 / NCIMB 13643Imported.

Entry informationi

Entry nameiF0SDL3_PEDSD
AccessioniPrimary (citable) accession number: F0SDL3
Entry historyi
Integrated into UniProtKB/TrEMBL: May 3, 2011
Last sequence update: May 3, 2011
Last modified: April 1, 2015
This is version 31 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

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.UniRule annotation

Keywords - Technical termi

Complete proteome, Reference proteomeImported

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.