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Protein

4-hydroxy-tetrahydrodipicolinate synthase

Gene

dapA

Organism
Geobacter sp. (strain M21)
Status
Reviewed-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 annotation

Catalytic activityi

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

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei43 – 431Part of a proton relay during catalysisUniRule annotation
Binding sitei44 – 441PyruvateUniRule annotation
Sitei106 – 1061Part of a proton relay during catalysisUniRule annotation
Active sitei132 – 1321Proton donor/acceptorUniRule annotation
Active sitei160 – 1601Schiff-base intermediate with substrateUniRule annotation
Binding sitei202 – 2021Pyruvate; 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

Lyase

Keywords - Biological processi

Amino-acid biosynthesis, Diaminopimelate biosynthesis, Lysine biosynthesis

Keywords - Ligandi

Schiff base

Enzyme and pathway databases

BioCyciGSP443144:GHKM-4220-MONOMER.
UniPathwayiUPA00034; UER00017.

Names & Taxonomyi

Protein namesi
Recommended name:
4-hydroxy-tetrahydrodipicolinate synthaseUniRule annotation (EC:4.3.3.7UniRule annotation)
Short name:
HTPA synthaseUniRule annotation
Gene namesi
Name:dapAUniRule annotation
Ordered Locus Names:GM21_4144
OrganismiGeobacter sp. (strain M21)
Taxonomic identifieri443144 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfuromonadalesGeobacteraceaeGeobacter
ProteomesiUP000002380 Componenti: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

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

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 2902904-hydroxy-tetrahydrodipicolinate synthasePRO_1000206032Add
BLAST

Interactioni

Subunit structurei

Homotetramer; dimer of dimers.UniRule annotation

Protein-protein interaction databases

STRINGi443144.GM21_4144.

Structurei

3D structure databases

ProteinModelPortaliC6E9Q9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the DapA family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0329.
HOGENOMiHOG000173604.
KOiK01714.
OMAiIYNIPPR.
OrthoDBiEOG6W7235.

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]
PIRSFiPIRSF001365. DHDPS. 1 hit.
PRINTSiPR00146. DHPICSNTHASE.
TIGRFAMsiTIGR00674. dapA. 1 hit.
PROSITEiPS00665. DHDPS_1. 1 hit.
PS00666. DHDPS_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

C6E9Q9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFQGSIVAIV TPFKNGAVDE EKLRELVEFQ IENGTDAIVP CGTTGESSTL
60 70 80 90 100
SYVEHDRVIQ VVVEQVNKRV PVIAGTGSNS THEAIEITQH AKELGADGAL
110 120 130 140 150
LVTPYYNKPS QEGLFRHYKA VADAVALPQI LYNVPGRTGV NLLPETVARL
160 170 180 190 200
SVHQNIVAIK EATGSLQQAS EVLALCGDKI DVLSGDDFIT LPIMAAGGKG
210 220 230 240 250
VISVTANIMP KEVSSLVDAF NAGNLEEARR LHLYLLKISN AMFIESNPVP
260 270 280 290
VKAAVSLMGK CSSEVRLPLA PLMEANLAKL TAIMKEYKLI
Length:290
Mass (Da):31,103
Last modified:August 31, 2009 - v1
Checksum:iDAE5F200048602D7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001661 Genomic DNA. Translation: ACT20159.1.
RefSeqiWP_015839326.1. NC_012918.1.
YP_003023917.1. NC_012918.1.

Genome annotation databases

EnsemblBacteriaiACT20159; ACT20159; GM21_4144.
GeneIDi8139518.
KEGGigem:GM21_4144.
PATRICi22022718. VBIGeoSp56140_4049.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001661 Genomic DNA. Translation: ACT20159.1.
RefSeqiWP_015839326.1. NC_012918.1.
YP_003023917.1. NC_012918.1.

3D structure databases

ProteinModelPortaliC6E9Q9.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi443144.GM21_4144.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACT20159; ACT20159; GM21_4144.
GeneIDi8139518.
KEGGigem:GM21_4144.
PATRICi22022718. VBIGeoSp56140_4049.

Phylogenomic databases

eggNOGiCOG0329.
HOGENOMiHOG000173604.
KOiK01714.
OMAiIYNIPPR.
OrthoDBiEOG6W7235.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00017.
BioCyciGSP443144:GHKM-4220-MONOMER.

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]
PIRSFiPIRSF001365. DHDPS. 1 hit.
PRINTSiPR00146. DHPICSNTHASE.
TIGRFAMsiTIGR00674. dapA. 1 hit.
PROSITEiPS00665. DHDPS_1. 1 hit.
PS00666. DHDPS_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: M21.

Entry informationi

Entry nameiDAPA_GEOSM
AccessioniPrimary (citable) accession number: C6E9Q9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 21, 2009
Last sequence update: August 31, 2009
Last modified: March 31, 2015
This is version 43 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic 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

Complete proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. 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.