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O04130 (SERA_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 105. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
D-3-phosphoglycerate dehydrogenase, chloroplastic

Short name=3-PGDH
EC=1.1.1.95
Gene names
Ordered Locus Names:At1g17745
ORF Names:F11A6.8
OrganismArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonscore eudicotyledonsrosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length624 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Catalytic activity

3-phospho-D-glycerate + NAD+ = 3-phosphonooxypyruvate + NADH.

2-hydroxyglutarate + NAD+ = 2-oxoglutarate + NADH.

Pathway

Amino-acid biosynthesis; L-serine biosynthesis; L-serine from 3-phospho-D-glycerate: step 1/3.

Subcellular location

Plastidchloroplast.

Sequence similarities

Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.

Contains 1 ACT domain.

Alternative products

This entry describes 1 isoform produced by alternative splicing. [Select]

Note: A number of isoforms are produced. According to EST sequences.
Isoform 1 (identifier: O04130-1)

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.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Transit peptide1 – 4949Chloroplast Potential
Chain50 – 624575D-3-phosphoglycerate dehydrogenase, chloroplastic
PRO_0000007192

Regions

Domain551 – 62171ACT
Nucleotide binding231 – 2322NAD By similarity
Nucleotide binding310 – 3123NAD By similarity
Nucleotide binding360 – 3634NAD By similarity

Sites

Active site3121 By similarity
Active site3411 By similarity
Active site3601Proton donor By similarity
Binding site2511NAD By similarity
Binding site3361NAD By similarity

Amino acid modifications

Modified residue711Phosphoserine Ref.6 Ref.7 Ref.8

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified January 1, 1998. Version 2.
Checksum: 724370F870DEA310

FASTA62466,454
        10         20         30         40         50         60 
MAFSSSCSSV KAVNSRWTSP SPSPSSRFAV LPAFLHRRYA TSVKLTAISA ALKTVEQTTL 

        70         80         90        100        110        120 
TEDNRFSTVG SDSDEYNPTL PKPRILVTEK LGEAGVNLLR EFGDVDCSYD LSPEDLKKKV 

       130        140        150        160        170        180 
AESDALIVRS GTKVTREVFE AAKGRLKVVG RAGVGIDNVD LQAATEHGCL VVNAPTANTV 

       190        200        210        220        230        240 
AAAEHGIALL ASMARNVAQA DASIKAGKWE RSKYVGVSLV GKTLAVMGFG KVGTEVARRA 

       250        260        270        280        290        300 
KGLGMTVISH DPYAPADRAR ALGVDLVSFD QAISTADFVS LHMPLTPATK KVFNDETFSK 

       310        320        330        340        350        360 
MKKGVRLINV ARGGVIDEDA LVRALDAGIV AQAALDVFCE EPPSKDSRLI QHENVTVTPH 

       370        380        390        400        410        420 
LGASTKEAQE GVAIEIAEAV AGALKGELSA TAVNAPMVAP EVLSELTPYI VLAEKLGRLA 

       430        440        450        460        470        480 
VQLASGGKGV QSIRVVYRSA RDRDDLDTRL LRAMITKGII EPISDSYVNL VNADFIAKQK 

       490        500        510        520        530        540 
GLRISEERMV VDSSPEYPVD SIQVQILNVE SNFAGAVSDA GDISIEGKVK YGVPHLTCVG 

       550        560        570        580        590        600 
SFGVDVSLEG NLILCRQVDQ PGMIGQVGNI LGEQNVNVNF MSVGRTVLRK QAIMAIGVDE 

       610        620 
EPDNKTLERI GGVSAIEEFV FLKL 

« Hide

References

« Hide 'large scale' references
[1]"Regulation of serine biosynthesis in Arabidopsis. Crucial role of plastidic 3-phosphoglycerate dehydrogenase in non-photosynthetic tissues."
Ho C.-L., Noji M., Saito M., Saito K.
J. Biol. Chem. 274:397-402(1999) [PubMed: 9867856] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA].
[2]"Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana."
Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K. expand/collapse author list , Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D., Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W.
Nature 408:816-820(2000) [PubMed: 11130712] [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. expand/collapse author list , 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: 14593172] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
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].
[6]"Site-specific phosphorylation profiling of Arabidopsis proteins by mass spectrometry and peptide chip analysis."
de la Fuente van Bentem S., Anrather D., Dohnal I., Roitinger E., Csaszar E., Joore J., Buijnink J., Carreri A., Forzani C., Lorkovic Z.J., Barta A., Lecourieux D., Verhounig A., Jonak C., Hirt H.
J. Proteome Res. 7:2458-2470(2008) [PubMed: 18433157] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-71, MASS SPECTROMETRY.
Tissue: Root.
[7]"Phosphoproteomic analysis of nuclei-enriched fractions from Arabidopsis thaliana."
Jones A.M.E., MacLean D., Studholme D.J., Serna-Sanz A., Andreasson E., Rathjen J.P., Peck S.C.
J. Proteomics 72:439-451(2009) [PubMed: 19245862] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-71, MASS SPECTROMETRY.
Strain: cv. Columbia.
[8]"Large-scale Arabidopsis phosphoproteome profiling reveals novel chloroplast kinase substrates and phosphorylation networks."
Reiland S., Messerli G., Baerenfaller K., Gerrits B., Endler A., Grossmann J., Gruissem W., Baginsky S.
Plant Physiol. 150:889-903(2009) [PubMed: 19376835] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-71, MASS SPECTROMETRY.
Strain: cv. Columbia.
Tissue: Seedling.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AB003280 mRNA. Translation: BAA20405.1.
AB010407 Genomic DNA. Translation: BAA24440.1.
AC034257 Genomic DNA. Translation: AAF99816.1.
CP002684 Genomic DNA. Translation: AEE29630.1.
AY050399 mRNA. Translation: AAK91415.1.
AY098953 mRNA. Translation: AAM19963.1.
AY086001 mRNA. Translation: AAM63210.1.
IPIIPI00547060.
PIRT52296.
RefSeqNP_564034.1. NM_101636.2.
UniGeneAt.21252.
At.73011.

3D structure databases

ProteinModelPortalO04130.
SMRO04130. Positions 81-622.
ModBaseSearch...

Protein-protein interaction databases

IntActO04130. 1 interaction.
STRINGO04130.

Proteomic databases

PRIDEO04130.
ProMEXO04130.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT1G17745.1; AT1G17745.1; AT1G17745.
GeneID838352.
GenomeReviewsGene locus AT1G17745 in contig CT485782_GR.
KEGGath:AT1G17745.
NMPDRfig|3702.1.peg.2102.

Organism-specific databases

TAIRAt1g17745.

Phylogenomic databases

eggNOGKOG0068.
GeneTreeEPGT00050000011788.
HOGENOMHBG731446.
InParanoidO04130.
OMAAEHTVAM.
PhylomeDBO04130.
ProtClustDBCLSN2685732.

Gene expression databases

GenevestigatorO04130.
GermOnlineAT1G17745. Arabidopsis thaliana.

Family and domain databases

InterProIPR002912. ACT-bd.
IPR006236. D-3-Phosphoglycerate_DH.
IPR006139. D-isomer_2_OHA_DH_cat_dom.
IPR006140. D-isomer_2_OHA_DH_NAD-bd.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
Gene3DG3DSA:3.40.50.720. NAD(P)-bd. 2 hits.
KOK00058.
PANTHERPTHR10996:SF20. D3PG_Deh. 1 hit.
PfamPF00389. 2-Hacid_dh. 1 hit.
PF02826. 2-Hacid_dh_C. 1 hit.
PF01842. ACT. 1 hit.
[Graphical view]
TIGRFAMsTIGR01327. PGDH. 1 hit.
PROSITEPS00065. D_2_HYDROXYACID_DH_1. 1 hit.
PS00670. D_2_HYDROXYACID_DH_2. 1 hit.
PS00671. D_2_HYDROXYACID_DH_3. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameSERA_ARATH
AccessionPrimary (citable) accession number: O04130
Entry history
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: January 1, 1998
Last modified: January 25, 2012
This is version 105 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names

PATHWAY comments

Index of metabolic and biosynthesis pathways

SIMILARITY comments

Index of protein domains and families