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Q9LIA8 (UGDH2_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 111. 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·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
UDP-glucose 6-dehydrogenase 2

Short name=UDP-Glc dehydrogenase 2
Short name=UDP-GlcDH 2
Short name=UDPGDH 2
EC=1.1.1.22
Alternative name(s):
At-UGD2
Gene names
Name:UGD2
Synonyms:UGD
Ordered Locus Names:At3g29360
ORF Names:MUO10.18, MUO10_6
OrganismArabidopsis thaliana (Mouse-ear cress) [Reference proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length480 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Involved in the biosynthesis of UDP-glucuronic acid (UDP-GlcA), providing nucleotide sugars for cell-wall polymers. Required for the formation of cell wall ingrowths on the outer cell walls of nematode-induced syncytia. Ref.8 Ref.12 Ref.13

Catalytic activity

UDP-glucose + 2 NAD+ + H2O = UDP-glucuronate + 2 NADH.

Enzyme regulation

Inhibited by UDP-xylose. Ref.11

Pathway

Nucleotide-sugar biosynthesis; UDP-alpha-D-glucuronate biosynthesis; UDP-alpha-D-glucuronate from UDP-alpha-D-glucose: step 1/1.

Tissue specificity

Preferentially expressed in roots. Ref.8

Developmental stage

Restricted expression to the primary root in young seedlings. Later detected in hypocotyl, leaves but with the strongest expression in the root system. Ref.8 Ref.11

Disruption phenotype

No visible phenotype. Displays smaller nematode-induced syncytia. The UGD2 UGD3 double mutant displays a strong dwarf phenotype and often develops seedlings with severe root defects; cell walls have an altered sugar composition (Ref.12). Ugd2 and ugd3 double mutants display abnormal nematode-induced syncytia (Ref.13). Ref.12 Ref.13

Sequence similarities

Belongs to the UDP-glucose/GDP-mannose dehydrogenase family.

Biophysicochemical properties

Kinetic parameters:

KM=43 µM for NAD+ Ref.11

KM=123 µM for UDP-glucose

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 480480UDP-glucose 6-dehydrogenase 2
PRO_0000312027

Regions

Nucleotide binding8 – 136NAD By similarity
Nucleotide binding86 – 905NAD By similarity
Nucleotide binding127 – 1282NAD By similarity
Nucleotide binding272 – 2754NAD By similarity
Region157 – 1615Substrate binding By similarity
Region216 – 2238Substrate binding By similarity
Region256 – 26914Substrate binding By similarity
Region334 – 3352Substrate binding By similarity

Sites

Active site2721Nucleophile By similarity
Binding site331NAD By similarity
Binding site381NAD By similarity
Binding site1611NAD By similarity
Binding site3421NAD By similarity
Binding site4471Substrate By similarity

Amino acid modifications

Modified residue3501S-nitrosocysteine By similarity

Experimental info

Sequence conflict121V → I in AAL11570. Ref.3
Sequence conflict1781G → R in AAL11570. Ref.3
Sequence conflict1931N → D in AAM67208. Ref.7

Sequences

Sequence LengthMass (Da)Tools
Q9LIA8 [UniParc].

Last modified October 1, 2000. Version 1.
Checksum: D6281D20442CBADF

FASTA48053,173
        10         20         30         40         50         60 
MVKICCIGAG YVGGPTMAVI ALKCPDVEVA VVDISVPRIN AWNSDTLPIY EPGLDDVVKQ 

        70         80         90        100        110        120 
CRGKNLFFST DVEKHVREAD IVFVSVNTPT KTRGLGAGKA ADLTYWESAA RMIADVSVSD 

       130        140        150        160        170        180 
KIVVEKSTVP VKTAEAIEKI LTHNSKGIKF QILSNPEFLA EGTAIKDLFN PDRVLIGGRE 

       190        200        210        220        230        240 
TPEGFKAVQT LKNVYAHWVP EGQIITTNLW SAELSKLAAN AFLAQRISSV NAMSALCEAT 

       250        260        270        280        290        300 
GADVTQVSYA VGTDSRIGPK FLNSSVGFGG SCFQKDILNL VYICECNGLP EVAEYWKQVI 

       310        320        330        340        350        360 
KINDYQKSRF VNRVVSSMFN SVSNKKIAVL GFAFKKDTGD TRETPAIDVC KGLLEDKARL 

       370        380        390        400        410        420 
SIYDPQVTED QIQRDLSMNK FDWDHPLHLQ PMSPTTVKQV TVTWDAYEAT KDAHGICIMT 

       430        440        450        460        470        480 
EWDEFKNLDF QKIFDNMQKP AFVFDGRNIM NLQKLREIGF IVYSIGKPLD DWLKDMPAVA 

« Hide

References

« Hide 'large scale' references
[1]"Structural analysis of Arabidopsis thaliana chromosome 3. II. Sequence features of the 4,251,695 bp regions covered by 90 P1, TAC and BAC clones."
Kaneko T., Katoh T., Sato S., Nakamura Y., Asamizu E., Tabata S.
DNA Res. 7:217-221(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Columbia.
[2]The Arabidopsis Information Resource (TAIR)
Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
Cited for: GENOME REANNOTATION.
Strain: cv. Columbia.
[3]"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] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Strain: cv. Columbia.
[4]"Arabidopsis ORF clones."
Cheuk R.F., Chen H., Kim C.J., Shinn P., Ecker J.R.
Submitted (MAR-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Strain: cv. Columbia.
[5]"Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs."
Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A., Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y., Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K. expand/collapse author list , Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y., Shinozaki K.
Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Strain: cv. Columbia.
[6]"Arabidopsis ORF Clone."
Bautista V.R., Kim C.J., Chen H., Quinitio C., Ecker J.R.
Submitted (OCT-2006) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Strain: cv. Columbia.
[7]"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].
[8]"Matrix polysaccharide precursors in Arabidopsis cell walls are synthesized by alternate pathways with organ-specific expression patterns."
Seitz B., Klos C., Wurm M., Tenhaken R.
Plant J. 21:537-546(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
[9]"Molecular genetics of nucleotide sugar interconversion pathways in plants."
Reiter W.-D., Vanzin G.F.
Plant Mol. Biol. 47:95-113(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: GENE FAMILY.
[10]"Nucleotide sugar interconversions and cell wall biosynthesis: how to bring the inside to the outside."
Seifert G.J.
Curr. Opin. Plant Biol. 7:277-284(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: REVIEW.
[11]"Genome-wide analysis of the UDP-glucose dehydrogenase gene family in Arabidopsis, a key enzyme for matrix polysaccharides in cell walls."
Klinghammer M., Tenhaken R.
J. Exp. Bot. 58:3609-3621(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: GENE FAMILY, NOMENCLATURE, DEVELOPMENTAL STAGE, BIOPHYSICOCHEMICAL PROPERTIES, ENZYME REGULATION.
[12]"Down-regulation of UDP-glucuronic acid biosynthesis leads to swollen plant cell walls and severe developmental defects associated with changes in pectic polysaccharides."
Reboul R., Geserick C., Pabst M., Frey B., Wittmann D., Luetz-Meindl U., Leonard R., Tenhaken R.
J. Biol. Chem. 286:39982-39992(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: DISRUPTION PHENOTYPE, FUNCTION.
[13]"Cell wall ingrowths in nematode induced syncytia require UGD2 and UGD3."
Siddique S., Sobczak M., Tenhaken R., Grundler F.M., Bohlmann H.
PLoS ONE 7:E41515-E41515(2012) [PubMed] [Europe PMC] [Abstract]
Cited for: DISRUPTION PHENOTYPE, FUNCTION.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AP001309 Genomic DNA. Translation: BAB02581.1.
CP002686 Genomic DNA. Translation: AEE77573.1.
CP002686 Genomic DNA. Translation: AEE77574.1.
AF424576 mRNA. Translation: AAL11570.1.
BT021126 mRNA. Translation: AAX22261.1.
AK226539 mRNA. Translation: BAE98678.1.
BT029164 mRNA. Translation: ABJ17099.1.
AY088902 mRNA. Translation: AAM67208.1.
RefSeqNP_001030792.1. NM_001035715.1.
NP_189582.1. NM_113861.3.
UniGeneAt.22975.

3D structure databases

ProteinModelPortalQ9LIA8.
SMRQ9LIA8. Positions 3-467.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid7923. 1 interaction.
IntActQ9LIA8. 1 interaction.

Proteomic databases

PaxDbQ9LIA8.
PRIDEQ9LIA8.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT3G29360.1; AT3G29360.1; AT3G29360.
AT3G29360.2; AT3G29360.2; AT3G29360.
GeneID822594.
KEGGath:AT3G29360.

Organism-specific databases

TAIRAT3G29360.

Phylogenomic databases

eggNOGCOG1004.
HOGENOMHOG000153773.
InParanoidQ9LIA8.
KOK00012.
OMAESHAIAI.
PhylomeDBQ9LIA8.
ProtClustDBPLN02353.

Enzyme and pathway databases

BioCycARA:AT3G29360-MONOMER.
ARA:GQT-2548-MONOMER.
UniPathwayUPA00038; UER00491.

Gene expression databases

GenevestigatorQ9LIA8.

Family and domain databases

Gene3D3.40.50.720. 2 hits.
InterProIPR008927. 6-PGluconate_DH_C-like.
IPR016040. NAD(P)-bd_dom.
IPR017476. UDP-Glc/GDP-Man.
IPR014027. UDP-Glc/GDP-Man_DH_C.
IPR014026. UDP-Glc/GDP-Man_DH_dimer.
IPR001732. UDP-Glc/GDP-Man_DH_N.
IPR028356. UDPglc_DH_euk.
[Graphical view]
PANTHERPTHR11374. PTHR11374. 1 hit.
PTHR11374:SF3. PTHR11374:SF3. 1 hit.
PfamPF00984. UDPG_MGDP_dh. 1 hit.
PF03720. UDPG_MGDP_dh_C. 1 hit.
PF03721. UDPG_MGDP_dh_N. 1 hit.
[Graphical view]
PIRSFPIRSF500133. UDPglc_DH_euk. 1 hit.
PIRSF000124. UDPglc_GDPman_dh. 1 hit.
SMARTSM00984. UDPG_MGDP_dh_C. 1 hit.
[Graphical view]
SUPFAMSSF48179. SSF48179. 1 hit.
SSF52413. SSF52413. 1 hit.
TIGRFAMsTIGR03026. NDP-sugDHase. 1 hit.
ProtoNetSearch...

Entry information

Entry nameUGDH2_ARATH
AccessionPrimary (citable) accession number: Q9LIA8
Secondary accession number(s): Q8L8N1, Q944R8
Entry history
Integrated into UniProtKB/Swiss-Prot: December 4, 2007
Last sequence update: October 1, 2000
Last modified: April 16, 2014
This is version 111 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PATHWAY comments

Index of metabolic and biosynthesis pathways

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names