UDP-glucose 6-dehydrogenase 4 - Arabidopsis thaliana (Mouse-ear cress)

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Q9FM01 (UGDH4_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 91. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
UDP-glucose 6-dehydrogenase 4
Short name=UDP-Glc dehydrogenase 4
Short name=UDP-GlcDH 4
Short name=UDPGDH 4
EC=1.1.1.22

Alternative name(s):
At-UGD4

Gene names

Name:	UGD4
Synonyms:	UGD1
Ordered Locus Names:	At5g39320
ORF Names:	K3K3.170

Organism

Arabidopsis thaliana (Mouse-ear cress) [Reference proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length	480 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Involved in the biosynthesis of UDP-glucuronic acid (UDP-GlcA), providing nucleotide sugars for cell-wall polymers.
Catalytic activity	UDP-glucose + 2 NAD⁺ + H₂O = UDP-glucuronate + 2 NADH.
Enzyme regulation	Inhibited by UDP-xylose. Ref.7
Pathway	Nucleotide-sugar biosynthesis; UDP-alpha-D-glucuronate biosynthesis; UDP-alpha-D-glucuronate from UDP-alpha-D-glucose: step 1/1.
Developmental stage	Restricted expression to the primary root in young seedlings. Later detected in hypocotyl, leaves and flowers. Ref.7
Induction	Specifically down-regulated by H.schachtii (cyst nematodes) in nematode-induced syncytia. Ref.7 Ref.8
Disruption phenotype	No visible phenotype. Ref.8
Sequence similarities	Belongs to the UDP-glucose/GDP-mannose dehydrogenase family.
Caution	Was originally assigned as UGD1 (Ref.5).
Biophysicochemical properties	Kinetic parameters: K_M=44 µM for NAD⁺ Ref.7 K_M=171 µM for UDP-glucose

Ontologies

Keywords
Ligand	NAD
Molecular function	Oxidoreductase
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	UDP-glucuronate biosynthetic process Inferred from electronic annotation. Source: UniProtKB-UniPathway
Cellular_component	apoplast Inferred from direct assay PubMed 21798377. Source: TAIR cytosol Inferred from direct assay PubMed 18433157. Source: TAIR nucleus Inferred from direct assay PubMed 18433157. Source: TAIR
Molecular_function	NAD binding Inferred from electronic annotation. Source: InterPro UDP-glucose 6-dehydrogenase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 480

480

UDP-glucose 6-dehydrogenase 4

PRO_0000312028

Regions

Nucleotide binding

8 – 13

NAD By similarity

Nucleotide binding

86 – 90

NAD By similarity

Nucleotide binding

127 – 128

NAD By similarity

Nucleotide binding

272 – 275

NAD By similarity

Region

157 – 161

Substrate binding By similarity

Region

216 – 223

Substrate binding By similarity

Region

256 – 269

Substrate binding By similarity

Region

334 – 335

Substrate binding By similarity

Sites

Active site

272

Nucleophile By similarity

Binding site

NAD By similarity

Binding site

NAD By similarity

Binding site

161

NAD By similarity

Binding site

342

NAD By similarity

Binding site

447

Substrate By similarity

Amino acid modifications

Modified residue

393

Phosphoserine By similarity

Experimental info

Sequence conflict

Missing in AAP21188. Ref.4

Sequences

Sequence

Length

Mass (Da)

Tools

Q9FM01 [UniParc].

Last modified March 1, 2001. Version 1.
Checksum: 3FC4FEB2CB647BCB
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FASTA

480

53,097

        10         20         30         40         50         60 
MVKICCIGAG YVGGPTMAVI ALKCPDIEVA VVDISVPRIN AWNSDQLPIY EPGLDDIVKQ 

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

       130        140        150        160        170        180 
KIVVEKSTVP VKTAEAIEKI LMHNSKGIKF QILSNPEFLA EGTAIADLFN PDRVLIGGRE 

       190        200        210        220        230        240 
TPEGFKAVQT LKEVYANWVP EGQIITTNLW SAELSKLAAN AFLAQRISSV NAMSALCEST 

       250        260        270        280        290        300 
GADVTQVSYA VGTDSRIGSK FLNASVGFGG SCFQKDILNL VYICQCNGLP EVAEYWKQVI 

       310        320        330        340        350        360 
KINDYQKNRF VNRIVSSMFN TVSNKKVAIL GFAFKKDTGD TRETPAIDVC KGLLGDKAQI 

       370        380        390        400        410        420 
SIYDPQVTEE QIQRDLSMKK FDWDHPLHLQ PMSPTTVKQV SVTWDAYEAT KDAHAVCVLT 

       430        440        450        460        470        480 
EWDEFKSLDY QKIFDNMQKP AFIFDGRNIM NVNKLREIGF IVYSIGKPLD PWLKDMPAFV

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Structural analysis of Arabidopsis thaliana chromosome 5. IV. Sequence features of the regions of 1,456,315 bp covered by nineteen physically assigned P1 and TAC clones." Sato S., Kaneko T., Kotani H., Nakamura Y., Asamizu E., Miyajima N., Tabata S. DNA Res. 5:41-54(1998) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[2]	"Structural analysis of Arabidopsis thaliana chromosome 5. V. Sequence features of the regions of 1,381,565 bp covered by twenty one physically assigned P1 and TAC clones." Kaneko T., Kotani H., Nakamura Y., Sato S., Asamizu E., Miyajima N., Tabata S. DNA Res. 5:131-145(1998) [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. Ecker J.R. Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: cv. Columbia.
[5]	"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.
[6]	"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.
[7]	"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.
[8]	"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, INDUCTION.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AB009054, AB010694 Genomic DNA. Translation: BAB11006.1. CP002688 Genomic DNA. Translation: AED94419.1. BT006380 mRNA. Translation: AAP21188.1.
IPI	IPI00539067.
RefSeq	NP_198748.1. NM_123294.3.
UniGene	At.20102. At.71506.
3D structure databases
ProteinModelPortal	Q9FM01.
SMR	Q9FM01. Positions 3-467.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q9FM01. 1 interaction.
Proteomic databases
PaxDb	Q9FM01.
PRIDE	Q9FM01.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	AT5G39320.1; AT5G39320.1; AT5G39320.
GeneID	833928.
KEGG	ath:AT5G39320.
Organism-specific databases
TAIR	At5g39320.
Phylogenomic databases
eggNOG	COG1004.
HOGENOM	HOG000153773.
InParanoid	Q9FM01.
KO	K00012.
OMA	EAINERQ.
PhylomeDB	Q9FM01.
ProtClustDB	PLN02353.
Enzyme and pathway databases
UniPathway	UPA00038; UER00491.
Gene expression databases
Genevestigator	Q9FM01.
Family and domain databases
Gene3D	3.40.50.720. 2 hits.
InterPro	IPR008927. 6-PGluconate_DH_C-like. IPR016040. NAD(P)-bd_dom. IPR017476. Nucleotide_sugar_DH. IPR014027. UDP-Glc/GDP-Man_DH_C. IPR014026. UDP-Glc/GDP-Man_DH_dimer. IPR001732. UDP-Glc/GDP-Man_DH_N. [Graphical view]
Pfam	PF00984. UDPG_MGDP_dh. 1 hit. PF03720. UDPG_MGDP_dh_C. 1 hit. PF03721. UDPG_MGDP_dh_N. 1 hit. [Graphical view]
PIRSF	PIRSF000124. UDPglc_GDPman_dh. 1 hit.
SMART	SM00984. UDPG_MGDP_dh_C. 1 hit. [Graphical view]
SUPFAM	SSF48179. 6DGDH_C_like. 1 hit. SSF52413. UDP-Glc/GDP-Man_DH_C. 1 hit.
TIGRFAMs	TIGR03026. NDP-sugDHase. 1 hit.
ProtoNet	Search...

Entry information

Entry name

UGDH4_ARATH

Accession

Primary (citable) accession number: Q9FM01
Secondary accession number(s): Q84MD5

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 4, 2007
Last sequence update:	March 1, 2001
Last modified:	May 1, 2013
This is version 91 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant 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

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Sites

Amino acid modifications

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Entry information

Relevant documents