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Protein

Probable GDP-L-fucose synthase 1

Gene

Os06g0652400

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Catalyzes the two-step NADP-dependent conversion of GDP-4-dehydro-6-deoxy-D-mannose to GDP-fucose, involving an epimerase and a reductase reaction.By similarity

Catalytic activityi

GDP-beta-L-fucose + NADP+ = GDP-4-dehydro-6-deoxy-alpha-D-mannose + NADPH.

Pathwayi: GDP-L-fucose biosynthesis via de novo pathway

This protein is involved in step 2 of the subpathway that synthesizes GDP-L-fucose from GDP-alpha-D-mannose.
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. no protein annotated in this organism
  2. Putative GDP-L-fucose synthase 2 (Os06g0652300), Probable GDP-L-fucose synthase 1 (Os06g0652400)
This subpathway is part of the pathway GDP-L-fucose biosynthesis via de novo pathway, which is itself part of Nucleotide-sugar biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes GDP-L-fucose from GDP-alpha-D-mannose, the pathway GDP-L-fucose biosynthesis via de novo pathway and in Nucleotide-sugar biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei123 – 1231Important for catalytic activityBy similarity
Sitei125 – 1251Important for catalytic activityBy similarity
Active sitei152 – 1521Proton donor/acceptorBy similarity
Binding sitei156 – 1561NADPBy similarity
Sitei156 – 1561Lowers pKa of active site TyrBy similarity
Binding sitei195 – 1951NADPBy similarity
Binding sitei203 – 2031SubstrateBy similarity
Binding sitei218 – 2181SubstrateBy similarity
Binding sitei225 – 2251SubstrateBy similarity
Binding sitei285 – 2851SubstrateBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi25 – 317NADPBy similarity
Nucleotide bindingi179 – 1824NADPBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Oxidoreductase

Keywords - Ligandi

NADP

Enzyme and pathway databases

ReactomeiR-OSA-6787639. GDP-fucose biosynthesis.
UniPathwayiUPA00128; UER00191.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable GDP-L-fucose synthase 1 (EC:1.1.1.271)
Alternative name(s):
GDP-4-keto-6-deoxy-D-mannose-3,5-epimerase-4-reductase 1
Gene namesi
Ordered Locus Names:Os06g0652400, LOC_Os06g44270
ORF Names:OsJ_22191Imported, OSJNBa0085J13.7
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryza
Proteomesi
  • UP000059680 Componenti: Chromosome 6, cultivar: Nipponbare

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 328328Probable GDP-L-fucose synthase 1PRO_0000174356Add
BLAST

Proteomic databases

PaxDbiQ67WR2.
PRIDEiQ67WR2.

Expressioni

Gene expression databases

ExpressionAtlasiQ67WR2. baseline and differential.
GenevisibleiQ67WR2. OS.

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

STRINGi39947.LOC_Os06g44270.1.

Structurei

3D structure databases

ProteinModelPortaliQ67WR2.
SMRiQ67WR2. Positions 19-323.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG1431. Eukaryota.
COG0451. LUCA.
HOGENOMiHOG000168011.
InParanoidiQ67WR2.
KOiK02377.
OMAiRMHTAKL.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
HAMAPiMF_00956. GDP_fucose_synth.
InterProiIPR001509. Epimerase_deHydtase_N.
IPR028614. GDP_fucose/colitose_synth.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PfamiPF01370. Epimerase. 1 hit.
[Graphical view]
SUPFAMiSSF51735. SSF51735. 1 hit.

Sequencei

Sequence statusi: Complete.

Q67WR2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGTVTTADPH ASFLADKGGK VFVAGHRGLV GSAILRHLVS LGFTNVVVRT
60 70 80 90 100
HAELDLTRQS DVEAFFAAEL PRYVVLAAAK VGGIHANSTF PADFIAANLQ
110 120 130 140 150
IQTNVVDAAL KCGSVRKLLF LGSSCIYPKF APQPIPENSL LSGPLEPTNE
160 170 180 190 200
WYAVAKIAGI KMCQAYRIQH GFDAISAMPT NLYGPQDNFH PENSHVLPAL
210 220 230 240 250
IRRFHEAKAS NAAEVVVWGT GSPLREFLHV DDLADAVIFL MDHYSGLEHV
260 270 280 290 300
NVGSGSEVTI KELAELVKEV VGFQGKLVWD SSKPDGTPRK LMDSSKIQEM
310 320
GWKPKVPLKE GLVETYKWYV ENVISAKK
Length:328
Mass (Da):35,715
Last modified:October 11, 2004 - v1
Checksum:i87D1D0335D807119
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti28 – 281G → S in AK071960 (PubMed:12869764).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP003565 Genomic DNA. Translation: BAD37407.1.
AP008212 Genomic DNA. Translation: BAF20149.1.
AP014962 Genomic DNA. Translation: BAS98916.1.
CM000143 Genomic DNA. Translation: EAZ37847.1.
AK071960 mRNA. No translation available.
AK103529 mRNA. Translation: BAG96133.1.
AK120997 mRNA. Translation: BAH00264.1.
RefSeqiXP_015644414.1. XM_015788928.1.
UniGeneiOs.53321.

Genome annotation databases

EnsemblPlantsiOS06T0652400-01; OS06T0652400-01; OS06G0652400.
OS06T0652400-02; OS06T0652400-02; OS06G0652400.
GeneIDi4341699.
GrameneiOS06T0652400-01; OS06T0652400-01; OS06G0652400.
OS06T0652400-02; OS06T0652400-02; OS06G0652400.
KEGGiosa:4341699.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP003565 Genomic DNA. Translation: BAD37407.1.
AP008212 Genomic DNA. Translation: BAF20149.1.
AP014962 Genomic DNA. Translation: BAS98916.1.
CM000143 Genomic DNA. Translation: EAZ37847.1.
AK071960 mRNA. No translation available.
AK103529 mRNA. Translation: BAG96133.1.
AK120997 mRNA. Translation: BAH00264.1.
RefSeqiXP_015644414.1. XM_015788928.1.
UniGeneiOs.53321.

3D structure databases

ProteinModelPortaliQ67WR2.
SMRiQ67WR2. Positions 19-323.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi39947.LOC_Os06g44270.1.

Proteomic databases

PaxDbiQ67WR2.
PRIDEiQ67WR2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiOS06T0652400-01; OS06T0652400-01; OS06G0652400.
OS06T0652400-02; OS06T0652400-02; OS06G0652400.
GeneIDi4341699.
GrameneiOS06T0652400-01; OS06T0652400-01; OS06G0652400.
OS06T0652400-02; OS06T0652400-02; OS06G0652400.
KEGGiosa:4341699.

Phylogenomic databases

eggNOGiKOG1431. Eukaryota.
COG0451. LUCA.
HOGENOMiHOG000168011.
InParanoidiQ67WR2.
KOiK02377.
OMAiRMHTAKL.

Enzyme and pathway databases

UniPathwayiUPA00128; UER00191.
ReactomeiR-OSA-6787639. GDP-fucose biosynthesis.

Gene expression databases

ExpressionAtlasiQ67WR2. baseline and differential.
GenevisibleiQ67WR2. OS.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
HAMAPiMF_00956. GDP_fucose_synth.
InterProiIPR001509. Epimerase_deHydtase_N.
IPR028614. GDP_fucose/colitose_synth.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PfamiPF01370. Epimerase. 1 hit.
[Graphical view]
SUPFAMiSSF51735. SSF51735. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  2. "The rice annotation project database (RAP-DB): 2008 update."
    The rice annotation project (RAP)
    Nucleic Acids Res. 36:D1028-D1033(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENOME REANNOTATION.
    Strain: cv. Nipponbare.
  3. Cited for: GENOME REANNOTATION.
    Strain: cv. Nipponbare.
  4. "The genomes of Oryza sativa: a history of duplications."
    Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S., Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.
    , Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J., Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X., Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y., Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L., Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H., Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z., Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L., Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F., Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q., Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J., Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M., McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.
    PLoS Biol. 3:266-281(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  5. "Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice."
    The rice full-length cDNA consortium
    Science 301:376-379(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Nipponbare.

Entry informationi

Entry nameiFCL1_ORYSJ
AccessioniPrimary (citable) accession number: Q67WR2
Secondary accession number(s): Q0DAH4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 22, 2005
Last sequence update: October 11, 2004
Last modified: May 11, 2016
This is version 76 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Multifunctional enzyme, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
  3. SIMILARITY comments
    Index of protein domains and families

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 one 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.