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O80434

- LAC4_ARATH

UniProt

O80434 - LAC4_ARATH

Protein

Laccase-4

Gene

IRX12

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 97 (01 Oct 2014)
      Sequence version 2 (01 Jun 2002)
      Previous versions | rss
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    Functioni

    Lignin degradation and detoxification of lignin-derived products By similarity. Required for secondary xylem cell wall lignification.By similarity1 Publication

    Catalytic activityi

    4 benzenediol + O2 = 4 benzosemiquinone + 2 H2O.

    Cofactori

    Binds 4 copper ions per monomer.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi82 – 821Copper 1; type 2By similarity
    Metal bindingi84 – 841Copper 2; type 3By similarity
    Metal bindingi127 – 1271Copper 2; type 3By similarity
    Metal bindingi129 – 1291Copper 3; type 3By similarity
    Metal bindingi459 – 4591Copper 4; type 1By similarity
    Metal bindingi462 – 4621Copper 1; type 2By similarity
    Metal bindingi464 – 4641Copper 3; type 3By similarity
    Metal bindingi521 – 5211Copper 3; type 3By similarity
    Metal bindingi522 – 5221Copper 4; type 1By similarity
    Metal bindingi523 – 5231Copper 2; type 3By similarity
    Metal bindingi527 – 5271Copper 4; type 1By similarity

    GO - Molecular functioni

    1. copper ion binding Source: InterPro
    2. hydroquinone:oxygen oxidoreductase activity Source: UniProtKB-EC
    3. oxidoreductase activity Source: TAIR

    GO - Biological processi

    1. lignin biosynthetic process Source: TAIR
    2. lignin catabolic process Source: UniProtKB-KW
    3. secondary cell wall biogenesis Source: TAIR

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Lignin degradation

    Keywords - Ligandi

    Copper, Metal-binding

    Enzyme and pathway databases

    BioCyciARA:AT2G38080-MONOMER.
    MetaCyc:AT2G38080-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Laccase-4 (EC:1.10.3.2)
    Alternative name(s):
    Benzenediol:oxygen oxidoreductase 4
    Diphenol oxidase 4
    Protein IRREGULAR XYLEM 12
    Urishiol oxidase 4
    Gene namesi
    Name:IRX12
    Synonyms:LAC4
    Ordered Locus Names:At2g38080
    ORF Names:F16M14.1
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    ProteomesiUP000006548: Chromosome 2

    Organism-specific databases

    TAIRiAT2G38080.

    Subcellular locationi

    GO - Cellular componenti

    1. apoplast Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Apoplast, Secreted

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 2424Sequence AnalysisAdd
    BLAST
    Chaini25 – 558534Laccase-4PRO_0000283632Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi37 – 371N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi78 – 781N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi114 – 1141N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi187 – 1871N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi296 – 2961N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi323 – 3231N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi330 – 3301N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi373 – 3731N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi383 – 3831N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi400 – 4001N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi418 – 4181N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi441 – 4411N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi479 – 4791N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi545 – 5451N-linked (GlcNAc...)Sequence Analysis

    Keywords - PTMi

    Glycoprotein

    Proteomic databases

    PaxDbiO80434.
    PRIDEiO80434.

    Expressioni

    Tissue specificityi

    Ubiquitous, with higher levels in the inflorescence stem.2 Publications

    Developmental stagei

    Transcript levels diminished during rosette leaves development.1 Publication

    Gene expression databases

    GenevestigatoriO80434.

    Interactioni

    Protein-protein interaction databases

    STRINGi3702.AT2G38080.1-P.

    Structurei

    3D structure databases

    ProteinModelPortaliO80434.
    SMRiO80434. Positions 24-537.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini32 – 148117Plastocyanin-like 1Add
    BLAST
    Domaini158 – 308151Plastocyanin-like 2Add
    BLAST
    Domaini408 – 542135Plastocyanin-like 3Add
    BLAST

    Sequence similaritiesi

    Belongs to the multicopper oxidase family.Curated
    Contains 3 plastocyanin-like domains.Curated

    Keywords - Domaini

    Repeat, Signal

    Phylogenomic databases

    eggNOGiCOG2132.
    HOGENOMiHOG000241916.
    InParanoidiO80434.
    OMAiVAGHIFT.
    PhylomeDBiO80434.

    Family and domain databases

    Gene3Di2.60.40.420. 3 hits.
    InterProiIPR001117. Cu-oxidase.
    IPR011706. Cu-oxidase_2.
    IPR011707. Cu-oxidase_3.
    IPR002355. Cu_oxidase_Cu_BS.
    IPR008972. Cupredoxin.
    IPR017761. Laccase.
    [Graphical view]
    PfamiPF00394. Cu-oxidase. 1 hit.
    PF07731. Cu-oxidase_2. 1 hit.
    PF07732. Cu-oxidase_3. 1 hit.
    [Graphical view]
    SUPFAMiSSF49503. SSF49503. 3 hits.
    TIGRFAMsiTIGR03389. laccase. 1 hit.
    PROSITEiPS00079. MULTICOPPER_OXIDASE1. 1 hit.
    PS00080. MULTICOPPER_OXIDASE2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    O80434-1 [UniParc]FASTAAdd to Basket

    « Hide

    MGSHMVWFLF LVSFFSVFPA PSESMVRHYK FNVVMKNVTR LCSSKPTVTV    50
    NGRYPGPTIY AREDDTLLIK VVNHVKYNVS IHWHGVRQVR TGWADGPAYI 100
    TQCPIQPGQV YTYNYTLTGQ RGTLWWHAHI LWLRATVYGA LVILPKRGVP 150
    YPFPKPDNEK VIVLGEWWKS DTENIINEAL KSGLAPNVSD SHMINGHPGP 200
    VRNCPSQGYK LSVENGKTYL LRLVNAALNE ELFFKVAGHI FTVVEVDAVY 250
    VKPFKTDTVL IAPGQTTNVL LTASKSAGKY LVTASPFMDA PIAVDNVTAT 300
    ATVHYSGTLS SSPTILTLPP PQNATSIANN FTNSLRSLNS KKYPALVPTT 350
    IDHHLFFTVG LGLNACPTCK AGNGSRVVAS INNVTFIMPK TALLPAHYFN 400
    TSGVFTTDFP KNPPHVFNYS GGSVTNMATE TGTRLYKLPY NATVQLVLQD 450
    TGVIAPENHP VHLHGFNFFE VGRGLGNFNS TKDPKNFNLV DPVERNTIGV 500
    PSGGWVVIRF RADNPGVWFM HCHLEVHTTW GLKMAFLVEN GKGPNQSILP 550
    PPKDLPKC 558
    Length:558
    Mass (Da):61,527
    Last modified:June 1, 2002 - v2
    Checksum:iC3BA6184D88E87DC
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AC003028 Genomic DNA. Translation: AAC27158.2.
    CP002685 Genomic DNA. Translation: AEC09487.1.
    AY052669 mRNA. Translation: AAK96573.1.
    AY063730 mRNA. Translation: AAL36080.1.
    AY065187 mRNA. Translation: AAL38363.1.
    AY114636 mRNA. Translation: AAM47955.1.
    PIRiT01240.
    RefSeqiNP_565881.1. NM_129364.3.
    UniGeneiAt.12454.

    Genome annotation databases

    EnsemblPlantsiAT2G38080.1; AT2G38080.1; AT2G38080.
    GeneIDi818386.
    KEGGiath:AT2G38080.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AC003028 Genomic DNA. Translation: AAC27158.2 .
    CP002685 Genomic DNA. Translation: AEC09487.1 .
    AY052669 mRNA. Translation: AAK96573.1 .
    AY063730 mRNA. Translation: AAL36080.1 .
    AY065187 mRNA. Translation: AAL38363.1 .
    AY114636 mRNA. Translation: AAM47955.1 .
    PIRi T01240.
    RefSeqi NP_565881.1. NM_129364.3.
    UniGenei At.12454.

    3D structure databases

    ProteinModelPortali O80434.
    SMRi O80434. Positions 24-537.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 3702.AT2G38080.1-P.

    Proteomic databases

    PaxDbi O80434.
    PRIDEi O80434.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi AT2G38080.1 ; AT2G38080.1 ; AT2G38080 .
    GeneIDi 818386.
    KEGGi ath:AT2G38080.

    Organism-specific databases

    TAIRi AT2G38080.

    Phylogenomic databases

    eggNOGi COG2132.
    HOGENOMi HOG000241916.
    InParanoidi O80434.
    OMAi VAGHIFT.
    PhylomeDBi O80434.

    Enzyme and pathway databases

    BioCyci ARA:AT2G38080-MONOMER.
    MetaCyc:AT2G38080-MONOMER.

    Gene expression databases

    Genevestigatori O80434.

    Family and domain databases

    Gene3Di 2.60.40.420. 3 hits.
    InterProi IPR001117. Cu-oxidase.
    IPR011706. Cu-oxidase_2.
    IPR011707. Cu-oxidase_3.
    IPR002355. Cu_oxidase_Cu_BS.
    IPR008972. Cupredoxin.
    IPR017761. Laccase.
    [Graphical view ]
    Pfami PF00394. Cu-oxidase. 1 hit.
    PF07731. Cu-oxidase_2. 1 hit.
    PF07732. Cu-oxidase_3. 1 hit.
    [Graphical view ]
    SUPFAMi SSF49503. SSF49503. 3 hits.
    TIGRFAMsi TIGR03389. laccase. 1 hit.
    PROSITEi PS00079. MULTICOPPER_OXIDASE1. 1 hit.
    PS00080. MULTICOPPER_OXIDASE2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. 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.
      , 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. "Identification of novel genes in Arabidopsis involved in secondary cell wall formation using expression profiling and reverse genetics."
      Brown D.M., Zeef L.A.H., Ellis J., Goodacre R., Turner S.R.
      Plant Cell 17:2281-2295(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    5. "Gene structure and molecular analysis of the laccase-like multicopper oxidase (LMCO) gene family in Arabidopsis thaliana."
      McCaig B.C., Meagher R.B., Dean J.F.D.
      Planta 221:619-636(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
    6. "Mutant identification and characterization of the laccase gene family in Arabidopsis."
      Cai X., Davis E.J., Ballif J., Liang M., Bushman E., Haroldsen V., Torabinejad J., Wu Y.
      J. Exp. Bot. 57:2563-2569(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: TISSUE SPECIFICITY.

    Entry informationi

    Entry nameiLAC4_ARATH
    AccessioniPrimary (citable) accession number: O80434
    Secondary accession number(s): Q940U7
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 3, 2007
    Last sequence update: June 1, 2002
    Last modified: October 1, 2014
    This is version 97 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Arabidopsis thaliana
      Arabidopsis thaliana: entries and gene names
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3