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Q5NAW2

- C3H6_ORYSJ

UniProt

Q5NAW2 - C3H6_ORYSJ

Protein

Zinc finger CCCH domain-containing protein 6

Gene

Os01g0258700

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed - Annotation score: 2 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 54 (01 Oct 2014)
      Sequence version 2 (26 Apr 2005)
      Previous versions | rss
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    Functioni

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri59 – 8729C3H1-type 1PROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri108 – 13629C3H1-type 2PROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri153 – 18129C3H1-type 3PROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri307 – 33529C3H1-type 4PROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri353 – 38129C3H1-type 5PROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW
    2. metal ion binding Source: UniProtKB-KW

    Keywords - Ligandi

    DNA-binding, Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Zinc finger CCCH domain-containing protein 6
    Short name:
    OsC3H6
    Alternative name(s):
    Zinc finger CCCH domain-containing protein ZFN-like 1
    Gene namesi
    Ordered Locus Names:Os01g0258700, LOC_Os01g15460
    ORF Names:P0462H08.27-1, P0462H08.27-2
    OrganismiOryza sativa subsp. japonica (Rice)
    Taxonomic identifieri39947 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBEP cladeEhrhartoideaeOryzeaeOryza
    ProteomesiUP000000763: Chromosome 1

    Organism-specific databases

    GrameneiQ5NAW2.

    Subcellular locationi

    Nucleus By similarity

    GO - Cellular componenti

    1. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 476476Zinc finger CCCH domain-containing protein 6PRO_0000213922Add
    BLAST

    Proteomic databases

    PaxDbiQ5NAW2.
    PRIDEiQ5NAW2.

    Structurei

    3D structure databases

    ProteinModelPortaliQ5NAW2.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi6 – 116Poly-Ala
    Compositional biasi34 – 5017Poly-GlyAdd
    BLAST

    Sequence similaritiesi

    Contains 5 C3H1-type zinc fingers.PROSITE-ProRule annotation

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri59 – 8729C3H1-type 1PROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri108 – 13629C3H1-type 2PROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri153 – 18129C3H1-type 3PROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri307 – 33529C3H1-type 4PROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri353 – 38129C3H1-type 5PROSITE-ProRule annotationAdd
    BLAST

    Keywords - Domaini

    Repeat, Zinc-finger

    Phylogenomic databases

    eggNOGiNOG312935.
    HOGENOMiHOG000237733.
    OMAiWSPYPAS.

    Family and domain databases

    Gene3Di4.10.1000.10. 4 hits.
    InterProiIPR000571. Znf_CCCH.
    [Graphical view]
    PfamiPF00642. zf-CCCH. 5 hits.
    [Graphical view]
    SMARTiSM00356. ZnF_C3H1. 5 hits.
    [Graphical view]
    PROSITEiPS50103. ZF_C3H1. 5 hits.
    [Graphical view]

    Sequences (3)i

    Sequence statusi: Complete.

    This entry describes 3 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q5NAW2-1) [UniParc]FASTAAdd to Basket

    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.

    « Hide

    MEQPHAAAAA AGGGEGEGGA SPDTGLEGPM WRMGLGGGGG GGGGGGGGDG    50
    DAAGRLPERP GEEDCVYYLR TGACGFGDRC RYNHPRDRGG TEFGGGARNA 100
    AALDYPERAG QPICEYYMKT GTCKFGTNCK YHHPKQDGAV LPVMLNNSGF 150
    PIRLGEKECS YYMKTGQCKF GTTCKFHHPE FGGVPMTPGI YPPLQSPSIA 200
    SPHPYASLAN WQMGRPPVVP GSYIPGSYTP MMLSSGMIPL QGWSPYPASV 250
    NPVVSGGAQQ NVQAGPVYGM GHHGSSSTIA YGGPYVPYAS STGQSSNNQQ 300
    EHGFPERPGQ PDCQYYMRTG DCKFGATCKY HHPRELSAPK SGYMVNSLCL 350
    PLRPGAQPCA YYAQNGYCRY GVACKYDHPM GTLGYSPSAL PLSDMPIAPY 400
    PIGFSIATLA PSSPSPDLRP EYISTKDQSV NQVTSPVAAS EPVGSILPKG 450
    VFPADTMMRA QTNTTSGGSS SPGGGR 476
    Length:476
    Mass (Da):49,835
    Last modified:April 26, 2005 - v2
    Checksum:i46F41CB2DC3D6A52
    GO
    Isoform 2 (identifier: Q5NAW2-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         1-29: Missing.

    Note: May be due to intron retention. No experimental confirmation available.

    Show »
    Length:447
    Mass (Da):47,260
    Checksum:iC31C997ED8199815
    GO
    Isoform 3 (identifier: Q5NAW2-3) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         1-269: Missing.

    Note: May be due to intron retention.

    Show »
    Length:207
    Mass (Da):21,911
    Checksum:i1D9AA0F7A12AB1BC
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti158 – 1581E → K in AK111903. (PubMed:12869764)Curated
    Sequence conflicti386 – 3861S → G in AK111727. (PubMed:12869764)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei1 – 269269Missing in isoform 3. 1 PublicationVSP_013560Add
    BLAST
    Alternative sequencei1 – 2929Missing in isoform 2. 1 PublicationVSP_013559Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY573063 mRNA. Translation: AAT35591.1.
    AY620413 mRNA. Translation: AAT28673.1.
    AP002525 Genomic DNA. Translation: BAD81401.1.
    AP002525 Genomic DNA. Translation: BAD81402.1.
    AP008207 Genomic DNA. Translation: BAF04551.1.
    AK111633 mRNA. No translation available.
    AK111727 mRNA. No translation available.
    AK111903 mRNA. No translation available.
    RefSeqiNP_001042637.1. NM_001049172.1. [Q5NAW2-1]
    UniGeneiOs.9931.

    Genome annotation databases

    EnsemblPlantsiOS01T0258700-01; OS01T0258700-01; OS01G0258700. [Q5NAW2-1]
    GeneIDi4326236.
    KEGGiosa:4326236.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY573063 mRNA. Translation: AAT35591.1 .
    AY620413 mRNA. Translation: AAT28673.1 .
    AP002525 Genomic DNA. Translation: BAD81401.1 .
    AP002525 Genomic DNA. Translation: BAD81402.1 .
    AP008207 Genomic DNA. Translation: BAF04551.1 .
    AK111633 mRNA. No translation available.
    AK111727 mRNA. No translation available.
    AK111903 mRNA. No translation available.
    RefSeqi NP_001042637.1. NM_001049172.1. [Q5NAW2-1 ]
    UniGenei Os.9931.

    3D structure databases

    ProteinModelPortali Q5NAW2.
    ModBasei Search...
    MobiDBi Search...

    Proteomic databases

    PaxDbi Q5NAW2.
    PRIDEi Q5NAW2.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi OS01T0258700-01 ; OS01T0258700-01 ; OS01G0258700 . [Q5NAW2-1 ]
    GeneIDi 4326236.
    KEGGi osa:4326236.

    Organism-specific databases

    Gramenei Q5NAW2.

    Phylogenomic databases

    eggNOGi NOG312935.
    HOGENOMi HOG000237733.
    OMAi WSPYPAS.

    Family and domain databases

    Gene3Di 4.10.1000.10. 4 hits.
    InterProi IPR000571. Znf_CCCH.
    [Graphical view ]
    Pfami PF00642. zf-CCCH. 5 hits.
    [Graphical view ]
    SMARTi SM00356. ZnF_C3H1. 5 hits.
    [Graphical view ]
    PROSITEi PS50103. ZF_C3H1. 5 hits.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Molecular cloning and expression of a Magnaporthe grisea induced cDNA encoding a zinc-finger transcription factor."
      Meng X.-B., Lin R.-M., Wang M., Zhao W.-S., Zhang S.-H., Peng Y.-L.
      Submitted (APR-2004) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3).
      Strain: cv. Aichiasahi.
    2. "The genome sequence and structure of rice chromosome 1."
      Sasaki T., Matsumoto T., Yamamoto K., Sakata K., Baba T., Katayose Y., Wu J., Niimura Y., Cheng Z., Nagamura Y., Antonio B.A., Kanamori H., Hosokawa S., Masukawa M., Arikawa K., Chiden Y., Hayashi M., Okamoto M.
      , Ando T., Aoki H., Arita K., Hamada M., Harada C., Hijishita S., Honda M., Ichikawa Y., Idonuma A., Iijima M., Ikeda M., Ikeno M., Ito S., Ito T., Ito Y., Ito Y., Iwabuchi A., Kamiya K., Karasawa W., Katagiri S., Kikuta A., Kobayashi N., Kono I., Machita K., Maehara T., Mizuno H., Mizubayashi T., Mukai Y., Nagasaki H., Nakashima M., Nakama Y., Nakamichi Y., Nakamura M., Namiki N., Negishi M., Ohta I., Ono N., Saji S., Sakai K., Shibata M., Shimokawa T., Shomura A., Song J., Takazaki Y., Terasawa K., Tsuji K., Waki K., Yamagata H., Yamane H., Yoshiki S., Yoshihara R., Yukawa K., Zhong H., Iwama H., Endo T., Ito H., Hahn J.H., Kim H.-I., Eun M.-Y., Yano M., Jiang J., Gojobori T.
      Nature 420:312-316(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: cv. Nipponbare.
    3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: cv. Nipponbare.
    4. "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.
    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] (ISOFORMS 1 AND 2).
      Strain: cv. Nipponbare.
    6. "Genome-wide analysis of CCCH zinc finger family in Arabidopsis and rice."
      Wang D., Guo Y., Wu C., Yang G., Li Y., Zheng C.
      BMC Genomics 9:44-44(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NOMENCLATURE.

    Entry informationi

    Entry nameiC3H6_ORYSJ
    AccessioniPrimary (citable) accession number: Q5NAW2
    Secondary accession number(s): Q0JNX7, Q5NAW3, Q6IVC4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 26, 2005
    Last sequence update: April 26, 2005
    Last modified: October 1, 2014
    This is version 54 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. Oryza sativa (rice)
      Index of Oryza sativa entries and their corresponding gene designations
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3