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Q5NAW2

- C3H6_ORYSJ

UniProt

Q5NAW2 - C3H6_ORYSJ

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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

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
Complete GO annotation...

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-KW
Complete GO annotation...

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.

Expressioni

Gene expression databases

ExpressionAtlasiQ5NAW2. baseline.

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.
InParanoidiQ5NAW2.
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

        10         20         30         40         50
MEQPHAAAAA AGGGEGEGGA SPDTGLEGPM WRMGLGGGGG GGGGGGGGDG
60 70 80 90 100
DAAGRLPERP GEEDCVYYLR TGACGFGDRC RYNHPRDRGG TEFGGGARNA
110 120 130 140 150
AALDYPERAG QPICEYYMKT GTCKFGTNCK YHHPKQDGAV LPVMLNNSGF
160 170 180 190 200
PIRLGEKECS YYMKTGQCKF GTTCKFHHPE FGGVPMTPGI YPPLQSPSIA
210 220 230 240 250
SPHPYASLAN WQMGRPPVVP GSYIPGSYTP MMLSSGMIPL QGWSPYPASV
260 270 280 290 300
NPVVSGGAQQ NVQAGPVYGM GHHGSSSTIA YGGPYVPYAS STGQSSNNQQ
310 320 330 340 350
EHGFPERPGQ PDCQYYMRTG DCKFGATCKY HHPRELSAPK SGYMVNSLCL
360 370 380 390 400
PLRPGAQPCA YYAQNGYCRY GVACKYDHPM GTLGYSPSAL PLSDMPIAPY
410 420 430 440 450
PIGFSIATLA PSSPSPDLRP EYISTKDQSV NQVTSPVAAS EPVGSILPKG
460 470
VFPADTMMRA QTNTTSGGSS SPGGGR
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:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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.
InParanoidi Q5NAW2.
OMAi WSPYPAS.

Gene expression databases

ExpressionAtlasi Q5NAW2. baseline.

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

« Hide 'large scale' publications
  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 29, 2014
This is version 55 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