Reviewed, UniProtKB/Swiss-Prot Q5NAW2 (C3H6_ORYSJ)

Names and origin

Protein names

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 names

Ordered Locus Names:	Os01g0258700, LOC_Os01g15460
ORF Names:	P0462H08.27-1, P0462H08.27-2

Organism

Oryza sativa subsp. japonica (Rice)

Taxonomic identifier

39947 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › Liliopsida › Poales › Poaceae › BEP clade › Ehrhartoideae › Oryzeae › Oryza

Protein attributes

Sequence length	476 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at transcript level.

General annotation (Comments)

Subcellular location	Nucleus By similarity.
Sequence similarities	Contains 5 C3H1-type zinc fingers.

Ontologies

Keywords
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Domain	Repeat Zinc-finger
Ligand	DNA-binding Metal-binding Zinc
Gene Ontology (GO)
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW zinc ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q5NAW2-1)

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.

Isoform 2 (identifier: Q5NAW2-2)

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.

Isoform 3 (identifier: Q5NAW2-3)

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

Note: May be due to intron retention.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 476	476	Zinc finger CCCH domain-containing protein 6		PRO_0000213922
Regions
	Zinc finger	59 – 87	29	C3H1-type 1
	Zinc finger	108 – 136	29	C3H1-type 2
	Zinc finger	153 – 181	29	C3H1-type 3
	Zinc finger	307 – 335	29	C3H1-type 4
	Zinc finger	353 – 381	29	C3H1-type 5
	Compositional bias	6 – 11	6	Poly-Ala
	Compositional bias	34 – 50	17	Poly-Gly
Natural variations
	Alternative sequence	1 – 269	269	Missing in isoform 3.		VSP_013560
	Alternative sequence	1 – 29	29	Missing in isoform 2.		VSP_013559
Experimental info
	Sequence conflict	158	1	E → K in AK111903. Ref.3
	Sequence conflict	386	1	S → G in AK111727. Ref.3

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified April 26, 2005. Version 2. Checksum: 46F41CB2DC3D6A52	FASTA	476	49,835
	10 20 30 40 50 60 MEQPHAAAAA AGGGEGEGGA SPDTGLEGPM WRMGLGGGGG GGGGGGGGDG DAAGRLPERP 70 80 90 100 110 120 GEEDCVYYLR TGACGFGDRC RYNHPRDRGG TEFGGGARNA AALDYPERAG QPICEYYMKT 130 140 150 160 170 180 GTCKFGTNCK YHHPKQDGAV LPVMLNNSGF PIRLGEKECS YYMKTGQCKF GTTCKFHHPE 190 200 210 220 230 240 FGGVPMTPGI YPPLQSPSIA SPHPYASLAN WQMGRPPVVP GSYIPGSYTP MMLSSGMIPL 250 260 270 280 290 300 QGWSPYPASV NPVVSGGAQQ NVQAGPVYGM GHHGSSSTIA YGGPYVPYAS STGQSSNNQQ 310 320 330 340 350 360 EHGFPERPGQ PDCQYYMRTG DCKFGATCKY HHPRELSAPK SGYMVNSLCL PLRPGAQPCA 370 380 390 400 410 420 YYAQNGYCRY GVACKYDHPM GTLGYSPSAL PLSDMPIAPY PIGFSIATLA PSSPSPDLRP 430 440 450 460 470 EYISTKDQSV NQVTSPVAAS EPVGSILPKG VFPADTMMRA QTNTTSGGSS SPGGGR
	Isoform 2. Checksum: C31C997ED8199815	FASTA	447	47,260
	10 20 30 40 50 60 MWRMGLGGGG GGGGGGGGGD GDAAGRLPER PGEEDCVYYL RTGACGFGDR CRYNHPRDRG 70 80 90 100 110 120 GTEFGGGARN AAALDYPERA GQPICEYYMK TGTCKFGTNC KYHHPKQDGA VLPVMLNNSG 130 140 150 160 170 180 FPIRLGEKEC SYYMKTGQCK FGTTCKFHHP EFGGVPMTPG IYPPLQSPSI ASPHPYASLA 190 200 210 220 230 240 NWQMGRPPVV PGSYIPGSYT PMMLSSGMIP LQGWSPYPAS VNPVVSGGAQ QNVQAGPVYG 250 260 270 280 290 300 MGHHGSSSTI AYGGPYVPYA SSTGQSSNNQ QEHGFPERPG QPDCQYYMRT GDCKFGATCK 310 320 330 340 350 360 YHHPRELSAP KSGYMVNSLC LPLRPGAQPC AYYAQNGYCR YGVACKYDHP MGTLGYSPSA 370 380 390 400 410 420 LPLSDMPIAP YPIGFSIATL APSSPSPDLR PEYISTKDQS VNQVTSPVAA SEPVGSILPK 430 440 GVFPADTMMR AQTNTTSGGS SSPGGGR
	Isoform 3. Checksum: 1D9AA0F7A12AB1BC	FASTA	207	21,911
	10 20 30 40 50 60 MGHHGSSSTI AYGGPYVPYA SSTGQSSNNQ QEHGFPERPG QPDCQYYMRT GDCKFGATCK 70 80 90 100 110 120 YHHPRELSAP KSGYMVNSLC LPLRPGAQPC AYYAQNGYCR YGVACKYDHP MGTLGYSPSA 130 140 150 160 170 180 LPLSDMPIAP YPIGFSIATL APSSPSPDLR PEYISTKDQS VNQVTSPVAA SEPVGSILPK 190 200 GVFPADTMMR AQTNTTSGGS SSPGGGR

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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: 12447438] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Nipponbare.
[3]	"The map-based sequence of the rice genome." International rice genome sequencing project (IRGSP) Nature 436:793-800(2005) [PubMed: 16100779] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Nipponbare.
[4]	"Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana." The rice annotation project (RAP) Genome Res. 17:175-183(2007) [PubMed: 17210932] [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: 12869764] [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: 18221561] [Abstract] Cited for: NOMENCLATURE.

Cross-references

Sequence databases
EMBLGenBankDDBJ	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.
RefSeq	NP_001042637.1.
UniGene	Os.9931
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4326236.
KEGG	osa:4326236.
Organism-specific databases
Gramene	Q5NAW2.
Phylogenomic databases
HOGENOM	HBG745117.
Family and domain databases
InterPro	IPR000571. Znf_CCCH. [Graphical view]
Pfam	PF00642. zf-CCCH. 5 hits. [Graphical view]
SMART	SM00356. ZnF_C3H1. 5 hits. [Graphical view]
PROSITE	PS50103. ZF_C3H1. 5 hits. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

C3H6_ORYSJ

Accession

Primary (citable) accession number: Q5NAW2
Secondary accession number(s): Q0JNX7, Q5NAW3, Q6IVC4

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 26, 2005
Last sequence update:	April 26, 2005
Last modified:	December 15, 2009
This is version 28 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)