Q6ZK57 (C3H54_ORYSJ) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Zinc finger CCCH domain-containing protein 54
Short name=OsC3H54

Gene names

Ordered Locus Names:	Os08g0126700, LOC_Os08g03310
ORF Names:	OJ1163_G08.18, OsJ_024860

Organism

Oryza sativa subsp. japonica (Rice) [Reference proteome]

Taxonomic identifier

39947 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Viridiplantae › Streptophyta › Streptophytina › Embryophyta › Tracheophyta › Euphyllophyta › Spermatophyta › Magnoliophyta › Liliopsida › commelinids › Poales › Poaceae › BEP clade › Ehrhartoideae › Oryzeae › Oryza › Oryza sativa

Protein attributes

Sequence length	653 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level

General annotation (Comments)

Sequence similarities

Contains 1 C3H1-type zinc finger. Contains 1 HTH OST-type domain. Contains 1 RRM (RNA recognition motif) domain.

Ontologies

Keywords
Coding sequence diversity	Alternative splicing
Domain	Coiled coil Zinc-finger
Ligand	DNA-binding Metal-binding RNA-binding Zinc
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Molecular_function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW RNA binding Inferred from electronic annotation. Source: UniProtKB-KW nucleotide binding Inferred from electronic annotation. Source: InterPro zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q6ZK57-1)

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.

Note: Derived from EST data. No experimental confirmation available.

Isoform 2 (identifier: Q6ZK57-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-49: Missing.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 653	653	Zinc finger CCCH domain-containing protein 54		PRO_0000346847
Regions
	Domain	313 – 396	84	HTH OST-type
	Domain	422 – 497	76	RRM
	Zinc finger	260 – 287	28	C3H1-type
	Coiled coil	537 – 565	29	Potential
	Compositional bias	44 – 47	4	Poly-Trp
	Compositional bias	127 – 138	12	Poly-Gly
	Compositional bias	165 – 171	7	Poly-Ala
	Compositional bias	243 – 249	7	Poly-Gly
	Compositional bias	405 – 412	8	Poly-Gly
Natural variations
	Alternative sequence	1 – 49	49	Missing in isoform 2.		VSP_035022
Experimental info
	Sequence conflict	54	1	E → K in AK111902. Ref.4

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified September 2, 2008. Version 2. Checksum: 3804BC7C7948A18B	FASTA	653	71,818
	10 20 30 40 50 60 MRCDRCARDT IHPIESRALD RSRILFLLCC YKRRPRFRFH VHQWWWWVAM EVPELVKLAF 70 80 90 100 110 120 ARVQRVEPEH VGKIFGVMLL REPDEDELVQ LAYGPEATLL AKIEDTKAAL TVIYARCSAA 130 140 150 160 170 180 AAHGPPGGGG VGVGGGGGYH QQPQQLFSRP PVPACGGVRH HYSPAAAAAA AFGYQVQSPQ 190 200 210 220 230 240 YWPDSPPAPP TKAAQQEFAP PGLVVDASAE GPYPLRGGQH VLDDNNFGGG YYYPAGEDAF 250 260 270 280 290 300 PNGGGGGGGS PARARRSNGL STRRPCHYFS KGICKNGQNC HYSHHQVYQD ALAGAAINGD 310 320 330 340 350 360 VYNHQPGGVT PGSLETLEME ITELLNSRRG QPVSIASLPT LYGEKYGKGL QADGYLTESQ 370 380 390 400 410 420 RHGKAGYSLT RLLSRLNKIR VIERPHGQHS VVLAEDAAKY MDFRGGGGGG GGDTGSVPAS 430 440 450 460 470 480 SHQIYLTFPA ESTFAEDDVA NYFGQYGPVR DVRIPCQERR MFGFVSFQSP ETVSTILMRR 490 500 510 520 530 540 NPHFICGSRV LVKPYREKSK CVDRTCVDNI KSMVPYCPPR FFEFDQELYT AEYDASRLMR 550 560 570 580 590 600 KQLAEKREML LEMERRRATV RRLESMPPQF AYFDCSIEDA SPLHSLQDDS KQLDLMNPSL 610 620 630 640 650 ASPDPLEIVS NSQAPPTQAG NIYDDHESNQ IELLPESPFA ASAPAGNSIS TII
	Isoform 2 [UniParc]. Checksum: A4E58E8FA257ED92	FASTA	604	65,548
	10 20 30 40 50 60 MEVPELVKLA FARVQRVEPE HVGKIFGVML LREPDEDELV QLAYGPEATL LAKIEDTKAA 70 80 90 100 110 120 LTVIYARCSA AAAHGPPGGG GVGVGGGGGY HQQPQQLFSR PPVPACGGVR HHYSPAAAAA 130 140 150 160 170 180 AAFGYQVQSP QYWPDSPPAP PTKAAQQEFA PPGLVVDASA EGPYPLRGGQ HVLDDNNFGG 190 200 210 220 230 240 GYYYPAGEDA FPNGGGGGGG SPARARRSNG LSTRRPCHYF SKGICKNGQN CHYSHHQVYQ 250 260 270 280 290 300 DALAGAAING DVYNHQPGGV TPGSLETLEM EITELLNSRR GQPVSIASLP TLYGEKYGKG 310 320 330 340 350 360 LQADGYLTES QRHGKAGYSL TRLLSRLNKI RVIERPHGQH SVVLAEDAAK YMDFRGGGGG 370 380 390 400 410 420 GGGDTGSVPA SSHQIYLTFP AESTFAEDDV ANYFGQYGPV RDVRIPCQER RMFGFVSFQS 430 440 450 460 470 480 PETVSTILMR RNPHFICGSR VLVKPYREKS KCVDRTCVDN IKSMVPYCPP RFFEFDQELY 490 500 510 520 530 540 TAEYDASRLM RKQLAEKREM LLEMERRRAT VRRLESMPPQ FAYFDCSIED ASPLHSLQDD 550 560 570 580 590 600 SKQLDLMNPS LASPDPLEIV SNSQAPPTQA GNIYDDHESN QIELLPESPF AASAPAGNSI STII

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The map-based sequence of the rice genome." International rice genome sequencing project (IRGSP) Nature 436:793-800(2005) [PubMed] [Europe PMC] [Abstract] 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]	"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.
[4]	"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] (ISOFORM 2). Strain: cv. Nipponbare.
[5]	"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.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AP003886 Genomic DNA. Translation: BAD08853.1. AP008214 Genomic DNA. Translation: BAF22813.1. CM000145 Genomic DNA. Translation: EAZ41377.1. AK111902 mRNA. No translation available.
RefSeq	NP_001060899.1. NM_001067434.1.
UniGene	Os.99816.
3D structure databases
ProteinModelPortal	Q6ZK57.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	LOC_Os08g03310.1; LOC_Os08g03310.1; LOC_Os08g03310.
GeneID	4344566.
KEGG	osa:4344566.
Organism-specific databases
Gramene	Q6ZK57.
Phylogenomic databases
eggNOG	NOG258283.
HOGENOM	HOG000242520.
OMA	GICKNGQ.
Gene expression databases
ArrayExpress	Q6ZK57.
Family and domain databases
Gene3D	3.30.70.330. 1 hit.
InterPro	IPR012677. Nucleotide-bd_a/b_plait. IPR025605. OST-HTH/LOTUS_dom. IPR000504. RRM_dom. IPR000571. Znf_CCCH. [Graphical view]
Pfam	PF12872. OST-HTH. 1 hit. [Graphical view]
SMART	SM00360. RRM. 1 hit. [Graphical view]
PROSITE	PS51644. HTH_OST. 1 hit. PS50102. RRM. 1 hit. PS50103. ZF_C3H1. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

C3H54_ORYSJ

Accession

Primary (citable) accession number: Q6ZK57

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 2, 2008
Last sequence update:	September 2, 2008
Last modified:	April 3, 2013
This is version 66 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program