Reviewed, UniProtKB/Swiss-Prot Q8LT07 (PCF5_ORYSJ)

Names and origin

Protein names

Recommended name:
    Transcription factor PCF5

Gene names

Name:	PCF5
Ordered Locus Names:	Os01g0213800, LOC_Os01g11550
ORF Names:	OsJ_000844, OSJNBa0038J17.21

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

General annotation (Comments)

Function	Transcription activator. Binds the promoter core sequence 5'-GGNCC-3'. Ref.1
Subunit structure	Forms homodimers and heterodimers Probable.
Subcellular location	Nucleus Probable.
Sequence similarities	Contains 1 TCP domain.
Sequence caution	The sequence BAD73155.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence EAZ11019.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence EAZ11019.1 differs from that shown. Reason: Frameshift at position 374.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Ligand	DNA-binding
Molecular function	Activator Developmental protein
Gene Ontology (GO)
Biological process	multicellular organismal development Inferred from electronic annotation. Source: UniProtKB-KW regulation of transcription Inferred from electronic annotation. Source: UniProtKB-KW transcription Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 458	458	Transcription factor PCF5		PRO_0000330807
Regions
	Domain	89 – 147	59	TCP
	Compositional bias	7 – 32	26	His-rich
	Compositional bias	48 – 81	34	Gly-rich
	Compositional bias	287 – 340	54	Gly-rich

Sequences

	Sequence		Length	Mass (Da)
	Q8LT07-1 [UniParc]. Last modified October 1, 2002. Version 1. Checksum: 50EA0C32E580C3E7	FASTA	458	47,120
	10 20 30 40 50 60 MGDAGGHSHH HQHGFQPQLL SFGGVGHHHH LHQFTAQPQP PAASHTRGRG GGGEIVPATT 70 80 90 100 110 120 TPRSRGGGGG GGGEIVAVQG GHIVRSTGRK DRHSKVCTAR GPRDRRVRLS AHTAIQFYDV 130 140 150 160 170 180 QDRLGYDRPS KAVDWLIKNA KDAIDKLDVL PAWQPTAGGA GAGNAAAPPS SSTHPDSAEN 190 200 210 220 230 240 SDDQAQAITV AHTAFDFAGG GSGGTSFLPP SLDSDAIADT IKSFFPMGGT AGGEASSSTT 250 260 270 280 290 300 AAQSSAMGFQ SYTPDLLSRT GSQSQELRLS LQSLPDPMFH HQQHRHGGGG GGGNGTTQQA 310 320 330 340 350 360 LFSGAANYSF GGGAMWATEQ QAQNQRMLPW NVPDPGGGGG AAYLFNVSQQ AAHMQAAAAA 370 380 390 400 410 420 LGGHQSQFFF QRGPLQSSNQ PSERGWPETV EADNQMSHHQ GGLSPSVSAA IGFAAPGIGF 430 440 450 SGFRLPARIQ GDEEHNGGGG GNGDKPPPPS SVSSASHH

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"DNA binding and dimerization specificity and potential targets for the TCP protein family." Kosugi S., Ohashi Y. Plant J. 30:337-348(2002) [PubMed: 12000681] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION. Strain: cv. Nipponbare.
[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]	"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: 15685292] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Nipponbare.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AB071805 mRNA. Translation: BAB92952.1. AP003104 Genomic DNA. Translation: BAD73155.1. Sequence problems. AP008207 Genomic DNA. Translation: BAF04299.1. CM000138 Genomic DNA. Translation: EAZ11019.1. Sequence problems.
RefSeq	NP_001042385.1.
UniGene	Os.2066
3D structure databases
ModBase	Search...
Genome annotation databases
GeneID	4325252.
GenomeReviews	Gene locus PCF5 in contig AP008207_GR.
KEGG	osa:4325252.
Organism-specific databases
Gramene	Q8LT07.
Phylogenomic databases
HOGENOM	HBG744071.
Family and domain databases
InterPro	IPR017887. TF_TCP_subgr. IPR005333. Transcription_factor_TCP. [Graphical view]
Pfam	PF03634. TCP. 1 hit. [Graphical view]
PROSITE	PS51369. TCP. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

PCF5_ORYSJ

Accession

Primary (citable) accession number: Q8LT07
Secondary accession number(s): A2ZQM2, Q5QN53

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 29, 2008
Last sequence update:	October 1, 2002
Last modified:	December 15, 2009
This is version 29 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)