PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

PSME_00051092-RA

Organism

Pseudotsuga menziesii

Taxonomic ID

3357

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga

Family

C3H

Protein Properties

Length: 194aa MW: 22626.9 Da PI: 9.7665

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00051092-RA	genome	PRS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	25	3.3e-08	72	93	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 e C ++ + G+Ck G +C FaHg PSME_00051092-RA 72 ETCVNYKK-GYCKNGLTCEFAHG 93 6799**.***********8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	4.8E-5	65	93	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	10.822	68	95	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.8E-5	73	93	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	6.69	103	127	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 194 aa Download sequence Send to blast
MAKELQPGLM TMMPETFLNT CGTQNQSSDE LRMYKFKVVI CMRDPGHDWT RCPFAHRGER 60 ARRRHPSLYC GETCVNYKKG YCKNGLTCEF AHGWFESWLH PHRYRTKHCK HRVNCNRRVC 120 FFAHGDEEIR FPPTLSSSKM KDHKNYSSTH NRSLSTNVVT PQIYNATRQD VVSSPRGVHA 180 AQMLLKPLYM NSPL

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT110126	1e-170	BT110126.1 Picea glauca clone GQ03216_L21 mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Swissprot	Q6L4N4	5e-39	C3H35_ORYSJ; Zinc finger CCCH domain-containing protein 35
STRING	GRMZM5G801627_P02	1e-38	(Zea mays)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G29190.1	8e-42	C3H family protein

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Cheng CH, et al. A fine physical map of the rice chromosome 5. Mol. Genet. Genomics, 2005. 274(4): p. 337-45 [PMID:16261349]