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

XP_016497790.1

Organism

Nicotiana tabacum

Taxonomic ID

4097

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

C3H

Protein Properties

Length: 154aa MW: 17245.2 Da PI: 8.4561

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_016497790.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	32.1	1.9e-10	58	80	5	27
--SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHgp 27 C++f rtG+C+yGd+Ck+ H++ XP_016497790.1 58 VCNHFVRTGYCQYGDSCKYYHPK 80 6********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00451	5.4E-4	3	38	IPR003604	Zinc finger, U1-type
SuperFamily	SSF57667	1.7E-15	4	53	No hit	No description
Pfam	PF06220	1.1E-9	5	38	IPR013085	Zinc finger, U1-C type
SMART	SM00356	4.1E-5	53	80	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.206	53	81	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.2E-7	56	81	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	7.0E-7	58	80	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.1E-8	58	80	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 154 aa Download sequence Send to blast
MPLGKYYCDY CDKEFQDTAA ARKRHLQGVQ HQRAKALWYD SLRNPQLYND PDSFGKGVCN 60 HFVRTGYCQY GDSCKYYHPK QNSQNLQQTG IPGKTTREGI HLESVSNSQL FGSASFPAGD 120 VFRENGGAKL GNLPPSLRPP PEGGYPPLPF VDWG

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	HG975440	2e-39	HG975440.1 Solanum pennellii chromosome ch01, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009760657.1	1e-113	PREDICTED: zinc finger CCCH domain-containing protein 3 isoform X1
Refseq	XP_016497790.1	1e-113	PREDICTED: zinc finger CCCH domain-containing protein 3-like isoform X1
Swissprot	Q0JP11	6e-48	C3H3_ORYSJ; Zinc finger CCCH domain-containing protein 3
TrEMBL	A0A1S4C9H7	1e-112	A0A1S4C9H7_TOBAC; zinc finger CCCH domain-containing protein 3-like isoform X1
TrEMBL	A0A1U7UX91	1e-112	A0A1U7UX91_NICSY; zinc finger CCCH domain-containing protein 3 isoform X1
STRING	XP_009760657.1	1e-112	(Nicotiana sylvestris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA12008	18	21

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G26749.1	6e-33	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]