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

Tp4g29610

Organism

Thellungiella parvula

Taxonomic ID

98039

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassicaceae incertae sedis; Schrenkiella

Family

C3H

Protein Properties

Length: 789aa MW: 90435 Da PI: 6.6198

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp4g29610	genome	thellungiella	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	18.8	2.9e-06	504	524	4	25
---SGGGGTS--TTTTT-SS-S CS zf-CCCH 4 elCrffartGtCkyGdrCkFaH 25 + C +f+ G+C++Gd+C F+H Tp4g29610 504 PVCVYFLN-GFCNRGDQCMFSH 524 67998888.************* PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF52540	1.08E-15	37	220	IPR027417	P-loop containing nucleoside triphosphate hydrolase
PROSITE profile	PS51194	8.841	38	208	IPR001650	Helicase, C-terminal
Pfam	PF00271	1.3E-5	46	172	IPR001650	Helicase, C-terminal
Gene3D	G3DSA:3.40.50.300	2.5E-5	52	189	IPR027417	P-loop containing nucleoside triphosphate hydrolase
SMART	SM00356	1.5E-6	500	526	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.056	500	527	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.83E-5	503	525	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.5E-4	505	527	IPR000571	Zinc finger, CCCH-type
Pfam	PF14608	0.0093	506	524	No hit	No description
SMART	SM00356	0.0024	528	554	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.765	528	555	IPR000571	Zinc finger, CCCH-type
Pfam	PF14608	0.013	533	552	No hit	No description
SuperFamily	SSF90229	8.9E-5	533	554	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009507	Cellular Component	chloroplast
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 789 aa Download sequence Send to blast
MSHIVAGLLG VSSDLSAYCP GPSPSSADTE IKPELQNLIH DLILYIHRKE PDIEKSILVF 60 LPTYYSLEQQ WYQLVPFQAS FEVHILHRSI DTERALAAMK ICRSRRKVSL LTFHVSASLH 120 YLCVTIPKVA YVIDSCRSLQ VFWDASRKRD AVQLVWVSRS QAEQRRGRTG RTCDGEVYRL 180 VPSAFFNKLE EHEPRAIVKL SLRQQVLHIC CTESRAINDA NDVIDDALSM LLSMRALRKS 240 PRGRYEPTFY GRLLASFPLS IDASILVVKF GEMGMLREGI LLGVLMDTQP LPINHPFGDD 300 ALFLEYVDHY FGGDSSKTIS GGRREVVLMA NLCAFQFWQR VFKDKHRLEN LKQLLSKEKD 360 KDLKLMFPEI EQEWCDFHNI ARSSFYHVSE MYEDTRSSLH RFRPQFISFS DSLPTYYHPY 420 EFKHTCYVEC QASEDRYPHS EDQPPLEVRK CVSVPFVPPN AFQANAIAKN MANIFKEIRT 480 QGTPSDNSHG AIKPADYVEN GEVPVCVYFL NGFCNRGDQC MFSHTLQSTR PACKFFASLQ 540 GCRNGESCLF SHAMHRQTTP YYSPPSCLPE EDDSSTWPLL DIFPTSSEGC ILVFDDSDMH 600 FTSRIANRYP SWRILSTSSS SETLFCDSSL ADTRIFWGLN HPYQTIISKA GGENPIPWNE 660 VKCVLWFLNP DSYAETPEKQ KTILQNFFEY MAIRILGDAL YEIQVVLTMN NIRFSNLQVE 720 KLARDSFFFL GESFLHNSIS FGEFSDTFTI QKPMLVSRPV SYVFDLHPPT DIQFGDYTSV 780 LHKSLHNNK

Sequence ? help Back to Top

Protein Sequence Length: 789 aa Download sequence Send to blast

MSHIVAGLLG VSSDLSAYCP GPSPSSADTE IKPELQNLIH DLILYIHRKE PDIEKSILVF  60
LPTYYSLEQQ WYQLVPFQAS FEVHILHRSI DTERALAAMK ICRSRRKVSL LTFHVSASLH  120
YLCVTIPKVA YVIDSCRSLQ VFWDASRKRD AVQLVWVSRS QAEQRRGRTG RTCDGEVYRL  180
VPSAFFNKLE EHEPRAIVKL SLRQQVLHIC CTESRAINDA NDVIDDALSM LLSMRALRKS  240
PRGRYEPTFY GRLLASFPLS IDASILVVKF GEMGMLREGI LLGVLMDTQP LPINHPFGDD  300
ALFLEYVDHY FGGDSSKTIS GGRREVVLMA NLCAFQFWQR VFKDKHRLEN LKQLLSKEKD  360
KDLKLMFPEI EQEWCDFHNI ARSSFYHVSE MYEDTRSSLH RFRPQFISFS DSLPTYYHPY  420
EFKHTCYVEC QASEDRYPHS EDQPPLEVRK CVSVPFVPPN AFQANAIAKN MANIFKEIRT  480
QGTPSDNSHG AIKPADYVEN GEVPVCVYFL NGFCNRGDQC MFSHTLQSTR PACKFFASLQ  540
GCRNGESCLF SHAMHRQTTP YYSPPSCLPE EDDSSTWPLL DIFPTSSEGC ILVFDDSDMH  600
FTSRIANRYP SWRILSTSSS SETLFCDSSL ADTRIFWGLN HPYQTIISKA GGENPIPWNE  660
VKCVLWFLNP DSYAETPEKQ KTILQNFFEY MAIRILGDAL YEIQVVLTMN NIRFSNLQVE  720
KLARDSFFFL GESFLHNSIS FGEFSDTFTI QKPMLVSRPV SYVFDLHPPT DIQFGDYTSV  780
LHKSLHNNK

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp4g29610

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	AB493597	0.0	AB493597.1 Arabidopsis thaliana At2g47680 mRNA for hypothetical protein, partial cds, clone: RAAt2g47680.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013636005.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 31
Refseq	XP_013691810.1	0.0	DExH-box ATP-dependent RNA helicase DExH8-like
Swissprot	O22243	0.0	C3H31_ARATH; DExH-box ATP-dependent RNA helicase DExH8
TrEMBL	A0A3P6BEP2	0.0	A0A3P6BEP2_BRAOL; Uncharacterized protein
STRING	Bostr.13208s0050.1.p	0.0	(Boechera stricta)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8965	2	3

Publications ? help Back to Top
Xu R,Zhang S,Huang J,Zheng C Genome-wide comparative in silico analysis of the RNA helicase gene family in Zea mays and Glycine max: a comparison with Arabidopsis and Oryza sativa. PLoS ONE, 2013. 8(11): p. e78982 [PMID:24265739]