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

RrC357_p4

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 441aa MW: 48469.9 Da PI: 5.3267

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC357_p4	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	39.5	9.7e-13	91	114	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 e C f+++tG Ck+G++CkF+H+ RrC357_p4 91 AEDCAFYMKTGSCKFGSTCKFNHP 114 689********************9 PP
2	zf-CCCH	28.9	2e-09	144	163	6	25
-SGGGGTS--TTTTT-SS-S CS zf-CCCH 6 CrffartGtCkyGdrCkFaH 25 C++++rtG CkyG +C+F+H RrC357_p4 144 CKYYFRTGGCKYGLTCRFNH 163 ******************** PP
3	zf-CCCH	35.9	1.3e-11	187	210	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 + +C f++r+G Ck+G+ CkF+H+ RrC357_p4 187 EIECLFYMRNGSCKFGADCKFNHP 210 568********************9 PP
4	zf-CCCH	19.7	1.5e-06	334	359	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 ++++C+++++tG Ck+ +Ck++H++ RrC357_p4 334 DQPECSYYLKTGDCKFKFTCKYHHPK 359 689*********************96 PP
5	zf-CCCH	35	2.5e-11	388	411	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 +++C +++r+G+Ck+G+ C+F H+ RrC357_p4 388 QVICTHYSRYGICKFGPACRFDHS 411 689********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	3.01E-6	88	116	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	8.5E-7	88	115	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.291	88	116	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.8E-10	91	114	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	7.7E-5	94	113	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.915	138	166	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.57E-5	139	166	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0079	139	165	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.3E-5	144	164	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.5E-7	144	163	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	9.8E-6	184	211	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.709	184	212	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.3E-9	187	210	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.7E-5	188	211	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	8.4E-4	190	209	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.699	332	360	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.54	332	359	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.436	385	413	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.4E-5	386	412	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.31E-5	387	412	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.5E-8	388	411	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.6E-4	390	412	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: 441 aa Download sequence Send to blast
MIGISGSISD GVETEPVSGS PSDLNQAADV VVLSNEFQNV VLDEVSKDGK KMMSVSEGDG 60 KALEEEVEEE DCVSEEEDEG QVLLYPVRPG AEDCAFYMKT GSCKFGSTCK FNHPLPNPSK 120 IQIAKETKVT EKEEDADKMR LMDCKYYFRT GGCKYGLTCR FNHTKPKSDV TSPPELNFLG 180 LPIRPGEIEC LFYMRNGSCK FGADCKFNHP DPTTLGGTDS PSFHGNNNGG SIGSFSPKNT 240 FQPSSASWSS PRHSNGTAPF IPSMLSQSRG ASSQTPEWNG YQAATTTMYP SERSVFSTST 300 TYLMNNNNNS AAETSIFTPY KYQKPAEEFP ERPDQPECSY YLKTGDCKFK FTCKYHHPKN 360 RLPKQPPYAL NDKGLPLRPV SFPSASDQVI CTHYSRYGIC KFGPACRFDH SIQLPDSTGS 420 SHAVVEPPQV GANGNESDGW N

Sequence ? help Back to Top

Protein Sequence Length: 441 aa Download sequence Send to blast

MIGISGSISD GVETEPVSGS PSDLNQAADV VVLSNEFQNV VLDEVSKDGK KMMSVSEGDG  60
KALEEEVEEE DCVSEEEDEG QVLLYPVRPG AEDCAFYMKT GSCKFGSTCK FNHPLPNPSK  120
IQIAKETKVT EKEEDADKMR LMDCKYYFRT GGCKYGLTCR FNHTKPKSDV TSPPELNFLG  180
LPIRPGEIEC LFYMRNGSCK FGADCKFNHP DPTTLGGTDS PSFHGNNNGG SIGSFSPKNT  240
FQPSSASWSS PRHSNGTAPF IPSMLSQSRG ASSQTPEWNG YQAATTTMYP SERSVFSTST  300
TYLMNNNNNS AAETSIFTPY KYQKPAEEFP ERPDQPECSY YLKTGDCKFK FTCKYHHPKN  360
RLPKQPPYAL NDKGLPLRPV SFPSASDQVI CTHYSRYGIC KFGPACRFDH SIQLPDSTGS  420
SHAVVEPPQV GANGNESDGW N

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018441572.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 43
Swissprot	Q9STM4	0.0	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	A0A397YYD9	0.0	A0A397YYD9_BRACM; Uncharacterized protein
STRING	Bo8g076940.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4176	27	58

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48440.1	0.0	C3H family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546]