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_013623284.1

Organism

Brassica oleracea

Taxonomic ID

3712

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 444aa MW: 47287 Da PI: 8.0154

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013623284.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	37.8	3.3e-12	52	76	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++ C +++rtG C yG+rC+F+H++ XP_013623284.1 52 EPDCIYYLRTGVCGYGSRCRFNHPR 76 799********************96 PP
2	zf-CCCH	36.4	8.8e-12	95	119	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++ C++f+rtGtC++G++Ck++H++ XP_013623284.1 95 HPVCQHFMRTGTCQFGASCKYHHPR 119 789********************96 PP
3	zf-CCCH	39	1.4e-12	140	164	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C++++rtG+Ck+G +C+F+H+ XP_013623284.1 140 GEKECSYYMRTGQCKFGLTCRFNHP 164 5789********************9 PP
4	zf-CCCH	39.7	7.9e-13	298	323	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 ++++C++f+rtG Ck+G++C+++H+p XP_013623284.1 298 DQPECQYFMRTGDCKFGSSCRYHHPP 323 689*********************97 PP
5	zf-CCCH	25.4	2.4e-08	346	370	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 + + C +fa+ +Ck+G+ CkF H+ XP_013623284.1 346 GVAQCTHFAQHEICKFGPACKFDHS 370 6788****99**********8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	1.7E-4	49	76	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.882	49	77	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.3E-9	52	76	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.27E-6	54	77	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.9E-5	55	76	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.234	92	120	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.6E-5	92	119	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.35E-6	93	119	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.6E-9	94	119	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.3E-5	97	119	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.051	138	166	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	8.3E-6	138	165	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.44E-5	140	165	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.4E-10	140	164	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.2E-4	144	163	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.042	296	324	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	6.8E-6	296	323	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.8E-10	298	323	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	9.29E-6	299	323	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.2E-4	302	321	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.324	344	372	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.11	344	371	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.5E-6	346	370	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	5.1E-5	347	372	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: 444 aa Download sequence Send to blast
MDRYGRAGEE GSRSDPLIQW TSHGVETSMG RLALSGGGGG GGGESYPERS DEPDCIYYLR 60 TGVCGYGSRC RFNHPRDRGA VIGGGDGVLP ERMGHPVCQH FMRTGTCQFG ASCKYHHPRQ 120 GGASVAPVSL SYMGYPLRSG EKECSYYMRT GQCKFGLTCR FNHPVPLQLQ PQQQQRQPQP 180 QLQSIYPTLQ SQPMPSSQQY GLVLSRPSLL PGSYLPSPYG GPPPMVMPPG MATYPSWNPY 240 QASLTAMPSP GTQPSIGSSS VYGMASLSPS GTAYTGTYQS GGPSLTTSKG ESFPQRPDQP 300 ECQYFMRTGD CKFGSSCRYH HPPLDALLQP KTGVLLSSIG LPLRPGVAQC THFAQHEICK 360 FGPACKFDHS TSSSLSYSPS ASSLTNMPVA PYPIGSSAPI SSSNEPTTAA VTAVVSSPMV 420 SGLSQQEPAE TSCDSVIEAK TSSS

Sequence ? help Back to Top

Protein Sequence Length: 444 aa Download sequence Send to blast

MDRYGRAGEE GSRSDPLIQW TSHGVETSMG RLALSGGGGG GGGESYPERS DEPDCIYYLR  60
TGVCGYGSRC RFNHPRDRGA VIGGGDGVLP ERMGHPVCQH FMRTGTCQFG ASCKYHHPRQ  120
GGASVAPVSL SYMGYPLRSG EKECSYYMRT GQCKFGLTCR FNHPVPLQLQ PQQQQRQPQP  180
QLQSIYPTLQ SQPMPSSQQY GLVLSRPSLL PGSYLPSPYG GPPPMVMPPG MATYPSWNPY  240
QASLTAMPSP GTQPSIGSSS VYGMASLSPS GTAYTGTYQS GGPSLTTSKG ESFPQRPDQP  300
ECQYFMRTGD CKFGSSCRYH HPPLDALLQP KTGVLLSSIG LPLRPGVAQC THFAQHEICK  360
FGPACKFDHS TSSSLSYSPS ASSLTNMPVA PYPIGSSAPI SSSNEPTTAA VTAVVSSPMV  420
SGLSQQEPAE TSCDSVIEAK TSSS

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013623284.1

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_013623284.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 34-like
Swissprot	Q9SQU4	0.0	C3H34_ARATH; Zinc finger CCCH domain-containing protein 34
TrEMBL	A0A0D3AFB5	0.0	A0A0D3AFB5_BRAOL; Uncharacterized protein
STRING	Bo1g148950.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1779	27	86

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G06410.1	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]