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_013616843.1

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: 419aa MW: 44925.6 Da PI: 8.9371

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013616843.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	36.3	9.4e-12	19	44	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 +++ C +++rtG C yG+rC+F+H++ XP_013616843.1 19 DEPDCVYYLRTGVCGYGSRCRFNHPR 44 6899********************96 PP
2	zf-CCCH	37.8	3.3e-12	65	90	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 +++ C++f+rtGtC++G++Ck++H++ XP_013616843.1 65 GQPVCQHFMRTGTCRFGASCKYHHPR 90 5789********************96 PP
3	zf-CCCH	40	6.5e-13	113	137	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C++++rtG+Ck+G++C+F+H+ XP_013616843.1 113 GEKECSYYMRTGQCKFGSTCRFHHP 137 7899********************9 PP
4	zf-CCCH	41.2	2.7e-13	264	289	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 +++++C++f+rtG Ck+G++C+F+H+ XP_013616843.1 264 PGQPECQYFMRTGDCKFGNSCRFHHP 289 5789*********************9 PP
5	zf-CCCH	36.4	9e-12	309	335	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 ++t++C++fa+ G Ck+G+ CkF H++ XP_013616843.1 309 PGTAPCSHFAQHGVCKFGPACKFDHSM 335 68***********************85 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	14.211	17	45	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.8E-5	17	44	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.5E-8	19	44	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.49E-6	21	46	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.3E-5	23	44	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.9E-6	63	90	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.305	63	91	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.22E-6	65	91	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.2E-10	65	90	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.8E-5	68	90	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.3E-6	111	138	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.356	111	139	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.2E-10	113	137	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.96E-6	114	138	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.2E-4	117	136	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.7E-7	263	290	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.07	263	291	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.0E-10	265	289	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.01E-6	267	291	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.0E-5	269	289	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.79E-6	307	336	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.615	308	336	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.9E-6	308	335	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.0E-9	309	334	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.7E-5	311	334	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: 419 aa Download sequence Send to blast
MWRLGLRGGG GESYPERPDE PDCVYYLRTG VCGYGSRCRF NHPRNRAPVL GGLRTEAGEF 60 PERMGQPVCQ HFMRTGTCRF GASCKYHHPR QGGRDSFTTP TSLSYMGLPL RPGEKECSYY 120 MRTGQCKFGS TCRFHHPVPP GVQAPSLHQL STSPGPAIYP PLQSQSVPAS QQFGVAIPRP 180 QLLQGSYVQS PYGTYNQMVL PPPGMIPYSG WNPYQASISA MPSPGTQPSM VSSSVYGIRP 240 LSPPVPAYPS GPSSNKEQSF PQRPGQPECQ YFMRTGDCKF GNSCRFHHPL EAASPKGVTL 300 SQIGLPIRPG TAPCSHFAQH GVCKFGPACK FDHSMGTSSL TYSPSASSLT GMPVTPYPLG 360 SSSLGISAPS SSSSLSDQRI ELHSSSSVKP TNTTTGGSEI LAAETKNGDS ASIEVKTSS

Sequence ? help Back to Top

Protein Sequence Length: 419 aa Download sequence Send to blast

MWRLGLRGGG GESYPERPDE PDCVYYLRTG VCGYGSRCRF NHPRNRAPVL GGLRTEAGEF  60
PERMGQPVCQ HFMRTGTCRF GASCKYHHPR QGGRDSFTTP TSLSYMGLPL RPGEKECSYY  120
MRTGQCKFGS TCRFHHPVPP GVQAPSLHQL STSPGPAIYP PLQSQSVPAS QQFGVAIPRP  180
QLLQGSYVQS PYGTYNQMVL PPPGMIPYSG WNPYQASISA MPSPGTQPSM VSSSVYGIRP  240
LSPPVPAYPS GPSSNKEQSF PQRPGQPECQ YFMRTGDCKF GNSCRFHHPL EAASPKGVTL  300
SQIGLPIRPG TAPCSHFAQH GVCKFGPACK FDHSMGTSSL TYSPSASSLT GMPVTPYPLG  360
SSSLGISAPS SSSSLSDQRI ELHSSSSVKP TNTTTGGSEI LAAETKNGDS ASIEVKTSS

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013616843.1

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_013616843.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 58-like
Swissprot	Q6NPN3	0.0	C3H58_ARATH; Zinc finger CCCH domain-containing protein 58
TrEMBL	A0A0D3AJS6	0.0	A0A0D3AJS6_BRAOL; Uncharacterized protein
STRING	Bo2g016570.1	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
AT5G18550.1	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]