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_013599555.1

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: 429aa MW: 47199.5 Da PI: 5.8065

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013599555.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	39.7	8e-13	91	114	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 e C f++rtG Ck+G++CkF+H+ XP_013599555.1 91 AEDCAFYMRTGSCKFGSTCKFNHP 114 689********************9 PP
2	zf-CCCH	28.9	1.9e-09	144	163	6	25
-SGGGGTS--TTTTT-SS-S CS zf-CCCH 6 CrffartGtCkyGdrCkFaH 25 C++++rtG CkyG +C+F+H XP_013599555.1 144 CKYYFRTGGCKYGLTCRFNH 163 ******************** PP
3	zf-CCCH	35.9	1.2e-11	188	211	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 + +C f++r+G Ck+G+ CkF+H+ XP_013599555.1 188 EIECLFYMRNGSCKFGADCKFNHP 211 568********************9 PP
4	zf-CCCH	19.6	1.6e-06	329	354	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 +++ C+++++tG Ck+ +Ck++H++ XP_013599555.1 329 DQPDCSYYLKTGDCKFKFTCKYHHPK 354 6899********************96 PP
5	zf-CCCH	35.6	1.6e-11	375	399	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C +++r+G+Ck+G+ C+F H+ XP_013599555.1 375 DQVICTHYSRYGICKFGPACRFDHS 399 6799********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	15.272	88	116	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	7.6E-7	88	115	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.53E-6	89	116	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.1E-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	1.3E-5	139	167	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0079	139	165	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.3E-7	144	163	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.2E-5	144	164	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.709	185	213	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	9.8E-6	185	212	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.2E-9	188	211	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.7E-5	189	212	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	8.1E-4	191	210	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.793	327	355	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.41	327	354	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.981	373	401	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.6E-5	373	400	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.23E-5	375	400	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.0E-8	375	399	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.7E-4	378	400	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: 429 aa Download sequence Send to blast
MIGISGSIAR DGLETEPVSR SPSLADGSPP SDLNHAADVL SKELKNVGLD EEKMTSVPGG 60 VDSKALEEEE EEEDGVSENE SEALYPVRPG AEDCAFYMRT GSCKFGSTCK FNHPLPNPTN 120 IQIARESKVR EKEEDADKMR LMDCKYYFRT GGCKYGLTCR FNHTKPNSDV PPSAPELNFL 180 GLPIRPGEIE CLFYMRNGSC KFGADCKFNH PDPTTLGGTD SPSFHGNNGG SIGSFSPKST 240 FQPSSTSWSS PRHANGTAPF IPSMLSQSRG ASSQAPEWIG YQGTTMYPSE RSVFSTSTTY 300 LMNYSSAETS IFTPYKYQKP AEEFPERPDQ PDCSYYLKTG DCKFKFTCKY HHPKNRLPKQ 360 PPFALNDKGL PLRPDQVICT HYSRYGICKF GPACRFDHSI QLPDSTGSSH AVVEPPQLGA 420 NGNESDGWN

Sequence ? help Back to Top

Protein Sequence Length: 429 aa Download sequence Send to blast

MIGISGSIAR DGLETEPVSR SPSLADGSPP SDLNHAADVL SKELKNVGLD EEKMTSVPGG  60
VDSKALEEEE EEEDGVSENE SEALYPVRPG AEDCAFYMRT GSCKFGSTCK FNHPLPNPTN  120
IQIARESKVR EKEEDADKMR LMDCKYYFRT GGCKYGLTCR FNHTKPNSDV PPSAPELNFL  180
GLPIRPGEIE CLFYMRNGSC KFGADCKFNH PDPTTLGGTD SPSFHGNNGG SIGSFSPKST  240
FQPSSTSWSS PRHANGTAPF IPSMLSQSRG ASSQAPEWIG YQGTTMYPSE RSVFSTSTTY  300
LMNYSSAETS IFTPYKYQKP AEEFPERPDQ PDCSYYLKTG DCKFKFTCKY HHPKNRLPKQ  360
PPFALNDKGL PLRPDQVICT HYSRYGICKF GPACRFDHSI QLPDSTGSSH AVVEPPQLGA  420
NGNESDGWN

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013599555.1

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_013599555.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 43
Swissprot	Q9STM4	0.0	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	A0A0D3DRD5	0.0	A0A0D3DRD5_BRAOL; 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]