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

Carubv10003204m

Common Name

CARUB_v10003204mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

HB-other

Protein Properties

Length: 875aa MW: 97099 Da PI: 8.6498

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10003204m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	18.1	4.7e-06	66	122	1	57
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 +r+R ++++ ++ L+++F+ + +s++e +e+++ g+t +qV+ +F ++++ ++ Carubv10003204m 66 KRPRDLLNPKAVKYLQAVFAVKDAISKRESREISALFGITVAQVREFFVTQKTRVRR 122 799*********************************************999999886 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	9.653	63	123	IPR001356	Homeobox domain
SuperFamily	SSF46689	8.55E-6	64	125	IPR009057	Homeodomain-like
SMART	SM00389	8.5E-5	65	127	IPR001356	Homeobox domain
CDD	cd00086	0.0011	66	123	No hit	No description
Gene3D	G3DSA:1.10.10.60	1.4E-4	66	125	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.20.930.10	1.7E-4	228	322	IPR017923	Transcription factor IIS, N-terminal
SuperFamily	SSF47676	3.92E-5	231	324	IPR017923	Transcription factor IIS, N-terminal

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006351	Biological Process	transcription, DNA-templated
GO:0009911	Biological Process	positive regulation of flower development
GO:0010228	Biological Process	vegetative to reproductive phase transition of meristem
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 875 aa Download sequence Send to blast
MDAFNEEIEI GSSVESLMEL LDSQKVLFHS QINQLQDVVV TQCKLTGVNP LAQEMAAGAL 60 SINIGKRPRD LLNPKAVKYL QAVFAVKDAI SKRESREISA LFGITVAQVR EFFVTQKTRV 120 RRQVRLSREK VILSNTDALQ GDGVPEDNNG TNHVDPVPLN SIHPEACSIS WSAAETVALI 180 PPEDIPPDIS DSDKYFVENI FALLRKEESF SGQVKLMEWI MQIQDSSVLI WFLSKGGVLI 240 LTTWLSQAAV EEQTSVILLI LKVLCHLPLH KASPENMSAI LQSVNGLRFY RTSDISNRAK 300 GLLSRWTKLF AKIQAMKKQN RNNSQIDSQS QLLLKQSIAE IMGDSSNPED ILSLSNGRSE 360 NVRRFESSQG PKLLLTSADD STKKHMLGST PSYNKERRKV QMVEQPGQKA AGKSPQTVRI 420 GTSSRSRPMS ADDIQKAKMR ALFMQSKNSK KDPLPSAIGD SRTIVPEKPL ALESSKDFPP 480 SQNNEAKTED TYVPLAVQPV NGPAVIVKFS AGMVLDEVWR VATGGNSKEA DVQRNRNRRE 540 RETTYQSLQT IPLNPKEPWD REMDFDDTLT PEIPSQQPPD ESITEPQNSL DERRTAASAA 600 TTSSSLSSPE PDLELLAALL KNPDLVYALT SGKPSNLAGQ DMVKLLDVIK TGAPNSSSSS 660 NKQAEEKVEV SLPSPTPSTN PGMSGWGQEA IRNPFSRQKQ VGAPVARLVT QHHVTNSMQW 720 QSTNEQAIPR HATAAYNNSL ILPHTERQQQ QHMQPQLHHN HHLQQQPMST TSYGVREPVG 780 QMGTATLGSW RLQQSQNSYY SHQANDVASV SQSSSYQGNN QYMSSSNPGY ESWSPDHSPS 840 RNHPNIRGGQ QQQQPSRKHD SSSHPYWNQN KRWR*

Sequence ? help Back to Top

Protein Sequence Length: 875 aa Download sequence Send to blast

MDAFNEEIEI GSSVESLMEL LDSQKVLFHS QINQLQDVVV TQCKLTGVNP LAQEMAAGAL  60
SINIGKRPRD LLNPKAVKYL QAVFAVKDAI SKRESREISA LFGITVAQVR EFFVTQKTRV  120
RRQVRLSREK VILSNTDALQ GDGVPEDNNG TNHVDPVPLN SIHPEACSIS WSAAETVALI  180
PPEDIPPDIS DSDKYFVENI FALLRKEESF SGQVKLMEWI MQIQDSSVLI WFLSKGGVLI  240
LTTWLSQAAV EEQTSVILLI LKVLCHLPLH KASPENMSAI LQSVNGLRFY RTSDISNRAK  300
GLLSRWTKLF AKIQAMKKQN RNNSQIDSQS QLLLKQSIAE IMGDSSNPED ILSLSNGRSE  360
NVRRFESSQG PKLLLTSADD STKKHMLGST PSYNKERRKV QMVEQPGQKA AGKSPQTVRI  420
GTSSRSRPMS ADDIQKAKMR ALFMQSKNSK KDPLPSAIGD SRTIVPEKPL ALESSKDFPP  480
SQNNEAKTED TYVPLAVQPV NGPAVIVKFS AGMVLDEVWR VATGGNSKEA DVQRNRNRRE  540
RETTYQSLQT IPLNPKEPWD REMDFDDTLT PEIPSQQPPD ESITEPQNSL DERRTAASAA  600
TTSSSLSSPE PDLELLAALL KNPDLVYALT SGKPSNLAGQ DMVKLLDVIK TGAPNSSSSS  660
NKQAEEKVEV SLPSPTPSTN PGMSGWGQEA IRNPFSRQKQ VGAPVARLVT QHHVTNSMQW  720
QSTNEQAIPR HATAAYNNSL ILPHTERQQQ QHMQPQLHHN HHLQQQPMST TSYGVREPVG  780
QMGTATLGSW RLQQSQNSYY SHQANDVASV SQSSSYQGNN QYMSSSNPGY ESWSPDHSPS  840
RNHPNIRGGQ QQQQPSRKHD SSSHPYWNQN KRWR*

Functional Description ? help Back to Top
Source	Description
UniProt	Seems to play a role in the regulation of flowering time in the autonomous flowering pathway by repressing FLOWERING LOCUS C expression. {ECO:0000269\|PubMed:10363371}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10003204m

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	AK226746	0.0	AK226746.1 Arabidopsis thaliana mRNA for luminidependens protein, complete cds, clone: RAFL07-75-C15.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023636982.1	0.0	homeobox protein LUMINIDEPENDENS
Swissprot	Q38796	0.0	LUMI_ARATH; Homeobox protein LUMINIDEPENDENS
TrEMBL	R0H024	0.0	R0H024_9BRAS; Uncharacterized protein
STRING	XP_006289646.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10876	24	28

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G02560.2	0.0	HB-other family protein

Link Out ? help Back to Top
Phytozome	Carubv10003204m
Entrez Gene	17881209

Publications ? help Back to Top
Chakrabortee S, et al. Luminidependens (LD) is an Arabidopsis protein with prion behavior. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(21): p. 6065-70 [PMID:27114519]