PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium

Family

Protein Properties

Length: 424aa MW: 48139.4 Da PI: 9.162

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp57577_TGAC_v2_mRNA19264	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	54	3.1e-17	11	96	5	97
-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS B3 5 ltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 + + +l+s++l++p +f+++hg++ s t++ ++g +W++ l +k ++r++l++GW+eFv+ + g f+vF+++g+s+f Tp57577_TGAC_v2_mRNA19264 11 IL-PTTLQSRQLRIPDNFLKKHGSQ--LSSYATVTVPDGAVWRIGL--KKVDNRIWLSDGWQEFVQRYSIGIGYFLVFMYEGNSTF 91 43.45566778*********988..77789999*******..********************************9999 PP ..EEEEE CS B3 91 elvvkvf 97 v++f Tp57577_TGAC_v2_mRNA19264 92 --IVHMF 96 ..88877 PP
2	B3	58.1	1.6e-18	292	382	4	98
E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS B3 4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 vl ps+ + ++++lp fae++ +g++ ++l++++ r+W v++ yr+++ l++GW eF +n+L egD++vF+l + Tp57577_TGAC_v2_mRNA19264 292 VLRPSYLYRGCIMYLPSCFAEKNlNGVSG---FIKLQTTDARQWPVRCLYRGGR--AKLSQGWYEFTVENNLGEGDVCVFELLR 370 78899****************877743...5***********665555..66**********************99 PP SSEE..EEEEE- CS B3 87 rsefelvvkvfr 98 +++ l v++fr Tp57577_TGAC_v2_mRNA19264 371 TRDVVLQVTLFR 382 999989999988 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	8.5E-23	2	99	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.0E-23	3	98	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.54E-18	5	97	No hit	No description
PROSITE profile	PS50863	13.169	6	99	IPR003340	B3 DNA binding domain
SMART	SM01019	1.5E-17	7	99	IPR003340	B3 DNA binding domain
Pfam	PF02362	6.7E-15	13	97	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	1.4E-23	281	382	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	9.68E-24	282	383	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.45E-21	287	382	No hit	No description
SMART	SM01019	5.7E-20	289	384	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.789	289	384	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.7E-16	292	382	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009909	Biological Process	regulation of flower development
GO:0010048	Biological Process	vernalization response
GO:0005654	Cellular Component	nucleoplasm
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 424 aa Download sequence Send to blast
MSTRPSFHKI ILPTTLQSRQ LRIPDNFLKK HGSQLSSYAT VTVPDGAVWR IGLKKVDNRI 60 WLSDGWQEFV QRYSIGIGYF LVFMYEGNST FIVHMFNMST AELNYQSTMR SHNEGYSNYL 120 PIFGEMEDID SFEFLDSSPS NLTPGAMDQL TPGKNHTPSL QNLFNGGSKL NRVNWGDIGG 180 TLSSKVAIQS TKDVGVQFNA NEFKKSTEEV KLRYTNEDGL NNSDTKKTPR RKRKLDPSAQ 240 EAAAENDEDG DIRYRFYESA SARKRIVTAE ERERAINEAK TFEPTNPFCR VVLRPSYLYR 300 GCIMYLPSCF AEKNLNGVSG FIKLQTTDAR QWPVRCLYRG GRAKLSQGWY EFTVENNLGE 360 GDVCVFELLR TRDVVLQVTL FRVKEDESGL FNPSMQPIQN VSHAKLLNPH LQHRVSSTKS 420 AKV*

Sequence ? help Back to Top

Protein Sequence Length: 424 aa Download sequence Send to blast

MSTRPSFHKI ILPTTLQSRQ LRIPDNFLKK HGSQLSSYAT VTVPDGAVWR IGLKKVDNRI  60
WLSDGWQEFV QRYSIGIGYF LVFMYEGNST FIVHMFNMST AELNYQSTMR SHNEGYSNYL  120
PIFGEMEDID SFEFLDSSPS NLTPGAMDQL TPGKNHTPSL QNLFNGGSKL NRVNWGDIGG  180
TLSSKVAIQS TKDVGVQFNA NEFKKSTEEV KLRYTNEDGL NNSDTKKTPR RKRKLDPSAQ  240
EAAAENDEDG DIRYRFYESA SARKRIVTAE ERERAINEAK TFEPTNPFCR VVLRPSYLYR  300
GCIMYLPSCF AEKNLNGVSG FIKLQTTDAR QWPVRCLYRG GRAKLSQGWY EFTVENNLGE  360
GDVCVFELLR TRDVVLQVTL FRVKEDESGL FNPSMQPIQN VSHAKLLNPH LQHRVSSTKS  420
AKV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4i1k_A	5e-74	255	385	15	144	B3 domain-containing transcription factor VRN1
4i1k_B	5e-74	255	385	15	144	B3 domain-containing transcription factor VRN1
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	228	234	PRRKRKL

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in the regulation of vernalization. Acts as transcriptional repressor of FLC, a major target of the vernalization pathway. Binds DNA in vitro in a non-sequence-specific manner. {ECO:0000269\|PubMed:12114624}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp57577_TGAC_v2_mRNA19264

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_013466718.1	0.0	B3 domain-containing transcription factor VRN1
Swissprot	Q8L3W1	1e-128	VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBL	A0A2K3MX92	0.0	A0A2K3MX92_TRIPR; B3 domain-containing transcription factor vrn1-like protein
STRING	XP_004498177.1	0.0	(Cicer arietinum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2147	34	85

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G18990.1	1e-130	B3 family protein

Link Out ? help Back to Top
Phytozome	Tp57577_TGAC_v2_mRNA19264

Publications ? help Back to Top
Mantegazza O, et al. Analysis of the arabidopsis REM gene family predicts functions during flower development. Ann. Bot., 2014. 114(7): p. 1507-15 [PMID:25002525] Kumar A,Singh A,Panigrahy M,Sahoo PK,Panigrahi KCS Carbon nanoparticles influence photomorphogenesis and flowering time in Arabidopsis thaliana. Plant Cell Rep., 2018. 37(6): p. 901-912 [PMID:29541883]