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; Cicereae; Cicer

Family

Protein Properties

Length: 436aa MW: 49106.6 Da PI: 8.976

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_004507368.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	56.4	5.3e-18	7	96	2	98
EEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS B3 2 fkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 k + +++l+ ++l+lp +f++++gg+ s +tl+ ++g +W+v l +k+++++++++GW+eFv+ + +g ++F+++g+s+f +v +f+ XP_004507368.1 7 HKLVL-PSTLQAKQLRLPDNFMRKYGGQ--ISPIVTLTVPDGSVWRVGL--KKSDNKFWFRDGWNEFVHRYSISTGYLLLFRYEGKSSF--NVNIFS 96 44444.45555567*********888..6679***********..*******************************99999..888875 PP
2	B3	58.5	1.2e-18	305	395	4	98
E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE CS B3 4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvf 97 vl ps+ + ++++lp fae+h +g++ ++l+ ++gr+W v++ yr+++ l++GW eF +n+L egD++vF+l g+++ l v+vf XP_004507368.1 305 VLRPSYLYRGCIMYLPSCFAEKHlNGVSG---FIKLQISDGRQWPVRCLYRGGR--AKLSQGWFEFSLENNLGEGDVCVFELLGTKDVVLQVTVF 394 78899****************877743...59999*******665555..66*************************9999999999 PP - CS B3 98 r 98 r XP_004507368.1 395 R 395 8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	2.16E-22	3	96	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.8E-23	3	96	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.97E-19	4	96	No hit	No description
PROSITE profile	PS50863	13.422	5	98	IPR003340	B3 DNA binding domain
SMART	SM01019	5.4E-19	6	98	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.5E-15	9	96	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	6.3E-25	294	396	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	3.73E-25	295	396	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	9.80E-23	300	395	No hit	No description
SMART	SM01019	8.8E-17	302	397	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.831	302	397	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.7E-16	305	395	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: 436 aa Download sequence Send to blast
MPCPSFHKLV LPSTLQAKQL RLPDNFMRKY GGQISPIVTL TVPDGSVWRV GLKKSDNKFW 60 FRDGWNEFVH RYSISTGYLL LFRYEGKSSF NVNIFSLATS EINYQSSTAQ SSKEGPYYAK 120 CLKIFEELED EDSIELLDSM PSKLTPGPLQ NKAFSGSADK FTPGKSHSPP ALQNLFNASK 180 LNSINWGDGG NTLSSRSANS VDNHLTRDIG LQFNVVEFKK STEEVKLRAA IDEKVKKSAT 240 KKRKSVCEST DVQEPSSDHE DEVEMRNRFY ESASARKRTV TAEEREKAIN AAKEFEPTNP 300 FCRVVLRPSY LYRGCIMYLP SCFAEKHLNG VSGFIKLQIS DGRQWPVRCL YRGGRAKLSQ 360 GWFEFSLENN LGEGDVCVFE LLGTKDVVLQ VTVFRITGDE GPLSPPPLQQ NQHVRPAKLL 420 TSPFQHHLTS TKLHGN

Sequence ? help Back to Top

Protein Sequence Length: 436 aa Download sequence Send to blast

MPCPSFHKLV LPSTLQAKQL RLPDNFMRKY GGQISPIVTL TVPDGSVWRV GLKKSDNKFW  60
FRDGWNEFVH RYSISTGYLL LFRYEGKSSF NVNIFSLATS EINYQSSTAQ SSKEGPYYAK  120
CLKIFEELED EDSIELLDSM PSKLTPGPLQ NKAFSGSADK FTPGKSHSPP ALQNLFNASK  180
LNSINWGDGG NTLSSRSANS VDNHLTRDIG LQFNVVEFKK STEEVKLRAA IDEKVKKSAT  240
KKRKSVCEST DVQEPSSDHE DEVEMRNRFY ESASARKRTV TAEEREKAIN AAKEFEPTNP  300
FCRVVLRPSY LYRGCIMYLP SCFAEKHLNG VSGFIKLQIS DGRQWPVRCL YRGGRAKLSQ  360
GWFEFSLENN LGEGDVCVFE LLGTKDVVLQ VTVFRITGDE GPLSPPPLQQ NQHVRPAKLL  420
TSPFQHHLTS TKLHGN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4i1k_A	2e-72	268	396	15	142	B3 domain-containing transcription factor VRN1
4i1k_B	2e-72	268	396	15	142	B3 domain-containing transcription factor VRN1
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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	XP_004507368.1

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_004507368.1	0.0	B3 domain-containing transcription factor VRN1-like isoform X1
Swissprot	Q8L3W1	1e-129	VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBL	A0A1S2YNC4	0.0	A0A1S2YNC4_CICAR; B3 domain-containing transcription factor VRN1-like isoform X1
STRING	XP_004507368.1	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
AT1G49480.1	2e-75	related to vernalization1 1

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]