PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Crotonoideae; Manihoteae; Manihot

Family

Protein Properties

Length: 361aa MW: 41489.5 Da PI: 9.443

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Manes.17G096200.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	41.8	2e-13	6	96	2	98
EEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS B3 2 fkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 f +l+ s++ + + l++p +f++++g++ s +l + g +W v l k ++++++ +GW+eF + +++g f+vF+++g+ f + Manes.17G096200.1.p 6 FHKLILSNTIRDKKLRIPDNFVKKFGND--LSAFGRLSVPGGPVWPVGL--IKADDKFWFHEGWQEFMERYSIRVGYFLVFRYEGHAVF--T 91 56677899999999*********877..777899*********..9*****************************998888..8 PP EEEE- CS B3 94 vkvfr 98 v++f+ Manes.17G096200.1.p 92 VHIFN 96 88885 PP
2	B3	56.5	5.2e-18	259	349	4	98
E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS B3 4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 vl ps+ + ++++lp fae++ +g++ ++l+ +g++W v++ yr+++ l++GW eF +n+L egD+++F+l+++++ l Manes.17G096200.1.p 259 VLRPSYLYRGCIMYLPSCFAEKNlNGVSG---FIKLQLCDGKQWPVRCLYRGGR--AKLSQGWYEFTLENNLGEGDVCIFELMRSRDIVL 343 78899****************866743...48888999****665555..66***********************9999999 PP EEEEE- CS B3 93 vvkvfr 98 +v+vfr Manes.17G096200.1.p 344 KVTVFR 349 999998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	7.85E-21	3	97	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	6.6E-21	3	98	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.13E-16	4	96	No hit	No description
PROSITE profile	PS50863	12.52	5	98	IPR003340	B3 DNA binding domain
SMART	SM01019	7.0E-12	6	98	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.2E-10	7	96	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	2.5E-23	248	349	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.28E-23	250	349	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	7.37E-22	254	349	No hit	No description
PROSITE profile	PS50863	13.267	256	351	IPR003340	B3 DNA binding domain
SMART	SM01019	1.0E-18	256	351	IPR003340	B3 DNA binding domain
Pfam	PF02362	4.9E-16	259	349	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: 361 aa Download sequence Send to blast
MPRPYFHKLI LSNTIRDKKL RIPDNFVKKF GNDLSAFGRL SVPGGPVWPV GLIKADDKFW 60 FHEGWQEFME RYSIRVGYFL VFRYEGHAVF TVHIFNLSAS EINYQSNALS GRRFLAFEEM 120 GDDDFVEYLS SSSPYLLPNS LKRNVLLSKG DSISQVTNQA TRDVGVQFNA IEMKNYADDV 180 KFYVPDGEIQ KPKKQGRKKR KIDPNEQQPP ASQEDEAEMR FRFYESASAR KRTVTAEERE 240 RAINAAKAFE PINPFCRVVL RPSYLYRGCI MYLPSCFAEK NLNGVSGFIK LQLCDGKQWP 300 VRCLYRGGRA KLSQGWYEFT LENNLGEGDV CIFELMRSRD IVLKVTVFRV LESAGLVNRP 360 *

Sequence ? help Back to Top

Protein Sequence Length: 361 aa Download sequence Send to blast

MPRPYFHKLI LSNTIRDKKL RIPDNFVKKF GNDLSAFGRL SVPGGPVWPV GLIKADDKFW  60
FHEGWQEFME RYSIRVGYFL VFRYEGHAVF TVHIFNLSAS EINYQSNALS GRRFLAFEEM  120
GDDDFVEYLS SSSPYLLPNS LKRNVLLSKG DSISQVTNQA TRDVGVQFNA IEMKNYADDV  180
KFYVPDGEIQ KPKKQGRKKR KIDPNEQQPP ASQEDEAEMR FRFYESASAR KRTVTAEERE  240
RAINAAKAFE PINPFCRVVL RPSYLYRGCI MYLPSCFAEK NLNGVSGFIK LQLCDGKQWP  300
VRCLYRGGRA KLSQGWYEFT LENNLGEGDV CIFELMRSRD IVLKVTVFRV LESAGLVNRP  360
*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4i1k_A	2e-74	222	352	15	144	B3 domain-containing transcription factor VRN1
4i1k_B	2e-74	222	352	15	144	B3 domain-containing transcription factor VRN1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	191	200	PKKQGRKKRK

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	Manes.17G096200.1.p

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_021599860.1	0.0	B3 domain-containing transcription factor VRN1-like isoform X2
Swissprot	Q8L3W1	1e-141	VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBL	A0A2C9U6Q9	0.0	A0A2C9U6Q9_MANES; Uncharacterized protein
STRING	cassava4.1_010446m	0.0	(Manihot esculenta)

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-132	B3 family protein

Link Out ? help Back to Top
Phytozome	Manes.17G096200.1.p

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]