PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

Protein Properties

Length: 342aa MW: 39294.7 Da PI: 9.0741

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D01G0054	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	51.1	2.4e-16	5	95	1	97
EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvf 97 ff +l+ s++l+ + l++p +f+++++ + s+ l+ ++g +W+v + rk+++++++++GW eF + ++ g f++F+++g+s f v++f Gh_D01G0054 5 FFHKLILSSTLQDKKLRIPDNFVKKFKDE--LSVAAALTVPDGHVWRVGI--RKGDNKVWFQEGWPEFLDRYYIRIGYFLIFRYEGNSAF--SVSIF 95 8899999**************999755..99*************..********************************9999..88887 PP
2	B3	62	9.9e-20	248	337	4	98
E-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS B3 4 vltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 vl ps+ + ++++lp fae+ +g++ ++l+ ++g++W+v++ yr+++ + +++GW eF +n+L egD++vF+l +++ef l+v+vfr Gh_D01G0054 248 VLRPSYLYRGCIMYLPSCFAEHLSGVSG---FIKLQLPDGKQWSVRCLYRGGKAK--FSQGWYEFTVENNLGEGDVCVFELLRSREFVLKVTVFR 337 78899*************88888854...4***********77777755..89******************999*******98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	7.2E-21	3	96	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	5.69E-20	3	96	IPR015300	DNA-binding pseudobarrel domain
Pfam	PF02362	1.8E-13	5	95	IPR003340	B3 DNA binding domain
CDD	cd10017	9.56E-17	5	96	No hit	No description
PROSITE profile	PS50863	13.352	5	98	IPR003340	B3 DNA binding domain
SMART	SM01019	3.3E-13	6	98	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	1.8E-22	237	337	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.43E-22	238	337	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.56E-22	243	337	No hit	No description
PROSITE profile	PS50863	13.028	245	339	IPR003340	B3 DNA binding domain
SMART	SM01019	8.3E-23	245	339	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.4E-17	248	337	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 342 aa Download sequence Send to blast
MPRPFFHKLI LSSTLQDKKL RIPDNFVKKF KDELSVAAAL TVPDGHVWRV GIRKGDNKVW 60 FQEGWPEFLD RYYIRIGYFL IFRYEGNSAF SVSIFNLYNS EINYQSNALL GSQYNHGKSY 120 PFDELEDDEC MSSAMQHLFG GSKLNHCVNW SGEVNLNAAK SANNQPIRVK LRTSGSETPP 180 PKKPGRKKQK FDPNDQDLSV GHEDDSEMRY RFYESASARK RTVTAEERER AMNAAKAFEP 240 SNPFCRVVLR PSYLYRGCIM YLPSCFAEHL SGVSGFIKLQ LPDGKQWSVR CLYRGGKAKF 300 SQGWYEFTVE NNLGEGDVCV FELLRSREFV LKVTVFRVMD GA

Sequence ? help Back to Top

Protein Sequence Length: 342 aa Download sequence Send to blast

MPRPFFHKLI LSSTLQDKKL RIPDNFVKKF KDELSVAAAL TVPDGHVWRV GIRKGDNKVW  60
FQEGWPEFLD RYYIRIGYFL IFRYEGNSAF SVSIFNLYNS EINYQSNALL GSQYNHGKSY  120
PFDELEDDEC MSSAMQHLFG GSKLNHCVNW SGEVNLNAAK SANNQPIRVK LRTSGSETPP  180
PKKPGRKKQK FDPNDQDLSV GHEDDSEMRY RFYESASARK RTVTAEERER AMNAAKAFEP  240
SNPFCRVVLR PSYLYRGCIM YLPSCFAEHL SGVSGFIKLQ LPDGKQWSVR CLYRGGKAKF  300
SQGWYEFTVE NNLGEGDVCV FELLRSREFV LKVTVFRVMD GA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4i1k_A	4e-72	211	338	15	142	B3 domain-containing transcription factor VRN1
4i1k_B	4e-72	211	338	15	142	B3 domain-containing transcription factor VRN1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots and at lower levels in aerial parts. {ECO:0000269\|PubMed:12114624}.

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012450169.1	0.0	PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X1
Swissprot	Q8L3W1	1e-154	VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBL	A0A0D2M514	0.0	A0A0D2M514_GOSRA; Uncharacterized protein
STRING	Gorai.002G006500.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1124	28	103

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G18990.1	1e-149	B3 family protein

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]