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

Cotton_A_19408_BGI-A2_v1.0

Common Name

F383_12243

Organism

Gossypium arboreum

Taxonomic ID

29729

Taxonomic Lineage

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: 208aa MW: 23617.1 Da PI: 10.2706

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cotton_A_19408_BGI-A2_v1.0	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	66.1	5e-21	106	196	4	98
E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS B3 4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 vl ps+ + ++++lp fae+h +g+ s ++l+ ++gr+W+v++ r k+g+ +++GW eF +n+L egD++vF+l Cotton_A_19408_BGI-A2_v1.0 106 VLRPSYLYRGCIMYLPSCFAEKHlSGV---SDSIKLQLPDGRQWSVRC--RYKGGKAKFSRGWYEFTLENNLGEGDVCVFELL 183 7889*****************8666...336***********..667777779********************99 PP SSSEE..EEEEE- CS B3 86 grsefelvvkvfr 98 +++e l+v+vfr Cotton_A_19408_BGI-A2_v1.0 184 RSREIVLKVTVFR 196 9888889999998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	6.1E-25	95	196	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	6.28E-24	97	196	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.70E-24	101	196	No hit	No description
PROSITE profile	PS50863	14.254	103	198	IPR003340	B3 DNA binding domain
SMART	SM01019	7.0E-22	103	198	IPR003340	B3 DNA binding domain
Pfam	PF02362	9.2E-19	106	196	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 208 aa Download sequence Send to blast
MFGGSKLSNC INWGGDVNRQ NPKAVNNQPI RGSGAMKPEP KKRGRKRKFD PNVQDSSAGR 60 EDDADMRLRC YESASARKRT VTAEERERAI NAAKAFEPIN PFCRVVLRPS YLYRGCIMYL 120 PSCFAEKHLS GVSDSIKLQL PDGRQWSVRC RYKGGKAKFS RGWYEFTLEN NLGEGDVCVF 180 ELLRSREIVL KVTVFRVMES GGLMHRSQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4i1k_A	5e-72	69	199	15	144	B3 domain-containing transcription factor VRN1
4i1k_B	5e-72	69	199	15	144	B3 domain-containing transcription factor VRN1
Search in ModeBase

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JX587993	8e-83	JX587993.1 Gossypium hirsutum clone NBRI_GE22287 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012462596.1	1e-154	PREDICTED: B3 domain-containing protein REM19-like
Refseq	XP_012462597.1	1e-154	PREDICTED: B3 domain-containing protein REM19-like
Refseq	XP_016674964.1	1e-154	PREDICTED: B3 domain-containing protein REM19-like
Refseq	XP_017619827.1	1e-154	PREDICTED: B3 domain-containing protein REM19-like
Swissprot	Q8L3W1	5e-80	VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBL	A0A0B0PYM7	1e-153	A0A0B0PYM7_GOSAR; B3 domain-containing transcription factor VRN1-like protein
TrEMBL	A0A0D2W2K4	1e-153	A0A0D2W2K4_GOSRA; Uncharacterized protein
TrEMBL	A0A1U8IGH7	1e-153	A0A1U8IGH7_GOSHI; B3 domain-containing protein REM19-like
STRING	Gorai.013G039800.1	1e-154	(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	3e-78	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]