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; Phaseoleae; Phaseolus

Family

Protein Properties

Length: 436aa MW: 49120.4 Da PI: 8.9162

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Phvul.003G011300.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	55.4	1.1e-17	7	96	3	98
EE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS B3 3 kvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 +l+ s + +s++l++p +f++++g + s+ tl+ ++g W++ l +k ++++++ +GW++Fv+ + +g f+vF+++g+s+f v+ Phvul.003G011300.1 7 HKLVLSTTIQSRQLRIPDTFLRKYGTQ--LSTIATLTVPDGSIWRIGL--KKADNKIWFVDGWQDFVQRYSVGVGYFLVFMYEGNSSF--IVH 93 5667788999999*********966..9999***********..***********************************9..999 PP EE- CS B3 96 vfr 98 +f+ Phvul.003G011300.1 94 IFN 96 986 PP
2	B3	61.6	1.3e-19	301	392	4	99
E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS B3 4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 vl ps+ + ++++lp fae++ +g++ ++l+ ++gr+W+v++ yr+++ l++GW eF +n+L egD++vF+l +++e el Phvul.003G011300.1 301 VLRPSYLYRGCIMYLPSCFAEKNlNGVSG---FIKLQLSNGRQWSVRCLYRGGR--AKLSQGWFEFTVENNLGEGDVCVFELLRTKEVELQ 386 78899****************876743...59999999****665555..66*********************99** PP EEEE-S CS B3 94 vkvfrk 99 v+vfr Phvul.003G011300.1 387 VTVFRV 392 **96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	2.0E-21	3	97	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	5.1E-23	3	97	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.21E-18	4	96	No hit	No description
PROSITE profile	PS50863	13.211	5	98	IPR003340	B3 DNA binding domain
SMART	SM01019	8.4E-16	6	98	IPR003340	B3 DNA binding domain
Pfam	PF02362	4.7E-15	8	96	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	1.0E-24	290	391	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.63E-24	291	392	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.26E-22	296	391	No hit	No description
SMART	SM01019	5.2E-19	298	393	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	14.269	298	393	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.1E-17	301	392	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: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
MARPCFHKLV LSTTIQSRQL RIPDTFLRKY GTQLSTIATL TVPDGSIWRI GLKKADNKIW 60 FVDGWQDFVQ RYSVGVGYFL VFMYEGNSSF IVHIFNLSTA ELNYQSAIRN HIEGPCYANY 120 NHIFEEMEDV DSIDLSDLSP AYLASGAMQN KGFAGSGDQL TPGKSHTPAL QNLFNGGSKL 180 NRVNWGDGGS AYSSKAANSQ GTQSTRDIGV QFNAVEFKRS TEELKLRYSN EESVNKTAKK 240 KRKSESQGEE PSGENEEEAE MRYRFYESAS ARKRTVTAEE RERAINASKA FEPTNPFCRV 300 VLRPSYLYRG CIMYLPSCFA EKNLNGVSGF IKLQLSNGRQ WSVRCLYRGG RAKLSQGWFE 360 FTVENNLGEG DVCVFELLRT KEVELQVTVF RVTEDAGLLH TPLAVQQQSQ NMSHTKLLNP 420 HLQHRVSSTV KLIRN*

Sequence ? help Back to Top

Protein Sequence Length: 436 aa Download sequence Send to blast

MARPCFHKLV LSTTIQSRQL RIPDTFLRKY GTQLSTIATL TVPDGSIWRI GLKKADNKIW  60
FVDGWQDFVQ RYSVGVGYFL VFMYEGNSSF IVHIFNLSTA ELNYQSAIRN HIEGPCYANY  120
NHIFEEMEDV DSIDLSDLSP AYLASGAMQN KGFAGSGDQL TPGKSHTPAL QNLFNGGSKL  180
NRVNWGDGGS AYSSKAANSQ GTQSTRDIGV QFNAVEFKRS TEELKLRYSN EESVNKTAKK  240
KRKSESQGEE PSGENEEEAE MRYRFYESAS ARKRTVTAEE RERAINASKA FEPTNPFCRV  300
VLRPSYLYRG CIMYLPSCFA EKNLNGVSGF IKLQLSNGRQ WSVRCLYRGG RAKLSQGWFE  360
FTVENNLGEG DVCVFELLRT KEVELQVTVF RVTEDAGLLH TPLAVQQQSQ NMSHTKLLNP  420
HLQHRVSSTV KLIRN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4i1k_A	5e-71	264	394	15	144	B3 domain-containing transcription factor VRN1
4i1k_B	5e-71	264	394	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Phvul.003G011300.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT094686	0.0	BT094686.1 Soybean clone JCVI-FLGm-24P12 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007153153.1	0.0	hypothetical protein PHAVU_003G011300g
Swissprot	Q8L3W1	1e-130	VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBL	V7C4R2	0.0	V7C4R2_PHAVU; Uncharacterized protein
STRING	XP_007153153.1	0.0	(Phaseolus vulgaris)

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-129	B3 family protein

Link Out ? help Back to Top
Phytozome	Phvul.003G011300.1
Entrez Gene	18633530

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]