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: 391aa MW: 44543.8 Da PI: 8.1409

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A13G0322	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	52.1	1.2e-16	21	106	5	97
-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE CS B3 5 ltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvf 97 + ++ l + l +p+kf++++g++ s tl+ +sgr W v+l rk +r++l GW Fv+ +++g f+vF++dg+s f +v+++ Gh_A13G0322 21 M-VASILHDKKLKIPNKFVKKFGHE--LSSIATLNVPSGRLWLVEL--RKENKRVWLDCGWTVFVEYYSICSGYFLVFRYDGNSHF--NVHIY 106 4.444555667*********965..78899**********..**********************************99..66554 PP
2	B3	62.4	7.6e-20	292	382	4	98
E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS B3 4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 +l ps+v k l +p+ fa ++ +g+ +tl+ ++g++W v++iy ++s ++kGW eFv +n+L+egD++vF+l++++e l+v++fr Gh_A13G0322 292 ILRPSYVYKGIFLHIPRCFALRYlNGVDG---IVTLQVSEGKKWPVRCIYGQSS--WKFSKGWAEFVLDNNLDEGDVCVFELISTKEIVLKVTIFR 382 6789*****************866643...5***********777776..4599*********************9999999999998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.39E-21	13	109	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	4.8E-23	13	109	IPR015300	DNA-binding pseudobarrel domain
PROSITE profile	PS50863	12.943	16	109	IPR003340	B3 DNA binding domain
CDD	cd10017	9.15E-16	16	107	No hit	No description
SMART	SM01019	2.7E-12	17	109	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.0E-13	19	106	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	1.5E-25	281	382	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	3.34E-25	282	382	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	6.82E-23	287	382	No hit	No description
SMART	SM01019	1.2E-18	289	384	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	14.142	289	384	IPR003340	B3 DNA binding domain
Pfam	PF02362	6.4E-19	292	382	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: 391 aa Download sequence Send to blast
MSQPMGPSLP HKKSCIFYKL MVASILHDKK LKIPNKFVKK FGHELSSIAT LNVPSGRLWL 60 VELRKENKRV WLDCGWTVFV EYYSICSGYF LVFRYDGNSH FNVHIYNLNA SEINYQSNGL 120 NDSREPGHDK HLKDVEDGAF AQIMRSQPTS SSSCFLIDDD FDECVDHDRK KRKNSTFLDQ 180 KNNVDDLRAT VQSTRDKGIQ FNGVELTSAA DEGGLNFLNG TQKNTKEIKQ EIEPDIDEYK 240 SLGKSIVKEE LPAMNSPRSD DKKRRDATAE GKQIALRAAA MFKPDNPFCR VILRPSYVYK 300 GIFLHIPRCF ALRYLNGVDG IVTLQVSEGK KWPVRCIYGQ SSWKFSKGWA EFVLDNNLDE 360 GDVCVFELIS TKEIVLKVTI FRVLEDGVAV N

Sequence ? help Back to Top

Protein Sequence Length: 391 aa Download sequence Send to blast

MSQPMGPSLP HKKSCIFYKL MVASILHDKK LKIPNKFVKK FGHELSSIAT LNVPSGRLWL  60
VELRKENKRV WLDCGWTVFV EYYSICSGYF LVFRYDGNSH FNVHIYNLNA SEINYQSNGL  120
NDSREPGHDK HLKDVEDGAF AQIMRSQPTS SSSCFLIDDD FDECVDHDRK KRKNSTFLDQ  180
KNNVDDLRAT VQSTRDKGIQ FNGVELTSAA DEGGLNFLNG TQKNTKEIKQ EIEPDIDEYK  240
SLGKSIVKEE LPAMNSPRSD DKKRRDATAE GKQIALRAAA MFKPDNPFCR VILRPSYVYK  300
GIFLHIPRCF ALRYLNGVDG IVTLQVSEGK KWPVRCIYGQ SSWKFSKGWA EFVLDNNLDE  360
GDVCVFELIS TKEIVLKVTI FRVLEDGVAV N

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4i1k_A	8e-44	259	385	19	144	B3 domain-containing transcription factor VRN1
4i1k_B	8e-44	259	385	19	144	B3 domain-containing transcription factor VRN1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.21689	0.0	boll

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_016674965.1	0.0	PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X1
Refseq	XP_016674966.1	0.0	PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X1
Swissprot	Q8L3W1	2e-41	VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBL	A0A1U8I9S0	0.0	A0A1U8I9S0_GOSHI; B3 domain-containing transcription factor VRN1-like isoform X1
STRING	Gorai.013G039700.1	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
AT1G49480.1	1e-44	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]