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

XP_009115639.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

Protein Properties

Length: 468aa MW: 52695.1 Da PI: 8.2891

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009115639.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	45	2e-14	24	102	12	97
HTT-EE--HHH.HTT.---..--SEEEEEE.TTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE CS B3 12 ksgrlvlpkkfaeeh.ggkkeesktltled.esgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvf 97 ++ l +p f+++h +g++ kt +l++ s ++W vk+ ++ + lt+GW++F+ a++L+ gD+++F+++g++ f +v++f XP_009115639.1 24 HTH-LNIPVAFFSRHvQGNNDHIKTAKLRTdASAKTWLVKI--NGLK----LTDGWEDFAVAHDLRIGDIIIFRYEGEMVF--HVTAF 102 444.99********555555578888875888***..6665....***********************99999..88877 PP
2	B3	61.9	1e-19	162	250	6	95
..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS B3 6 tpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 +++++l+ +rl++p +fa+++g+++ ++k+++l +++grsW+++++y+k s +++ + GW++F+ +ng++ g +Fkl+g +++ +v++ XP_009115639.1 162 VSPSSLRFDRLYVPISFARSNGLDNMSGKEIVLLNQEGRSWNLNITYTKASVQTLVGPGWRRFCAENGMNKGHHYTFKLVG-KSAPPVIR 250 5677788899*********************************************************************99.67667765 PP
3	B3	63.2	4.2e-20	271	360	6	98
..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS B3 6 tpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 ++s++l+++ l++ +kf++++g+k + +++l++e+g sW++ l+y + ++++l+ GWk F++ n++k+gD+++Fk+++ ++ ++v+ ++ XP_009115639.1 271 VSSNSLRKDKLYIQRKFVNANGLK--GLSEIVLKNEWGGSWNLGLRYYESLDHTYLGPGWKTFCQVNRIKTGDSFMFKVVE-TGDKPVLLLCT 360 57899999***********988..4559**********************************************887.66667877775 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	3.73E-19	10	112	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	5.6E-21	10	107	IPR015300	DNA-binding pseudobarrel domain
PROSITE profile	PS50863	11.998	12	105	IPR003340	B3 DNA binding domain
CDD	cd10017	1.39E-15	13	102	No hit	No description
SMART	SM01019	2.1E-21	15	105	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.7E-9	26	99	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	1.0E-19	150	249	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.31E-17	151	251	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.60E-14	157	244	No hit	No description
PROSITE profile	PS50863	14.057	157	255	IPR003340	B3 DNA binding domain
SMART	SM01019	3.8E-20	158	255	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.2E-17	162	250	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	14.41	266	361	IPR003340	B3 DNA binding domain
SMART	SM01019	1.7E-21	267	362	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	4.5E-17	267	360	IPR015300	DNA-binding pseudobarrel domain
Pfam	PF02362	5.6E-18	271	359	IPR003340	B3 DNA binding domain
CDD	cd10017	1.26E-14	272	359	No hit	No description
SuperFamily	SSF101936	1.82E-17	272	362	IPR015300	DNA-binding pseudobarrel 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: 468 aa Download sequence Send to blast
MADDQSLHSP ITPHFFQPLL PGFHTHLNIP VAFFSRHVQG NNDHIKTAKL RTDASAKTWL 60 VKINGLKLTD GWEDFAVAHD LRIGDIIIFR YEGEMVFHVT AFGPSCCDIQ YTSESSHNIN 120 DDSQDQTNNT GNSSGEKRKR VKKTPRTKEE SSSDHSHFMA HVSPSSLRFD RLYVPISFAR 180 SNGLDNMSGK EIVLLNQEGR SWNLNITYTK ASVQTLVGPG WRRFCAENGM NKGHHYTFKL 240 VGKSAPPVIR LSLSEPAPES SLHHSNYVGS VSSNSLRKDK LYIQRKFVNA NGLKGLSEIV 300 LKNEWGGSWN LGLRYYESLD HTYLGPGWKT FCQVNRIKTG DSFMFKVVET GDKPVLLLCT 360 TNRGKTPLDC PEDSGDINSL SSDTGSRESQ ESEEESLEDD DSSSEESFEM VKRENSSRCR 420 ASSSYSQDRF VKLTLTPRAL KTYKLMLPLD FTRVNGINKP GKRMERVL

Sequence ? help Back to Top

Protein Sequence Length: 468 aa Download sequence Send to blast

MADDQSLHSP ITPHFFQPLL PGFHTHLNIP VAFFSRHVQG NNDHIKTAKL RTDASAKTWL  60
VKINGLKLTD GWEDFAVAHD LRIGDIIIFR YEGEMVFHVT AFGPSCCDIQ YTSESSHNIN  120
DDSQDQTNNT GNSSGEKRKR VKKTPRTKEE SSSDHSHFMA HVSPSSLRFD RLYVPISFAR  180
SNGLDNMSGK EIVLLNQEGR SWNLNITYTK ASVQTLVGPG WRRFCAENGM NKGHHYTFKL  240
VGKSAPPVIR LSLSEPAPES SLHHSNYVGS VSSNSLRKDK LYIQRKFVNA NGLKGLSEIV  300
LKNEWGGSWN LGLRYYESLD HTYLGPGWKT FCQVNRIKTG DSFMFKVVET GDKPVLLLCT  360
TNRGKTPLDC PEDSGDINSL SSDTGSRESQ ESEEESLEDD DSSSEESFEM VKRENSSRCR  420
ASSSYSQDRF VKLTLTPRAL KTYKLMLPLD FTRVNGINKP GKRMERVL

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009115639.1

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_009115639.1	0.0	PREDICTED: B3 domain-containing protein REM17-like isoform X2
Swissprot	Q84WP3	1e-149	REM17_ARATH; B3 domain-containing protein REM17
TrEMBL	M4E7E0	0.0	M4E7E0_BRARP; Uncharacterized protein
STRING	Bra024695.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5781	16	48

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G26680.1	1e-137	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]