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_013621203.1

Organism

Brassica oleracea

Taxonomic ID

3712

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: 276aa MW: 31503 Da PI: 8.4438

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013621203.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	101.8	4e-32	32	140	1	97
EEEE-..-HHHHTT-EE--HHH.HTT............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 f+k ltpsdv+k++rlv+pk++ae+h + +e+++ lt+edesg+ W+++++y+++s++yvltkGW+++vk+++L +gD+v F+ XP_013621203.1 32 FEKSLTPSDVGKLNRLVIPKQHAEKHfplnnaaddvaaAETTEKGMLLTFEDESGKCWKFRYSYWNSSQSYVLTKGWSRYVKDKQLHAGDVVFFQ 126 99*****************************9999977788************************************************** PP E-SSSEE..EEEEE CS B3 84 ldgrsefelvvkvf 97 +++ + + +++++ XP_013621203.1 127 RHRFDLHRVFIGWR 140 54325555566665 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	4.8E-41	26	150	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	7.46E-32	29	144	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.18E-28	31	136	No hit	No description
Pfam	PF02362	2.9E-29	32	141	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.225	32	141	IPR003340	B3 DNA binding domain
SMART	SM01019	1.1E-23	32	143	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0080113	Biological Process	regulation of seed growth
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 276 aa Download sequence Send to blast
MSGNHYSRDI HHNTPSLHHH QNDAVVDREY LFEKSLTPSD VGKLNRLVIP KQHAEKHFPL 60 NNAADDVAAA ETTEKGMLLT FEDESGKCWK FRYSYWNSSQ SYVLTKGWSR YVKDKQLHAG 120 DVVFFQRHRF DLHRVFIGWR KRGEVSSPSA ISVVSQDARV NTTAYWSNGL TTPYRQVHAS 180 TSSYPNIHQE YSHYDARVSR RWKIVGAVAE TPTVVTGSSR TVRLFGVNLE CHGDVVEPPP 240 CPDGYNGQHF YYYSTPHPMN ISFAGEAMEQ VGDRRG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5os9_A	8e-48	25	145	1	116	B3 domain-containing transcription factor NGA1
5os9_B	8e-48	25	145	1	116	B3 domain-containing transcription factor NGA1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013621203.1

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_013621203.1	0.0	PREDICTED: B3 domain-containing protein At3g11580 isoform X1
Swissprot	Q8RYD3	1e-142	Y3158_ARATH; B3 domain-containing protein At3g11580
TrEMBL	A0A3N6S342	0.0	A0A3N6S342_BRACR; Uncharacterized protein (Fragment)
STRING	Bra041023.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1220	28	100

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G11580.1	1e-139	B3 family protein

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]