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

GSBRNA2T00134310001

Common Name

GSBRNA2T00134310001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 390aa MW: 44956.7 Da PI: 9.9462

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00134310001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	38.5	2.1e-12	81	130	1	52
CHHHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIk 52 ++ +hn+ Er RR+++N ++ Lr llP+ + +++Kls + +v+YI GSBRNA2T00134310001 81 KKLNHNASERDRRRKLNALYASLRALLPPsD---QKRKLSIPKTIAGVVKYIP 130 6789***********************66...9999************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	1.30E-10	80	137	No hit	No description
PROSITE profile	PS50888	13.694	80	132	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	4.71E-13	80	153	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	4.0E-11	81	151	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.2E-9	81	130	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.8E-8	86	138	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF56719	3.14E-16	315	388	IPR013760	DNA topoisomerase, type IIA-like domain
Gene3D	G3DSA:3.40.50.670	1.9E-17	316	388	IPR013759	DNA topoisomerase, type IIA, central domain
PRINTS	PR00418	5.1E-7	319	336	IPR001241	DNA topoisomerase, type IIA
PRINTS	PR00418	5.1E-7	339	351	IPR001241	DNA topoisomerase, type IIA
Pfam	PF00986	1.7E-9	367	388	IPR002288	DNA gyrase B subunit, C-terminal

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006265	Biological Process	DNA topological change
GO:0010106	Biological Process	cellular response to iron ion starvation
GO:0055072	Biological Process	iron ion homeostasis
GO:0003677	Molecular Function	DNA binding
GO:0003918	Molecular Function	DNA topoisomerase type II (ATP-hydrolyzing) activity
GO:0005524	Molecular Function	ATP binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 390 aa Download sequence Send to blast
MCALTPMFPS NQQEWYSTST MEYPWLDSFS PTLPSSLYPS FDQLDEFKSY NINLLPHHMN 60 LADINGTNND QEEHQGSVLE KKLNHNASER DRRRKLNALY ASLRALLPPS DQKRKLSIPK 120 TIAGVVKYIP EQKQELQRLS RRKEELMKRI SNKTETLNHQ QEQLRNRALM MESIDSSSQK 180 IAANWITDTE IAVQIATWKW TSISDILLRL EENGLNAISV SSSVSSTARI FYTLHLQMRG 240 GCRVRLEELD VKEIPWNGRH KTRAITRIIV RSTASLTTPY NISSKLATCF NTKNLRFSKT 300 KRDVGCLWKY LKGYIDGAHI RTLLLTFFFK YQRALFDAGC IYVGVPPLFK TLKRLQQTSL 360 QELPTAFKGL GEMMPEQLWE TMMNPETRI*

Sequence ? help Back to Top

Protein Sequence Length: 390 aa Download sequence Send to blast

MCALTPMFPS NQQEWYSTST MEYPWLDSFS PTLPSSLYPS FDQLDEFKSY NINLLPHHMN  60
LADINGTNND QEEHQGSVLE KKLNHNASER DRRRKLNALY ASLRALLPPS DQKRKLSIPK  120
TIAGVVKYIP EQKQELQRLS RRKEELMKRI SNKTETLNHQ QEQLRNRALM MESIDSSSQK  180
IAANWITDTE IAVQIATWKW TSISDILLRL EENGLNAISV SSSVSSTARI FYTLHLQMRG  240
GCRVRLEELD VKEIPWNGRH KTRAITRIIV RSTASLTTPY NISSKLATCF NTKNLRFSKT  300
KRDVGCLWKY LKGYIDGAHI RTLLLTFFFK YQRALFDAGC IYVGVPPLFK TLKRLQQTSL  360
QELPTAFKGL GEMMPEQLWE TMMNPETRI*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3k9f_C	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
3k9f_D	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
3ksa_C	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
3ksa_D	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
3ksb_C	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
3ksb_D	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
3ltn_C	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
3ltn_D	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
3rad_C	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
3rad_D	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
3rae_C	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
3rae_D	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
3raf_C	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
3raf_D	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
4koe_C	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
4koe_D	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
4kpe_C	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
4kpe_D	1e-17	254	388	74	222	DNA topoisomerase 4 subunit B
4kpf_C	1e-17	254	388	74	222	ParE30
4kpf_D	1e-17	254	388	74	222	ParE30
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Flowers. {ECO:0000269\|PubMed:12679534}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00134310001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up regulated by iron deficiency in roots and leaves, as well as by nickel, high zinc or high copper treatments. Repressed by high iron, low copper and low zinc treatments. {ECO:0000269\|PubMed:17516080}.

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	AK353050	1e-178	AK353050.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-13-G10.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_022554188.1	0.0	transcription factor bHLH101-like
Refseq	XP_022554193.1	0.0	transcription factor bHLH101-like
Swissprot	Q9FYE6	4e-96	BH101_ARATH; Transcription factor bHLH101
TrEMBL	A0A0D3AZM8	0.0	A0A0D3AZM8_BRAOL; Uncharacterized protein
TrEMBL	A0A3P5ZY40	0.0	A0A3P5ZY40_BRAOL; Uncharacterized protein (Fragment)
STRING	Bo3g002630.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM482	28	153

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G04150.1	1e-97	bHLH family protein

Publications ? help Back to Top
Maurer F,Naranjo Arcos MA,Bauer P Responses of a triple mutant defective in three iron deficiency-induced Basic Helix-Loop-Helix genes of the subgroup Ib(2) to iron deficiency and salicylic acid. PLoS ONE, 2014. 9(6): p. e99234 [PMID:24919188] Martínez-Trujillo M, et al. Chromate alters root system architecture and activates expression of genes involved in iron homeostasis and signaling in Arabidopsis thaliana. Plant Mol. Biol., 2014. 86(1-2): p. 35-50 [PMID:24928490] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] Li X,Zhang H,Ai Q,Liang G,Yu D Two bHLH Transcription Factors, bHLH34 and bHLH104, Regulate Iron Homeostasis in Arabidopsis thaliana. Plant Physiol., 2016. 170(4): p. 2478-93 [PMID:26921305] Van Dingenen J, et al. Strobilurins as growth-promoting compounds: how Stroby regulates Arabidopsis leaf growth. Plant Cell Environ., 2017. 40(9): p. 1748-1760 [PMID:28444690] Ezer D, et al. The G-Box Transcriptional Regulatory Code in Arabidopsis. Plant Physiol., 2017. 175(2): p. 628-640 [PMID:28864470] Kailasam S,Wang Y,Lo JC,Chang HF,Yeh KC S-Nitrosoglutathione works downstream of nitric oxide to mediate iron-deficiency signaling in Arabidopsis. Plant J., 2018. 94(1): p. 157-168 [PMID:29396986] Kurt F,Filiz E Genome-wide and comparative analysis of bHLH38, bHLH39, bHLH100 and bHLH101 genes in Arabidopsis, tomato, rice, soybean and maize: insights into iron (Fe) homeostasis. Biometals, 2018. 31(4): p. 489-504 [PMID:29546482]