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

PSME_00050232-RA

Organism

Pseudotsuga menziesii

Taxonomic ID

3357

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga

Family

NAC

Protein Properties

Length: 303aa MW: 34008.4 Da PI: 8.7216

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00050232-RA	genome	PRS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	125.8	3.6e-39	15	129	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevl 93 lppGfrFhPtdeel+++yLkkkv++++++ + i+e+d+yk++PwdLp d+ky++g r+nr + sgyWkatg+dk+++ PSME_00050232-RA 15 LPPGFRFHPTDEELLTHYLKKKVSSSPVPG-SLIAEIDLYKYDPWDLP----------------DRKYPNGARPNRFAGSGYWKATGTDKPIV 90 79***********************999.88**********9................789********************** PP NAM 94 sk....kgelvglkktLvfykgrapkgektdWvmheyrl 128 + + ++vg+kk+Lvfy+gr kg kt+W+mheyrl PSME_00050232-RA 91 ITsgstSPQKVGVKKSLVFYRGRPLKGIKTNWIMHEYRL 129 9966655566*************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	8.89E-52	10	154	IPR003441	NAC domain
PROSITE profile	PS51005	47.522	15	154	IPR003441	NAC domain
Pfam	PF02365	2.6E-22	16	129	IPR003441	NAC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 303 aa Download sequence Send to blast
MMEGSAFQQQ VVPQLPPGFR FHPTDEELLT HYLKKKVSSS PVPGSLIAEI DLYKYDPWDL 60 PDRKYPNGAR PNRFAGSGYW KATGTDKPIV ITSGSTSPQK VGVKKSLVFY RGRPLKGIKT 120 NWIMHEYRLA ETMPTKRNRS MRLDDWVLCR IYKKVSHSPV VVSCQDDSHE SPADVQRSHK 180 KPAMPKFSSF STLLEKEGPL IENLLSHATS DVNNVALSSA EPSSELRSHV SMSMDFHGDE 240 VSSVYPDKRQ NNQNPSSWLQ LQSSNIPYVT GAVPVPLTEN RVWNSDLVCP LSTGNVWSSY 300 EDG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	8e-60	15	158	17	169	NO APICAL MERISTEM PROTEIN
1ut4_B	8e-60	15	158	17	169	NO APICAL MERISTEM PROTEIN
1ut7_A	8e-60	15	158	17	169	NO APICAL MERISTEM PROTEIN
1ut7_B	8e-60	15	158	17	169	NO APICAL MERISTEM PROTEIN
3swm_A	8e-60	15	158	20	172	NAC domain-containing protein 19
3swm_B	8e-60	15	158	20	172	NAC domain-containing protein 19
3swm_C	8e-60	15	158	20	172	NAC domain-containing protein 19
3swm_D	8e-60	15	158	20	172	NAC domain-containing protein 19
3swp_A	8e-60	15	158	20	172	NAC domain-containing protein 19
3swp_B	8e-60	15	158	20	172	NAC domain-containing protein 19
3swp_C	8e-60	15	158	20	172	NAC domain-containing protein 19
3swp_D	8e-60	15	158	20	172	NAC domain-containing protein 19
4dul_A	8e-60	15	158	17	169	NAC domain-containing protein 19
4dul_B	8e-60	15	158	17	169	NAC domain-containing protein 19
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor of the NAC family associated with male fertility. Involved in anther development, but not in senescence. Reduced expression of NAC5 via RNAi leads to male-sterility. {ECO:0000269\|PubMed:22278768}.
UniProt	Transcription factor of the NAC family associated with the grain protein content (GPC). Sequences of the 11 European varieties of H.vulgare tested belongs to the same haplotype while the sequence found in H.spontaneum, an ancestor of the cultivated H.vulgare which has a higher GPC, belongs to an other haplotype. {ECO:0000269\|PubMed:20005003}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by drought, salt and cold treatments. {ECO:0000269\|PubMed:18813954}.

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	BT115957	1e-102	BT115957.1 Picea glauca clone GQ03709_H02 mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006841705.1	3e-73	NAC transcription factor 56
Swissprot	D2SMN4	2e-67	NAMB1_HORVS; NAC transcription factor NAM-B1
Swissprot	Q8H4S4	2e-67	NAC10_ORYSJ; NAC domain-containing protein 10
TrEMBL	D5ABS0	1e-118	D5ABS0_PICSI; Uncharacterized protein
STRING	POPTR_0011s04650.1	4e-73	(Populus trichocarpa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G04070.2	3e-62	NAC domain containing protein 47

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Jamar C, et al. NAM-1gene polymorphism and grain protein content in Hordeum. J. Plant Physiol., 2010. 167(6): p. 497-501 [PMID:20005003]