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

Sobic.002G290900.1.p

Common Name

Sb02g032230, SORBIDRAFT_02g032230

Organism

Sorghum bicolor

Taxonomic ID

4558

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum

Family

NAC

Protein Properties

Length: 219aa MW: 25435.5 Da PI: 8.3398

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.002G290900.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	175.4	1.6e-54	6	133	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp.k.kvkaeekewyfFskrdkkyatgkrknratksgyWkatg 87 lppGfrFhPtdeelv++yLk+kv+g ++el ++i+evd+yk+ePw+L k + ++++ewyfF +rd+ky++g r+nrat++gyWk+tg Sobic.002G290900.1.p 6 LPPGFRFHPTDEELVNYYLKRKVHGLSIEL-DIIPEVDLYKCEPWELAeKsFLPSRDSEWYFFGPRDRKYPNGCRTNRATQAGYWKSTG 93 79**************************.99**********84335566899*************************** PP NAM 88 kdkevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128 kd+++ +++ +g+kktLv+ykgrap+g +t+Wvmheyr+ Sobic.002G290900.1.p 94 KDRRINY-QNRSIGMKKTLVYYKGRAPQGLRTNWVMHEYRI 133 **9.8899*************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	1.57E-63	4	157	IPR003441	NAC domain
PROSITE profile	PS51005	59.549	6	156	IPR003441	NAC domain
Pfam	PF02365	6.6E-30	7	133	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:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 219 aa Download sequence Send to blast
MAPADLPPGF RFHPTDEELV NYYLKRKVHG LSIELDIIPE VDLYKCEPWE LAEKSFLPSR 60 DSEWYFFGPR DRKYPNGCRT NRATQAGYWK STGKDRRINY QNRSIGMKKT LVYYKGRAPQ 120 GLRTNWVMHE YRIEESECEN TMGIQDSYAL CRVFKKNVAL GEFQKQKQGE CSSSQANEKQ 180 EQFTSVRDAG QSSGSNEHGK DNTWMQFIAD DLWCNKTK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	2e-55	6	156	17	165	NO APICAL MERISTEM PROTEIN
1ut4_B	2e-55	6	156	17	165	NO APICAL MERISTEM PROTEIN
1ut7_A	2e-55	6	156	17	165	NO APICAL MERISTEM PROTEIN
1ut7_B	2e-55	6	156	17	165	NO APICAL MERISTEM PROTEIN
3swm_A	2e-55	6	156	20	168	NAC domain-containing protein 19
3swm_B	2e-55	6	156	20	168	NAC domain-containing protein 19
3swm_C	2e-55	6	156	20	168	NAC domain-containing protein 19
3swm_D	2e-55	6	156	20	168	NAC domain-containing protein 19
3swp_A	2e-55	6	156	20	168	NAC domain-containing protein 19
3swp_B	2e-55	6	156	20	168	NAC domain-containing protein 19
3swp_C	2e-55	6	156	20	168	NAC domain-containing protein 19
3swp_D	2e-55	6	156	20	168	NAC domain-containing protein 19
4dul_A	2e-55	6	156	17	165	NAC domain-containing protein 19
4dul_B	2e-55	6	156	17	165	NAC domain-containing protein 19
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in a few sieve element cells before enucleation and in phloem-pole pericycle cells. {ECO:0000269\|PubMed:25081480}.
Uniprot	TISSUE SPECIFICITY: Expressed in a few sieve element cells before enucleation and in phloem-pole pericycle cells. {ECO:0000269\|PubMed:25081480}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor directing sieve element enucleation and cytosol degradation. Not required for formation of lytic vacuoles. Regulates, with NAC045, the transcription of NEN1, NEN2, NEN3, NEN4, RTM1, RTM2, UBP16, PLDZETA, ABCB10 and At1g26450. {ECO:0000269\|PubMed:25081480}.
UniProt	Transcription factor directing sieve element enucleation and cytosol degradation. Not required for formation of lytic vacuoles. Regulates, with NAC086, the transcription of NEN1, NEN2, NEN3, NEN4, RTM1, RTM2, UBP16, PLDZETA, ABCB10 and At1g26450. {ECO:0000269\|PubMed:25081480}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.002G290900.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Regulated by the transcription factor APL (AC Q9SAK5). {ECO:0000269\|PubMed:25081480}.

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	AC137596	1e-50	AC137596.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 9 clone OSJNBb0031H05, complete sequence.
GenBank	AP005564	1e-50	AP005564.2 Oryza sativa Japonica Group genomic DNA, chromosome 9, BAC clone:OJ1228_C03, complete sequence.
GenBank	AP014965	1e-50	AP014965.1 Oryza sativa Japonica Group DNA, chromosome 9, cultivar: Nipponbare, complete sequence.
GenBank	CP012617	1e-50	CP012617.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 9 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002460636.1	1e-166	NAC domain-containing protein 45
Swissprot	A4VCM0	4e-88	NAC45_ARATH; NAC domain-containing protein 45
Swissprot	Q9FFI5	4e-88	NAC86_ARATH; NAC domain-containing protein 86
TrEMBL	C5X7Q0	1e-165	C5X7Q0_SORBI; Uncharacterized protein
STRING	Sb02g032230.1	1e-166	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3713	38	79
Representative plant	OGRP17	15	800

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G17730.1	1e-109	NAC domain containing protein 57

Link Out ? help Back to Top
Phytozome	Sobic.002G290900.1.p
Entrez Gene	8074180

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546]