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

RrC12216_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

NAC

Protein Properties

Length: 354aa MW: 38822.7 Da PI: 8.5368

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC12216_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	170	7.6e-53	17	147	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk...kvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlsk 95 lppGfrFhPtdeelvv+yLk+kv++ +l++ +i+ev++yk++Pw+Lp k++ +e+ewyfFs+rd+ky++g r+nra++sgyWkatg+dk+vl++ RrC12216_p1 17 LPPGFRFHPTDEELVVHYLKRKVASAPLPV-AIIAEVNLYKFDPWELPGtypKASFGEREWYFFSPRDRKYPNGARPNRAATSGYWKATGTDKPVLAS 113 79**************************.88***********53566666999*********************************99 PP NAM 96 .kgelvglkktLvfykgrapkgektdWvmheyrl 128 ++++vg+kk Lvfy+g+ pkg+k+dW+mheyr+ RrC12216_p1 114 dGKQKVGVKKALVFYSGKPPKGVKSDWIMHEYRI 147 67788*************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	1.05E-63	13	181	IPR003441	NAC domain
PROSITE profile	PS51005	61.835	17	181	IPR003441	NAC domain
Pfam	PF02365	3.5E-28	18	147	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: 354 aa Download sequence Send to blast
MEGIESSGGP PPPQPNLPPG FRFHPTDEEL VVHYLKRKVA SAPLPVAIIA EVNLYKFDPW 60 ELPGTYPKAS FGEREWYFFS PRDRKYPNGA RPNRAATSGY WKATGTDKPV LASDGKQKVG 120 VKKALVFYSG KPPKGVKSDW IMHEYRIIDN KPNYRPPGCD FANKNSSLRL DDWVLCRIYK 180 KNNASPHVDN NKDQGMIDYI FRKVPPSLSS GLHHNASRSM NIFPGKSSGG YGIFSDGDSG 240 LYDGSSMVCS NGAGSVNINV SNGNPNGLNP ASSSGPMMMM ANMKQALWPV AEEEQDASPS 300 KRFHSVEGGD CLNMSSSVME ETPPLMHQQG GVLGDDGLLR TVSYQLPGLN WYSS

Sequence ? help Back to Top

Protein Sequence Length: 354 aa Download sequence Send to blast

MEGIESSGGP PPPQPNLPPG FRFHPTDEEL VVHYLKRKVA SAPLPVAIIA EVNLYKFDPW  60
ELPGTYPKAS FGEREWYFFS PRDRKYPNGA RPNRAATSGY WKATGTDKPV LASDGKQKVG  120
VKKALVFYSG KPPKGVKSDW IMHEYRIIDN KPNYRPPGCD FANKNSSLRL DDWVLCRIYK  180
KNNASPHVDN NKDQGMIDYI FRKVPPSLSS GLHHNASRSM NIFPGKSSGG YGIFSDGDSG  240
LYDGSSMVCS NGAGSVNINV SNGNPNGLNP ASSSGPMMMM ANMKQALWPV AEEEQDASPS  300
KRFHSVEGGD CLNMSSSVME ETPPLMHQQG GVLGDDGLLR TVSYQLPGLN WYSS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	2e-71	11	185	11	169	NO APICAL MERISTEM PROTEIN
1ut4_B	2e-71	11	185	11	169	NO APICAL MERISTEM PROTEIN
1ut7_A	2e-71	11	185	11	169	NO APICAL MERISTEM PROTEIN
1ut7_B	2e-71	11	185	11	169	NO APICAL MERISTEM PROTEIN
3swm_A	2e-71	3	185	8	172	NAC domain-containing protein 19
3swm_B	2e-71	3	185	8	172	NAC domain-containing protein 19
3swm_C	2e-71	3	185	8	172	NAC domain-containing protein 19
3swm_D	2e-71	3	185	8	172	NAC domain-containing protein 19
3swp_A	2e-71	3	185	8	172	NAC domain-containing protein 19
3swp_B	2e-71	3	185	8	172	NAC domain-containing protein 19
3swp_C	2e-71	3	185	8	172	NAC domain-containing protein 19
3swp_D	2e-71	3	185	8	172	NAC domain-containing protein 19
4dul_A	2e-71	11	185	11	169	NAC domain-containing protein 19
4dul_B	2e-71	11	185	11	169	NAC domain-containing protein 19
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor of the NAC family (Probable). Together with NAC018/NARS2, regulates embryogenesis by regulating the development and degeneration of ovule integuments, a process required for intertissue communication between the embryo and the maternal integument (PubMed:18849494). {ECO:0000269\|PubMed:18849494, ECO:0000305}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By Jasmonic acid (JA). {ECO:0000269\|PubMed:16805732}.

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_018490713.1	0.0	PREDICTED: NAC transcription factor 56-like isoform X1
Swissprot	Q9LD44	0.0	NAC56_ARATH; NAC transcription factor 56
TrEMBL	A0A3P5ZNP0	0.0	A0A3P5ZNP0_BRACM; Uncharacterized protein
STRING	Bo3g066880.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM190	28	276

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G15510.1	1e-165	NAC domain containing protein 2

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]