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

MDP0000249969

Organism

Malus domestica

Taxonomic ID

3750

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Malus

Family

bHLH

Protein Properties

Length: 1084aa MW: 117981 Da PI: 6.1633

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MDP0000249969	genome	GDR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	31.8	2.5e-10	77	123	3	54
HHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS HLH 3 rahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 ++h+e+ErrRR+riN +++Lr l+P +K++Ka+ L ++ +k+L MDP0000249969 77 KNHSEAERRRRERINAHLSTLRGLVPCT-----EKMDKATLLAAVISQVKEL 123 58***********************8.....7******9999888777 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.129	74	123	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	3.8E-8	77	123	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	4.1E-12	78	125	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.03E-11	78	125	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.4E-10	80	129	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:3.30.70.260	2.8E-4	161	222	No hit	No description
CDD	cd04873	4.61E-6	161	217	No hit	No description
Pfam	PF16420	2.2E-86	280	559	IPR032197	Ubiquitin-like modifier-activating enzyme Atg7, N-terminal
Gene3D	G3DSA:3.40.50.720	1.3E-41	581	760	IPR016040	NAD(P)-binding domain
SuperFamily	SSF69572	1.44E-42	596	756	IPR000594	THIF-type NAD/FAD binding fold
Pfam	PF00899	1.0E-39	596	892	IPR000594	THIF-type NAD/FAD binding fold
CDD	cd01486	2.50E-167	609	926	No hit	No description
SuperFamily	SSF69572	1.44E-42	790	921	IPR000594	THIF-type NAD/FAD binding fold
Gene3D	G3DSA:3.40.50.720	1.3E-41	793	894	IPR016040	NAD(P)-binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010150	Biological Process	leaf senescence
GO:0050832	Biological Process	defense response to fungus
GO:0005829	Cellular Component	cytosol
GO:0008641	Molecular Function	small protein activating enzyme activity
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 1084 aa Download sequence Send to blast
MDYYSFNSKS SFGSDFSSLF DPFKHDVSGF GGALRGGAAA KLPHSLVLDS EKGELVKAPA 60 RVGKKELPEA KALLALKNHS EAERRRRERI NAHLSTLRGL VPCTEKMDKA TLLAAVISQV 120 KELKKDALES SKGFLIPVDA DEVKIEPYVA AGDGTISVKA SVCCEYRSEL LSDLREALDS 180 LHLKIVKAEI ATLGNRVKNV FVLTSSKPGS NDSDAEAYEL LASSVHQVLS SXLDKASASP 240 EYSPRTTLPS KRRRLSYFDK IDTSSSSSKI MERGSGKSIL QFAPFQSSVD EGFWHRLSSL 300 KLNKFGIDDS PVPITGFYAP CSHSQVSNHL TLLAESLPSD SSEESSVTGV SRGNRNRCSV 360 PGIIYNTNTV EGFHALDKQG LLKAEAQKIW KDIQSGRALE DSSVLXRFLV ISFADLKKWS 420 FNYWFAFPAL VLDPPATLVN LRPASXCFSS XEAESVSAAF NEWRNSSLTA DVPFFLVHLD 480 SNSHATIKHL KDWETSQSAD DGHKLLFGFY DPCHLPNHPX WPLRNLLALI CSRWDLKSVH 540 FLCYRESRGF ADLGLSLVGE ALITVPPGSA AEIGLAISAA DLNLKLMRWR ALPSLNLNSL 600 SSLKCLLLGA GTLGCQVART LMAWGVRTIT LVDNGRVAMS NPLRQSLYTL DDCLNGGEFK 660 VTAAVNSLKK IFPAVEAEGV IMAIPMPGHP VPSQEEQSVL DDCGRLHDLI DCHDVVFLLT 720 DTRESRWLPS LLCANTNKIT ITAALGFDSF LVMRHGAGPC SSSHDSKTEA ENALSAYMGN 780 LGLTDRDGGK RLGCYFCNDV VAPIDSTSNR TLDQQCTVTR PGLAPIASAL AVELLVGILH 840 HPHGIFAEGE VVNCSNSRSS EQPLGILPHQ IRGSLAQFSQ MTLVGHSSDS CTACCSTVVS 900 EYRKRGMEFI LQAINHPTYL EDLTGLTELM KSASKFELDW DDGTDEDDDD LVEPANLQLC 960 VRASPRTLAT GNAKTSFLED VLRVHDFLID PSXIRAHHDG KTVQVAPLPP LFPQXVMSSA 1020 VGDGYATAIV DDEXXVAAAS XQAKRAALXR KAAXDMVAAE DFARRFESGY XSDISRGVVV 1080 EEQA

Sequence ? help Back to Top

Protein Sequence Length: 1084 aa Download sequence Send to blast

MDYYSFNSKS SFGSDFSSLF DPFKHDVSGF GGALRGGAAA KLPHSLVLDS EKGELVKAPA  60
RVGKKELPEA KALLALKNHS EAERRRRERI NAHLSTLRGL VPCTEKMDKA TLLAAVISQV  120
KELKKDALES SKGFLIPVDA DEVKIEPYVA AGDGTISVKA SVCCEYRSEL LSDLREALDS  180
LHLKIVKAEI ATLGNRVKNV FVLTSSKPGS NDSDAEAYEL LASSVHQVLS SXLDKASASP  240
EYSPRTTLPS KRRRLSYFDK IDTSSSSSKI MERGSGKSIL QFAPFQSSVD EGFWHRLSSL  300
KLNKFGIDDS PVPITGFYAP CSHSQVSNHL TLLAESLPSD SSEESSVTGV SRGNRNRCSV  360
PGIIYNTNTV EGFHALDKQG LLKAEAQKIW KDIQSGRALE DSSVLXRFLV ISFADLKKWS  420
FNYWFAFPAL VLDPPATLVN LRPASXCFSS XEAESVSAAF NEWRNSSLTA DVPFFLVHLD  480
SNSHATIKHL KDWETSQSAD DGHKLLFGFY DPCHLPNHPX WPLRNLLALI CSRWDLKSVH  540
FLCYRESRGF ADLGLSLVGE ALITVPPGSA AEIGLAISAA DLNLKLMRWR ALPSLNLNSL  600
SSLKCLLLGA GTLGCQVART LMAWGVRTIT LVDNGRVAMS NPLRQSLYTL DDCLNGGEFK  660
VTAAVNSLKK IFPAVEAEGV IMAIPMPGHP VPSQEEQSVL DDCGRLHDLI DCHDVVFLLT  720
DTRESRWLPS LLCANTNKIT ITAALGFDSF LVMRHGAGPC SSSHDSKTEA ENALSAYMGN  780
LGLTDRDGGK RLGCYFCNDV VAPIDSTSNR TLDQQCTVTR PGLAPIASAL AVELLVGILH  840
HPHGIFAEGE VVNCSNSRSS EQPLGILPHQ IRGSLAQFSQ MTLVGHSSDS CTACCSTVVS  900
EYRKRGMEFI LQAINHPTYL EDLTGLTELM KSASKFELDW DDGTDEDDDD LVEPANLQLC  960
VRASPRTLAT GNAKTSFLED VLRVHDFLID PSXIRAHHDG KTVQVAPLPP LFPQXVMSSA  1020
VGDGYATAIV DDEXXVAAAS XQAKRAALXR KAAXDMVAAE DFARRFESGY XSDISRGVVV  1080
EEQA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3vx8_A	1e-143	279	572	8	297	Ubiquitin-like modifier-activating enzyme atg7
3vx8_D	1e-143	279	572	8	297	Ubiquitin-like modifier-activating enzyme atg7
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	82	87	ERRRRE
2	250	254	KRRRL

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Mdo.8157	0.0	fruit\| leaf

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Up-regulated during leaf senescence. {ECO:0000269\|PubMed:12070171}.
Uniprot	TISSUE SPECIFICITY: Constitutively expressed (at protein level). {ECO:0000269\|PubMed:12070171}.

Functional Description ? help Back to Top
Source	Description
UniProt	E1-like activating enzyme involved in the 2 ubiquitin-like systems required for cytoplasm to vacuole transport (Cvt) and autophagy. Activates ATG12 for its conjugation with ATG5 and ATG8 for its conjugation with phosphatidylethanolamine. Both systems are needed for the ATG8 association to Cvt vesicles and autophagosomes. Involved in the senescence process (PubMed:12070171). Involved in the degradation of damaged peroxisomes (PubMed:24368788). Involved in the non-selective degradation of chlorophylls and photosynthetic proteins during stress-induced leaf yellowing (PubMed:24510943). {ECO:0000269\|PubMed:12070171, ECO:0000269\|PubMed:24368788, ECO:0000269\|PubMed:24510943}.

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	KF438035	0.0	KF438035.1 Malus domestica autophagy-related protein 7b (ATG7b) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001315925.1	0.0	ubiquitin-like modifier-activating enzyme atg7
Swissprot	Q94CD5	0.0	ATG7_ARATH; Ubiquitin-like modifier-activating enzyme atg7
TrEMBL	A0A498ISP6	0.0	A0A498ISP6_MALDO; Uncharacterized protein
STRING	XP_008383635.1	0.0	(Malus domestica)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G41130.1	2e-28	bHLH family protein

Link Out ? help Back to Top
Phytozome	MDP0000249969

Publications ? help Back to Top
Doelling JH,Walker JM,Friedman EM,Thompson AR,Vierstra RD The APG8/12-activating enzyme APG7 is required for proper nutrient recycling and senescence in Arabidopsis thaliana. J. Biol. Chem., 2002. 277(36): p. 33105-14 [PMID:12070171] Hanaoka H, et al. Leaf senescence and starvation-induced chlorosis are accelerated by the disruption of an Arabidopsis autophagy gene. Plant Physiol., 2002. 129(3): p. 1181-93 [PMID:12114572] Ketelaar T,Voss C,Dimmock SA,Thumm M,Hussey PJ Arabidopsis homologues of the autophagy protein Atg8 are a novel family of microtubule binding proteins. FEBS Lett., 2004. 567(2-3): p. 302-6 [PMID:15178341] Yoshimoto K, et al. Processing of ATG8s, ubiquitin-like proteins, and their deconjugation by ATG4s are essential for plant autophagy. Plant Cell, 2004. 16(11): p. 2967-83 [PMID:15494556] Otegui MS, et al. Senescence-associated vacuoles with intense proteolytic activity develop in leaves of Arabidopsis and soybean. Plant J., 2005. 41(6): p. 831-44 [PMID:15743448] Thompson AR,Doelling JH,Suttangkakul A,Vierstra RD Autophagic nutrient recycling in Arabidopsis directed by the ATG8 and ATG12 conjugation pathways. Plant Physiol., 2005. 138(4): p. 2097-110 [PMID:16040659] Phillips AR,Suttangkakul A,Vierstra RD The ATG12-conjugating enzyme ATG10 Is essential for autophagic vesicle formation in Arabidopsis thaliana. Genetics, 2008. 178(3): p. 1339-53 [PMID:18245858] Svenning S,Lamark T,Krause K,Johansen T Plant NBR1 is a selective autophagy substrate and a functional hybrid of the mammalian autophagic adapters NBR1 and p62/SQSTM1. Autophagy, 2011. 7(9): p. 993-1010 [PMID:21606687] Lenz HD,Vierstra RD,Nürnberger T,Gust AA ATG7 contributes to plant basal immunity towards fungal infection. Plant Signal Behav, 2011. 6(7): p. 1040-2 [PMID:21617379] Wang Y,Nishimura MT,Zhao T,Tang D ATG2, an autophagy-related protein, negatively affects powdery mildew resistance and mildew-induced cell death in Arabidopsis. Plant J., 2011. 68(1): p. 74-87 [PMID:21645148] Wang Y,Wu Y,Tang D The autophagy gene, ATG18a, plays a negative role in powdery mildew resistance and mildew-induced cell death in Arabidopsis. Plant Signal Behav, 2011. 6(9): p. 1408-10 [PMID:21847024] Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] Yamaguchi M, et al. Noncanonical recognition and UBL loading of distinct E2s by autophagy-essential Atg7. Nat. Struct. Mol. Biol., 2012. 19(12): p. 1250-6 [PMID:23142983] Lee TA,Vande Wetering SW,Brusslan JA Stromal protein degradation is incomplete in Arabidopsis thaliana autophagy mutants undergoing natural senescence. BMC Res Notes, 2013. 6: p. 17 [PMID:23327451] Minina EA, et al. Autophagy mediates caloric restriction-induced lifespan extension in Arabidopsis. Aging Cell, 2013. 12(2): p. 327-9 [PMID:23331488] Zhou J, et al. NBR1-mediated selective autophagy targets insoluble ubiquitinated protein aggregates in plant stress responses. PLoS Genet., 2013. 9(1): p. e1003196 [PMID:23341779] Baldwin KL,Dinh EM,Hart BM,Masson PH CACTIN is an essential nuclear protein in Arabidopsis and may be associated with the eukaryotic spliceosome. FEBS Lett., 2013. 587(7): p. 873-9 [PMID:23454656] Farmer LM, et al. Disrupting autophagy restores peroxisome function to an Arabidopsis lon2 mutant and reveals a role for the LON2 protease in peroxisomal matrix protein degradation. Plant Cell, 2013. 25(10): p. 4085-100 [PMID:24179123] Shibata M, et al. Highly oxidized peroxisomes are selectively degraded via autophagy in Arabidopsis. Plant Cell, 2013. 25(12): p. 4967-83 [PMID:24368788] Sakuraba Y, et al. Delayed degradation of chlorophylls and photosynthetic proteins in Arabidopsis autophagy mutants during stress-induced leaf yellowing. J. Exp. Bot., 2014. 65(14): p. 3915-25 [PMID:24510943] Shin KD,Lee HN,Chung T A revised assay for monitoring autophagic flux in Arabidopsis thaliana reveals involvement of AUTOPHAGY-RELATED9 in autophagy. Mol. Cells, 2014. 37(5): p. 399-405 [PMID:24805779] Gully K,Hander T,Boller T,Bartels S Perception of Arabidopsis AtPep peptides, but not bacterial elicitors, accelerates starvation-induced senescence. Front Plant Sci, 2015. 6: p. 14 [PMID:25667591] Qi H, et al. TRAF Family Proteins Regulate Autophagy Dynamics by Modulating AUTOPHAGY PROTEIN6 Stability in Arabidopsis. Plant Cell, 2017. 29(4): p. 890-911 [PMID:28351989] Barros JAS, et al. Autophagy Deficiency Compromises Alternative Pathways of Respiration following Energy Deprivation in Arabidopsis thaliana. Plant Physiol., 2017. 175(1): p. 62-76 [PMID:28710132] Luo L, et al. Autophagy Is Rapidly Induced by Salt Stress and Is Required for Salt Tolerance in Arabidopsis. Front Plant Sci, 2017. 8: p. 1459 [PMID:28878796] Kang S,Shin KD,Kim JH,Chung T Autophagy-related (ATG) 11, ATG9 and the phosphatidylinositol 3-kinase control ATG2-mediated formation of autophagosomes in Arabidopsis. Plant Cell Rep., 2018. 37(4): p. 653-664 [PMID:29350244] Minina EA, et al. Transcriptional stimulation of rate-limiting components of the autophagic pathway improves plant fitness. J. Exp. Bot., 2018. 69(6): p. 1415-1432 [PMID:29365132] Zhao L, et al. Autophagy contributes to sulfonylurea herbicide tolerance via GCN2-independent regulation of amino acid homeostasis. Autophagy, 2018. 14(4): p. 702-714 [PMID:29377765]