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

estExt_Genemark1.C_60286

Common Name

COCSUDRAFT_65754

Organism

Coccomyxa subellipsoidea C-169

Taxonomic ID

574566

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Chlorophyta; Trebouxiophyceae; Trebouxiophyceae incertae sedis; Coccomyxaceae; Coccomyxa; Coccomyxa subellipsoidea

Family

MYB

Protein Properties

Length: 834aa MW: 92487.1 Da PI: 9.1826

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
estExt_Genemark1.C_60286	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	40.7	5.5e-13	8	53	2	48
SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 g W Ede+l+ av ++G ++W++I++ + ++++kqck rw+ +l estExt_Genemark1.C_60286 8 GVWKNTEDEILKAAVMKYGLNQWARISSLLV-RKSAKQCKARWYEWL 53 78***************************.**********986 PP
2	Myb_DNA-binding	33.2	1.3e-10	60	103	2	48
SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 WT eEde+l+++ k++++ W+tIa +g Rt+ qc +r+ k+l estExt_Genemark1.C_60286 60 TEWTREEDEKLLHLAKLMPTQ-WRTIAPIVG--RTPAQCLERYEKLL 103 68***************99.****8..********9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	14.564	2	53	IPR017930	Myb domain
SMART	SM00717	2.1E-14	6	55	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	5.2E-18	9	61	IPR009057	Homeodomain-like
Pfam	PF13921	1.3E-12	10	70	No hit	No description
CDD	cd00167	8.18E-12	10	53	No hit	No description
SuperFamily	SSF46689	1.65E-20	33	107	IPR009057	Homeodomain-like
PROSITE profile	PS51294	20.738	54	107	IPR017930	Myb domain
CDD	cd11659	8.83E-31	55	106	No hit	No description
SMART	SM00717	2.5E-12	58	105	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	2.0E-13	62	104	IPR009057	Homeodomain-like
Pfam	PF11831	1.9E-49	443	669	IPR021786	Pre-mRNA splicing factor component Cdc5p/Cef1

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009870	Biological Process	defense response signaling pathway, resistance gene-dependent
GO:0010204	Biological Process	defense response signaling pathway, resistance gene-independent
GO:0042742	Biological Process	defense response to bacterium
GO:0050832	Biological Process	defense response to fungus
GO:0009507	Cellular Component	chloroplast
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 834 aa Download sequence Send to blast
MRIMIKGGVW KNTEDEILKA AVMKYGLNQW ARISSLLVRK SAKQCKARWY EWLDPAIKKT 60 EWTREEDEKL LHLAKLMPTQ WRTIAPIVGR TPAQCLERYE KLLDAAAAKD DNYDPADDPR 120 RLRPGEIDPN PEAKPARPDP IDMDEDEKEM LSEARARLAN TRGKKAKRKA RERQLEEARR 180 LASLQKKREL RAAGIEMKAK AQRRRGIDYN REVAFEQAPA AGFFDTGAEK ERTREIGKEF 240 RPATLEEMEG RRRKDIEANL MKGDEQKAKL REAHNQPAAV AKAMELNDAS GMRRRGRMML 300 PAPQVTEEEL EAIAKGGGEV AMDVDMDGAG GEATRRLLGD YQTPARMATP MRTPRAVTAS 360 GQDRVMMEAQ NLSRLQQGQT PLFGGENPEL FDSDFSGITP KPFTAATPNP LAAGLTPRIG 420 ATPSLTHPGA TPSGGRAIAG VSATPSVAGT PLRGGPAAGM TPMRTPVRDE LGLNDPDMLL 480 PAEASRREAR AREAMEKNNL KAGLAGLPAP KNEYQIMVPE LPEDRDDGEA LLEEDAADIA 540 ARRKAAARAA EEAELRKRSQ VLQRGLPRPL SLEHGPEARN AEEAGGLSQR EAAEALLFSE 600 MKALLQHDAA KYPVKESKKD KKKKRPRPEP QPAEPLDEVA EEDMASALAV LRAETAHVRR 660 AMGHEGVSEE EYMESWAALS REFIYLPKRQ RYDRSISATN TDRVESMQAR NTLFAPLPSE 720 HEAVRSEMEK EAMRAAKLES RLTVLTKGYI TREAVVRKDM ETTWQAVQTA EQELACFRAL 780 SQREAQAMPE RKAAVAGRLA AQEEREQLLQ KRYKALSSDV AEARKALTAV AAA*

Sequence ? help Back to Top

Protein Sequence Length: 834 aa Download sequence Send to blast

MRIMIKGGVW KNTEDEILKA AVMKYGLNQW ARISSLLVRK SAKQCKARWY EWLDPAIKKT  60
EWTREEDEKL LHLAKLMPTQ WRTIAPIVGR TPAQCLERYE KLLDAAAAKD DNYDPADDPR  120
RLRPGEIDPN PEAKPARPDP IDMDEDEKEM LSEARARLAN TRGKKAKRKA RERQLEEARR  180
LASLQKKREL RAAGIEMKAK AQRRRGIDYN REVAFEQAPA AGFFDTGAEK ERTREIGKEF  240
RPATLEEMEG RRRKDIEANL MKGDEQKAKL REAHNQPAAV AKAMELNDAS GMRRRGRMML  300
PAPQVTEEEL EAIAKGGGEV AMDVDMDGAG GEATRRLLGD YQTPARMATP MRTPRAVTAS  360
GQDRVMMEAQ NLSRLQQGQT PLFGGENPEL FDSDFSGITP KPFTAATPNP LAAGLTPRIG  420
ATPSLTHPGA TPSGGRAIAG VSATPSVAGT PLRGGPAAGM TPMRTPVRDE LGLNDPDMLL  480
PAEASRREAR AREAMEKNNL KAGLAGLPAP KNEYQIMVPE LPEDRDDGEA LLEEDAADIA  540
ARRKAAARAA EEAELRKRSQ VLQRGLPRPL SLEHGPEARN AEEAGGLSQR EAAEALLFSE  600
MKALLQHDAA KYPVKESKKD KKKKRPRPEP QPAEPLDEVA EEDMASALAV LRAETAHVRR  660
AMGHEGVSEE EYMESWAALS REFIYLPKRQ RYDRSISATN TDRVESMQAR NTLFAPLPSE  720
HEAVRSEMEK EAMRAAKLES RLTVLTKGYI TREAVVRKDM ETTWQAVQTA EQELACFRAL  780
SQREAQAMPE RKAAVAGRLA AQEEREQLLQ KRYKALSSDV AEARKALTAV AAA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5mqf_L	0.0	2	816	3	791	Cell division cycle 5-like protein
5xjc_L	0.0	2	816	3	791	Cell division cycle 5-like protein
5yzg_L	0.0	2	816	3	791	Cell division cycle 5-like protein
5z56_L	0.0	2	816	3	791	Cell division cycle 5-like protein
5z57_L	0.0	2	816	3	791	Cell division cycle 5-like protein
5z58_L	0.0	2	816	3	791	Cell division cycle 5-like protein
6ff4_L	0.0	2	816	3	791	Cell division cycle 5-like protein
6ff7_L	0.0	2	816	3	791	Cell division cycle 5-like protein
6icz_L	0.0	2	816	3	791	Cell division cycle 5-like protein
6id0_L	0.0	2	816	3	791	Cell division cycle 5-like protein
6id1_L	0.0	2	816	3	791	Cell division cycle 5-like protein
6qdv_O	0.0	2	816	3	791	Cell division cycle 5-like protein
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	623	627	KRPRP

Functional Description ? help Back to Top
Source	Description
UniProt	Component of the MAC complex that probably regulates defense responses through transcriptional control and thereby is essential for plant innate immunity. Possesses a sequence specific DNA sequence 'CTCAGCG' binding activity. Involved in mRNA splicing and cell cycle control. May also play a role in the response to DNA damage. {ECO:0000250\|UniProtKB:Q99459, ECO:0000269\|PubMed:17298883, ECO:0000269\|PubMed:17575050, ECO:0000269\|PubMed:8917598}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00028	SELEX	Transfer from AT1G09770	Download

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_005648666.1	0.0	hypothetical protein COCSUDRAFT_65754
Swissprot	P92948	0.0	CDC5L_ARATH; Cell division cycle 5-like protein
TrEMBL	I0Z0F3	0.0	I0Z0F3_COCSC; Uncharacterized protein
STRING	XP_005648666.1	0.0	(Coccomyxa subellipsoidea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Chlorophytae	OGCP1040	16	17

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G09770.1	0.0	cell division cycle 5

Link Out ? help Back to Top
Entrez Gene	17042120

Publications ? help Back to Top
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] Blanc G, et al. The genome of the polar eukaryotic microalga Coccomyxa subellipsoidea reveals traits of cold adaptation. Genome Biol., 2012. 13(5): p. R39 [PMID:22630137] Li S, et al. MAC3A and MAC3B, Two Core Subunits of the MOS4-Associated Complex, Positively Influence miRNA Biogenesis. Plant Cell, 2018. 30(2): p. 481-494 [PMID:29437988]