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

fgenesh1_pg.25_#_70

Common Name

COCSUDRAFT_45533

Organism

Coccomyxa subellipsoidea C-169

Taxonomic ID

574566

Taxonomic Lineage

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

Family

Whirly

Protein Properties

Length: 251aa MW: 27171.1 Da PI: 10.1949

Description

Whirly family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
fgenesh1_pg.25_#_70	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Whirly	91.4	1e-28	74	219	1	136
Whirly 1 svyktkaalkvkavrptfealdsgnlklkraGglllelan.......ataerkydWekkqsfalsatevaelvd..laskesceffhdpa 81 ++yk+kaa + ++p +++ + g++ l+raG+l++e+a+ +++r y W+kkq+fals+ e+a lv+ + k e+fhdp fgenesh1_pg.25_#_70 74 AIYKGKAAASFRVRKPRWVEAQDGSISLDRAGSLIVEFAPvapgsgtNVGNRSYQWDKKQTFALSPVELAGLVEscTTGKSMKELFHDPN 163 59***********************************833333333699******************97555667789** PP Whirly 82 akgsneGkvrkalkvePlpdGsGlfvnlsvtnslvk.gnesfsvPvskaefavlrs 136 ++g+++Gk+ k+l+++ + G +++l+v+ s k g ++ +P++ ae l+s fgenesh1_pg.25_#_70 164 KGGTDSGKIAKTLSLQRFDQGQDWYLQLAVKDSASKdGSATMGLPITGAELYTLKS 219 **************************9997763677889*****999987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.30.31.10	7.6E-46	61	239	IPR009044	ssDNA-binding transcriptional regulator
SuperFamily	SSF54447	7.85E-28	69	235	IPR009044	ssDNA-binding transcriptional regulator
Pfam	PF08536	1.8E-32	75	219	IPR013742	Plant transcription factor

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006281	Biological Process	DNA repair
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0005739	Cellular Component	mitochondrion
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 251 aa Download sequence Send to blast
MSMKVASQKQ LGIRQVHRIA MMQGRSLAAS GLCNKVAPLK IVHRKPHGTT RCYAAAAPAQ 60 AQQSQQRNLY ANYAIYKGKA AASFRVRKPR WVEAQDGSIS LDRAGSLIVE FAPVAPGSGT 120 NVGNRSYQWD KKQTFALSPV ELAGLVESCT TGKSMKELFH DPNKGGTDSG KIAKTLSLQR 180 FDQGQDWYLQ LAVKDSASKD GSATMGLPIT GAELYTLKSL SEFLIPRLLG WDEVLAEPEL 240 VPANSYGSRQ *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4kop_A	2e-31	69	239	11	171	Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_B	2e-31	69	239	11	171	Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_C	2e-31	69	239	11	171	Single-stranded DNA-binding protein WHY2, mitochondrial
4kop_D	2e-31	69	239	11	171	Single-stranded DNA-binding protein WHY2, mitochondrial
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Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_005642827.1	0.0	ssDNA-binding transcriptional regulator
TrEMBL	I0YIR4	0.0	I0YIR4_COCSC; SsDNA-binding transcriptional regulator
STRING	XP_005642827.1	0.0	(Coccomyxa subellipsoidea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Chlorophytae	OGCP2026	15	16

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G71260.1	1e-32	WHIRLY 2

Link Out ? help Back to Top
Entrez Gene	17036190

Publications ? help Back to Top
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]