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_fgenesh1_pm.C_10087

Common Name

COCSUDRAFT_52117

Organism

Coccomyxa subellipsoidea C-169

Taxonomic ID

574566

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 329aa MW: 37032 Da PI: 6.28

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
estExt_fgenesh1_pm.C_10087	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	35.8	1.3e-11	191	216	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 y +C+++ +tG+C yGd CkF H+ estExt_fgenesh1_pm.C_10087 191 YQPDICKDYKETGFCGYGDACKFVHD 216 67789********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	3.53E-9	187	221	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.0E-7	190	217	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.849	190	218	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.0E-12	191	221	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.5E-9	191	216	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:3.30.40.10	6.3E-11	249	305	IPR013083	Zinc finger, RING/FYVE/PHD-type
SuperFamily	SSF57850	9.84E-11	260	307	No hit	No description
Pfam	PF14634	7.6E-7	261	302	IPR001841	Zinc finger, RING-type
PROSITE profile	PS50089	10.173	261	302	IPR001841	Zinc finger, RING-type
SMART	SM00184	7.8E-6	261	301	IPR001841	Zinc finger, RING-type
CDD	cd00162	2.16E-6	261	301	No hit	No description
PROSITE pattern	PS00518	0	279	288	IPR017907	Zinc finger, RING-type, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 329 aa Download sequence Send to blast
MDPTEDRPER DAQATAGPSG TDAQPTGGFT KRKNRGNLRK RPADDPQDKE GDEAVEGVSV 60 VRKAARASKD APLAFSTKAQ NGDKLEVFKF ESSRQLQQTT DQGATRLNEM ETAHDRDSRQ 120 ALLPPLARRE AVLRQATDGE QDDGTYKGMN DYVDYRKGFR REHTIGNEKG TGLHGPLRAS 180 ANVRMTVRFD YQPDICKDYK ETGFCGYGDA CKFVHDRSDY KSGWELDKEW DAREKRLQEA 240 KWGDQESGDE EEEDDGLPFA CYICREPWEK IASPVVTKCK HYFCEKCALE HNAKSSKCFV 300 CEAPTQGIFN VANDIKRKVK QKDRKDAA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5z56_M	2e-65	32	321	24	319	RING finger protein 113A
5z58_M	2e-65	32	321	24	319	RING finger protein 113A
6ff4_t	2e-65	32	321	24	319	RING finger protein 113A
6ff7_t	2e-65	32	321	24	319	RING finger protein 113A
Search in ModeBase

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_005651817.1	0.0	nucleic acid binding protein
TrEMBL	I0Z9F4	0.0	I0Z9F4_COCSC; Nucleic acid binding protein
STRING	XP_005651817.1	0.0	(Coccomyxa subellipsoidea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Chlorophytae	OGCP1483	16	16

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G01350.1	5e-89	C3H family protein

Link Out ? help Back to Top
Entrez Gene	17045288

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]