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

cra_locus_25985_iso_2

Organism

Catharanthus roseus

Taxonomic ID

4058

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus

Family

C2H2

Protein Properties

Length: 441aa MW: 48043.6 Da PI: 9.3295

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
cra_locus_25985_iso_2	genome	MPGR	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.6	2.1e-05	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H cra_locus_25985_iso_2_len_1427_ver_3 6 FICEVCNKGFQREQNLQLHRRGH 28 89*******************88 PP
2	zf-C2H2	13	0.00031	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ cra_locus_25985_iso_2_len_1427_ver_3 82 FKCDKCSKKYAVQSDWKAHSKTC 104 89*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	4.64E-8	5	28	No hit	No description
Gene3D	G3DSA:3.30.160.60	4.7E-6	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.99	6	28	IPR007087	Zinc finger, C2H2
Pfam	PF12171	2.0E-5	6	28	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	6	28	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	47	77	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.2E-5	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	4.64E-8	77	102	No hit	No description
SMART	SM00355	99	82	102	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 441 aa Download sequence Send to blast
MATNRFICEV CNKGFQREQN LQLHRRGHNL PWKLRQKTTK EVKRKVYLCP EPTCVHHDPS 60 RALGDLTGIK KHYSRKHGEK KFKCDKCSKK YAVQSDWKAH SKTCGTREYR CDCGXPFLRR 120 DSFITHRAFC DALAQESARN PPSLTGIGSH LFGNTTSNGN NMSLGLSQLS AQISASQDQN 180 QNHSHSASDI LRLGNNSRQF EQHHHHNHNL IGAAGVGSSS TMQGSSAFRT PSQTMPLPSS 240 SFFLPPDHHQ PDDQDYRHHH EHHHQPSLHH HGLMRLSDLH NNVPQSTAPN IFNLSFFPTS 300 MAETTNNVGG GGGLLQLPNP FNNGHNSSGG GGSSNELGSS LFSSSGSLVG GGGDMTSAIP 360 SLYSSSILHH HQSHGDVGHM SATALLQKAA QLGSTTSNSS ASSLLKSFGS TTSNGSVFGT 420 ATDHHHHHQN NVNGGNNNNH R

Sequence ? help Back to Top

Protein Sequence Length: 441 aa Download sequence Send to blast

MATNRFICEV CNKGFQREQN LQLHRRGHNL PWKLRQKTTK EVKRKVYLCP EPTCVHHDPS  60
RALGDLTGIK KHYSRKHGEK KFKCDKCSKK YAVQSDWKAH SKTCGTREYR CDCGXPFLRR  120
DSFITHRAFC DALAQESARN PPSLTGIGSH LFGNTTSNGN NMSLGLSQLS AQISASQDQN  180
QNHSHSASDI LRLGNNSRQF EQHHHHNHNL IGAAGVGSSS TMQGSSAFRT PSQTMPLPSS  240
SFFLPPDHHQ PDDQDYRHHH EHHHQPSLHH HGLMRLSDLH NNVPQSTAPN IFNLSFFPTS  300
MAETTNNVGG GGGLLQLPNP FNNGHNSSGG GGSSNELGSS LFSSSGSLVG GGGDMTSAIP  360
SLYSSSILHH HQSHGDVGHM SATALLQKAA QLGSTTSNSS ASSLLKSFGS TTSNGSVFGT  420
ATDHHHHHQN NVNGGNNNNH R

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-30	78	139	3	64	Zinc finger protein JACKDAW
5b3h_F	3e-30	78	139	3	64	Zinc finger protein JACKDAW
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Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269\|PubMed:22898356, ECO:0000269\|PubMed:24821766}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00255	DAP	Transfer from AT2G02070	Download

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021691809.1	1e-142	protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q9ZUL3	1e-105	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A2K1ZH36	1e-139	A0A2K1ZH36_POPTR; Uncharacterized protein
TrEMBL	B9S7A9	1e-139	B9S7A9_RICCO; Nucleic acid binding protein, putative
STRING	POPTR_0008s14180.4	1e-139	(Populus trichocarpa)
STRING	XP_002521878.1	1e-140	(Ricinus communis)

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]