PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Previous version: v3.0 v4.0

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

cra_locus_25985_iso_5

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: 509aa MW: 55201.5 Da PI: 9.3192

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
cra_locus_25985_iso_5	genome	MPGR	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.4	2.6e-05	74	96	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H cra_locus_25985_iso_5_len_1865_ver_3 74 FICEVCNKGFQREQNLQLHRRGH 96 89*******************88 PP
2	zf-C2H2	12.8	0.00037	150	172	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ cra_locus_25985_iso_5_len_1865_ver_3 150 FKCDKCSKKYAVQSDWKAHSKTC 172 89*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	5.7E-8	73	96	No hit	No description
Gene3D	G3DSA:3.30.160.60	5.5E-6	73	96	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.99	74	96	IPR007087	Zinc finger, C2H2
Pfam	PF12171	2.4E-5	74	96	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	74	96	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	76	96	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	115	145	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.6E-5	138	171	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.7E-8	145	170	No hit	No description
SMART	SM00355	99	150	170	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: 509 aa Download sequence Send to blast
MAAAASSSGV FLSMREGDDS QQTNQLGHHL QAPALPASSS QPQNPAPKRR RNQPDPDAEV 60 IALSPKTLMA TNRFICEVCN KGFQREQNLQ LHRRGHNLPW KLRQKTTKEV KRKVYLCPEP 120 TCVHHDPSRA LGDLTGIKKH YSRKHGEKKF KCDKCSKKYA VQSDWKAHSK TCGTREYRCD 180 CGXPFLRRDS FITHRAFCDA LAQESARNPP SLTGIGSHLF GNTTSNGNNM SLGLSQLSAQ 240 ISASQDQNQN HSHSASDILR LGNNSRQFEQ HHHHNHNLIG AAGVGSSSTM QGSSAFRTPS 300 QTMPLPSSSF FLPPDHHQPD DQDYRHHHEH HHQPSLHHHG LMRLSDLHNN VPQSTAPNIF 360 NLSFFPTSMA ETTNNVGGGG GLLQLPNPFN NGHNSSGGGG SSNELGSSLF SSSGSLVGGG 420 GDMTSAIPSL YSSSILHHHQ SHGDVGHMSA TALLQKAAQL GSTTSNSSAS SLLKSFGSTT 480 SNGSVFGTAT DHHHHHQNNV NGGNNNNHR

Sequence ? help Back to Top

Protein Sequence Length: 509 aa Download sequence Send to blast

MAAAASSSGV FLSMREGDDS QQTNQLGHHL QAPALPASSS QPQNPAPKRR RNQPDPDAEV  60
IALSPKTLMA TNRFICEVCN KGFQREQNLQ LHRRGHNLPW KLRQKTTKEV KRKVYLCPEP  120
TCVHHDPSRA LGDLTGIKKH YSRKHGEKKF KCDKCSKKYA VQSDWKAHSK TCGTREYRCD  180
CGXPFLRRDS FITHRAFCDA LAQESARNPP SLTGIGSHLF GNTTSNGNNM SLGLSQLSAQ  240
ISASQDQNQN HSHSASDILR LGNNSRQFEQ HHHHNHNLIG AAGVGSSSTM QGSSAFRTPS  300
QTMPLPSSSF FLPPDHHQPD DQDYRHHHEH HHQPSLHHHG LMRLSDLHNN VPQSTAPNIF  360
NLSFFPTSMA ETTNNVGGGG GLLQLPNPFN NGHNSSGGGG SSNELGSSLF SSSGSLVGGG  420
GDMTSAIPSL YSSSILHHHQ SHGDVGHMSA TALLQKAAQL GSTTSNSSAS SLLKSFGSTT  480
SNGSVFGTAT DHHHHHQNNV NGGNNNNHR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-30	146	207	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-30	146	207	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_006379802.2	1e-160	protein indeterminate-domain 5, chloroplastic
Refseq	XP_006379803.2	1e-160	protein indeterminate-domain 5, chloroplastic
Refseq	XP_006379804.2	1e-160	protein indeterminate-domain 5, chloroplastic
Refseq	XP_024463340.1	1e-160	protein indeterminate-domain 5, chloroplastic
Refseq	XP_024463341.1	1e-160	protein indeterminate-domain 5, chloroplastic
Swissprot	Q9ZUL3	1e-116	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A2K1ZH36	1e-158	A0A2K1ZH36_POPTR; Uncharacterized protein
STRING	POPTR_0008s14180.4	1e-159	(Populus trichocarpa)

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]