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_4

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: 512aa MW: 55455.8 Da PI: 9.4747

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
cra_locus_25985_iso_4	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	77	99	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H cra_locus_25985_iso_4_len_1874_ver_3 77 FICEVCNKGFQREQNLQLHRRGH 99 89*******************88 PP
2	zf-C2H2	12.8	0.00037	153	175	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ cra_locus_25985_iso_4_len_1874_ver_3 153 FKCDKCSKKYAVQSDWKAHSKTC 175 89*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	5.6E-6	76	99	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.8E-8	76	99	No hit	No description
PROSITE profile	PS50157	10.99	77	99	IPR007087	Zinc finger, C2H2
Pfam	PF12171	2.5E-5	77	99	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	77	99	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	79	99	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	118	148	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.6E-5	141	174	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.8E-8	148	173	No hit	No description
SMART	SM00355	99	153	173	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: 512 aa Download sequence Send to blast
MAAAASSSGV FLSMREGDDS QQTNQLGHHL QAPALPASSS QPQNPAPKRR RNQPGTPNPD 60 AEVIALSPKT LMATNRFICE VCNKGFQREQ NLQLHRRGHN LPWKLRQKTT KEVKRKVYLC 120 PEPTCVHHDP SRALGDLTGI KKHYSRKHGE KKFKCDKCSK KYAVQSDWKA HSKTCGTREY 180 RCDCGXPFLR RDSFITHRAF CDALAQESAR NPPSLTGIGS HLFGNTTSNG NNMSLGLSQL 240 SAQISASQDQ NQNHSHSASD ILRLGNNSRQ FEQHHHHNHN LIGAAGVGSS STMQGSSAFR 300 TPSQTMPLPS SSFFLPPDHH QPDDQDYRHH HEHHHQPSLH HHGLMRLSDL HNNVPQSTAP 360 NIFNLSFFPT SMAETTNNVG GGGGLLQLPN PFNNGHNSSG GGGSSNELGS SLFSSSGSLV 420 GGGGDMTSAI PSLYSSSILH HHQSHGDVGH MSATALLQKA AQLGSTTSNS SASSLLKSFG 480 STTSNGSVFG TATDHHHHHQ NNVNGGNNNN HR

Sequence ? help Back to Top

Protein Sequence Length: 512 aa Download sequence Send to blast

MAAAASSSGV FLSMREGDDS QQTNQLGHHL QAPALPASSS QPQNPAPKRR RNQPGTPNPD  60
AEVIALSPKT LMATNRFICE VCNKGFQREQ NLQLHRRGHN LPWKLRQKTT KEVKRKVYLC  120
PEPTCVHHDP SRALGDLTGI KKHYSRKHGE KKFKCDKCSK KYAVQSDWKA HSKTCGTREY  180
RCDCGXPFLR RDSFITHRAF CDALAQESAR NPPSLTGIGS HLFGNTTSNG NNMSLGLSQL  240
SAQISASQDQ NQNHSHSASD ILRLGNNSRQ FEQHHHHNHN LIGAAGVGSS STMQGSSAFR  300
TPSQTMPLPS SSFFLPPDHH QPDDQDYRHH HEHHHQPSLH HHGLMRLSDL HNNVPQSTAP  360
NIFNLSFFPT SMAETTNNVG GGGGLLQLPN PFNNGHNSSG GGGSSNELGS SLFSSSGSLV  420
GGGGDMTSAI PSLYSSSILH HHQSHGDVGH MSATALLQKA AQLGSTTSNS SASSLLKSFG  480
STTSNGSVFG TATDHHHHHQ NNVNGGNNNN HR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-30	149	210	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-30	149	210	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-165	protein indeterminate-domain 5, chloroplastic
Refseq	XP_006379803.2	1e-165	protein indeterminate-domain 5, chloroplastic
Refseq	XP_006379804.2	1e-165	protein indeterminate-domain 5, chloroplastic
Refseq	XP_024463340.1	1e-165	protein indeterminate-domain 5, chloroplastic
Refseq	XP_024463341.1	1e-165	protein indeterminate-domain 5, chloroplastic
Swissprot	Q9ZUL3	1e-120	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A2K1ZH36	1e-163	A0A2K1ZH36_POPTR; Uncharacterized protein
STRING	POPTR_0008s14180.4	1e-164	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA103	24	350

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]