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_8127_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: 537aa MW: 58603.8 Da PI: 9.7099

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
cra_locus_8127_iso_5	genome	MPGR	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.1	3.3e-05	76	98	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F r nL+ H r H cra_locus_8127_iso_5_len_2523_ver_3 76 FICEICNKGFQRDQNLQLHRRGH 98 89*******************88 PP
2	zf-C2H2	11.8	0.00077	152	174	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H + + cra_locus_8127_iso_5_len_2523_ver_3 152 WKCEKCSKKYAVQSDWKAHSKIC 174 58*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	5.31E-7	75	98	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.4E-5	75	98	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.022	76	98	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.845	76	98	IPR007087	Zinc finger, C2H2
Pfam	PF12171	6.5E-5	76	98	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	78	98	IPR007087	Zinc finger, C2H2
SMART	SM00355	100	117	147	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.8E-4	140	173	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	5.31E-7	147	172	No hit	No description
SMART	SM00355	140	152	172	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 537 aa Download sequence Send to blast
MTXSSSIRGF IHHQDPNNII NPPPHHDPNP IPPPNNNPNP TSNPSAKRKR NLPGTPDPDA 60 EVIALSPKSL MATNRFICEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTNK EVRKKVYICP 120 EKTCVHHDPS RALGDLTGIK KHFSRKHGEK KWKCEKCSKK YAVQSDWKAH SKICGTREYK 180 CDCGTLFSRK DSFITHRAFC DALAEESARF TSVPTAPNLS FRNELFNGGI TNLHQGGNAQ 240 FSGVLRPENI GGLVDSLDGQ KPRLPMWLDN ANSQVLSPIG NSGNNSNNAA FLASSSSTSL 300 QELVQMSSQN QWLINNNRGQ DSSSSFPVGG ANVSSSSSGL QRVVLKEEEE NKANLSESLN 360 SMYYNETSAH MSATALLQKA AQMGSTRSNS SIFGTGFGLM SSSLSTQLGN FNSLSQNHHH 420 HHHENNLNGL MTSTPNSSST LTSSHHQGEG LLFGNMNSST SLMGNPPAPT MIPNNDQRNI 480 QSNKSIGNDQ AAAAGGEGSL TRDFLGVGRG SENRQPFLKF TSMGNNSNSA MNSFGSH

Sequence ? help Back to Top

Protein Sequence Length: 537 aa Download sequence Send to blast

MTXSSSIRGF IHHQDPNNII NPPPHHDPNP IPPPNNNPNP TSNPSAKRKR NLPGTPDPDA  60
EVIALSPKSL MATNRFICEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTNK EVRKKVYICP  120
EKTCVHHDPS RALGDLTGIK KHFSRKHGEK KWKCEKCSKK YAVQSDWKAH SKICGTREYK  180
CDCGTLFSRK DSFITHRAFC DALAEESARF TSVPTAPNLS FRNELFNGGI TNLHQGGNAQ  240
FSGVLRPENI GGLVDSLDGQ KPRLPMWLDN ANSQVLSPIG NSGNNSNNAA FLASSSSTSL  300
QELVQMSSQN QWLINNNRGQ DSSSSFPVGG ANVSSSSSGL QRVVLKEEEE NKANLSESLN  360
SMYYNETSAH MSATALLQKA AQMGSTRSNS SIFGTGFGLM SSSLSTQLGN FNSLSQNHHH  420
HHHENNLNGL MTSTPNSSST LTSSHHQGEG LLFGNMNSST SLMGNPPAPT MIPNNDQRNI  480
QSNKSIGNDQ AAAAGGEGSL TRDFLGVGRG SENRQPFLKF TSMGNNSNSA MNSFGSH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-36	148	213	3	68	Zinc finger protein JACKDAW
5b3h_F	4e-36	148	213	3	68	Zinc finger protein JACKDAW
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	102	114	KLKQRTNKEVRKK

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that, together with JKD, regulates tissue boundaries and asymmetric cell division in roots by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:25829440). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). 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:24821766, ECO:0000269\|PubMed:25829440}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_027108036.1	0.0	zinc finger protein BALDIBIS-like isoform X2
Swissprot	Q944L3	1e-123	IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBL	A0A1S3XRQ4	0.0	A0A1S3XRQ4_TOBAC; protein indeterminate-domain 9-like isoform X2
TrEMBL	A0A1U7XIP2	0.0	A0A1U7XIP2_NICSY; zinc finger protein JACKDAW-like
STRING	XP_009789501.1	0.0	(Nicotiana sylvestris)

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]