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

WALNUT_00008616-RA

Organism

Juglans regia

Taxonomic ID

51240

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Juglandaceae; Juglans

Family

C2H2

Protein Properties

Length: 544aa MW: 59560 Da PI: 9.4892

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
WALNUT_00008616-RA	genome	JHU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.3	2.8e-05	38	60	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H WALNUT_00008616-RA 38 FICEVCNKGFQREQNLQLHRRGH 60 89*******************88 PP
2	zf-C2H2	13.2	0.00026	115	137	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ WALNUT_00008616-RA 115 WKCEKCSKRYAVQSDWKAHSKTC 137 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	6.0E-6	37	60	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.49E-7	37	60	No hit	No description
Pfam	PF12171	2.6E-5	38	60	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.99	38	60	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	38	60	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	40	60	IPR007087	Zinc finger, C2H2
SMART	SM00355	150	80	110	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.9E-5	103	136	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.49E-7	110	135	No hit	No description
SMART	SM00355	130	115	135	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: 544 aa Download sequence Send to blast
MSASSSSYNI VWHFFSMTDP DAEVIALSPK TLMATNRFIC EVCNKGFQRE QNLQLHRRGH 60 NLPWKLKQKT TKELPKRKVY LCPEPTCVHH DPLRALGDLT GIKKHYSRKH GEKKWKCEKC 120 SKRYAVQSDW KAHSKTCGTR EYRCDCGTLF SRRDSFITHR AFCDALARET SRHPPSLSTS 180 TMGSHLYGRN NMGISLSQVG PQFSSIQDQN SQTSEILFDG ARQSQFHHIL PTGIGSSFRS 240 PQPLHSSAFF VQESTQNYEP ENTSQQGFSP NKSLHGLMQF SNFQNSTSTN PPTANNLFNL 300 NFLSSSSASS GSNIVNANNI NLSSSGLLMP NHFDNDVGTG RGNEGSSIFS GNVTADHQIT 360 TGPAFLHGSS IRSKNANLPM SATSLLQKAA QMGSTSSKNS ASPLRTFKSD MAPLVPGSLN 420 SMFGGNGNHL QDLMNSFATG NSIFGSGSGG LARFDGYHAN MSNLENMDER QNLHQNPTRS 480 VGASDSLTRD FLGVGQIVRS MSGVSQREQQ IQHQQQHGMD TSSSYSDRNT APSSQSFGGG 540 GGYP

Sequence ? help Back to Top

Protein Sequence Length: 544 aa Download sequence Send to blast

MSASSSSYNI VWHFFSMTDP DAEVIALSPK TLMATNRFIC EVCNKGFQRE QNLQLHRRGH  60
NLPWKLKQKT TKELPKRKVY LCPEPTCVHH DPLRALGDLT GIKKHYSRKH GEKKWKCEKC  120
SKRYAVQSDW KAHSKTCGTR EYRCDCGTLF SRRDSFITHR AFCDALARET SRHPPSLSTS  180
TMGSHLYGRN NMGISLSQVG PQFSSIQDQN SQTSEILFDG ARQSQFHHIL PTGIGSSFRS  240
PQPLHSSAFF VQESTQNYEP ENTSQQGFSP NKSLHGLMQF SNFQNSTSTN PPTANNLFNL  300
NFLSSSSASS GSNIVNANNI NLSSSGLLMP NHFDNDVGTG RGNEGSSIFS GNVTADHQIT  360
TGPAFLHGSS IRSKNANLPM SATSLLQKAA QMGSTSSKNS ASPLRTFKSD MAPLVPGSLN  420
SMFGGNGNHL QDLMNSFATG NSIFGSGSGG LARFDGYHAN MSNLENMDER QNLHQNPTRS  480
VGASDSLTRD FLGVGQIVRS MSGVSQREQQ IQHQQQHGMD TSSSYSDRNT APSSQSFGGG  540
GGYP

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	9e-34	111	172	3	64	Zinc finger protein JACKDAW
5b3h_F	9e-34	111	172	3	64	Zinc finger protein JACKDAW
Search in ModeBase

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}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC208494	1e-122	AC208494.1 Populus trichocarpa clone JGIACSB265-L05, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018823951.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q9ZUL3	1e-125	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A2I4EX26	0.0	A0A2I4EX26_JUGRE; protein indeterminate-domain 5, chloroplastic-like
STRING	POPTR_0010s10950.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1536	33	97

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-106	indeterminate(ID)-domain 5

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]