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_00000036-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: 468aa MW: 50699.1 Da PI: 9.4013

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
WALNUT_00000036-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	16.5	2.3e-05	21	43	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H WALNUT_00000036-RA 21 FICEVCNKGFQREQNLQLHRRGH 43 89*******************88 PP
2	zf-C2H2	13.5	0.00021	97	119	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ WALNUT_00000036-RA 97 WKCEKCSKRYAVQSDWKAHSKTC 119 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	5.0E-6	20	43	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.27E-7	20	43	No hit	No description
Pfam	PF12171	2.2E-5	21	43	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.99	21	43	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	21	43	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	23	43	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	62	92	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.6E-5	85	118	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.27E-7	92	117	No hit	No description
SMART	SM00355	130	97	117	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: 468 aa Download sequence Send to blast
MNPDAEVIAL SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLK QKTTKEPKRK 60 VYLCPEPTCV HHDPSRALGD LTGIKKHYSR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG 120 TREYRCDCGT LFSRRDSFIT HRAFCDALAQ ETARNPPSLS PTMGSHLYGS SNMGIGLSQV 180 GPQITSIQDQ NNSQSSEILR LVGARPGQFD HLLPPGVGSS FRSPQPPLPS SAFFMQPDSN 240 QNYHQEHQSS QGFLPNKSFH GLMQFSNFQN STTSTSPTAS NLFNLNFLSN SSTTNSSSNA 300 NNNNNNNNNN NSGLPSSGLL IPDHFENQDG TGVGGEGSNI FSGNVMADQI TSGVPSLYGS 360 SVRSNKNAMP PMSATALLQK AAQMGSTSSK NSASLLRTFG SSSSGGNKSD NKPLVPGSLS 420 SMFGENENHL QDLMNSFASG NSSIFGSGSG GLGTFGGYDA NRTNSHEL

Sequence ? help Back to Top

Protein Sequence Length: 468 aa Download sequence Send to blast

MNPDAEVIAL SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLK QKTTKEPKRK  60
VYLCPEPTCV HHDPSRALGD LTGIKKHYSR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG  120
TREYRCDCGT LFSRRDSFIT HRAFCDALAQ ETARNPPSLS PTMGSHLYGS SNMGIGLSQV  180
GPQITSIQDQ NNSQSSEILR LVGARPGQFD HLLPPGVGSS FRSPQPPLPS SAFFMQPDSN  240
QNYHQEHQSS QGFLPNKSFH GLMQFSNFQN STTSTSPTAS NLFNLNFLSN SSTTNSSSNA  300
NNNNNNNNNN NSGLPSSGLL IPDHFENQDG TGVGGEGSNI FSGNVMADQI TSGVPSLYGS  360
SVRSNKNAMP PMSATALLQK AAQMGSTSSK NSASLLRTFG SSSSGGNKSD NKPLVPGSLS  420
SMFGENENHL QDLMNSFASG NSSIFGSGSG GLGTFGGYDA NRTNSHEL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-34	93	154	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-34	93	154	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}.

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

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	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.
GenBank	AP015041	1e-122	AP015041.1 Vigna angularis var. angularis DNA, chromosome 8, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018841154.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic
Refseq	XP_018841164.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic
Refseq	XP_018841171.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic
Swissprot	Q9ZUL3	1e-131	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A2I4GBA6	0.0	A0A2I4GBA6_JUGRE; protein indeterminate-domain 5, chloroplastic
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
AT2G02080.1	1e-111	indeterminate(ID)-domain 4

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]