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

XP_016432428.1

Organism

Nicotiana tabacum

Taxonomic ID

4097

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

C2H2

Protein Properties

Length: 578aa MW: 63343.8 Da PI: 9.1869

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_016432428.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.2	1.4e-05	75	97	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H XP_016432428.1 75 FVCEVCNKGFQREQNLQLHRRGH 97 89*******************88 PP
2	zf-C2H2	15.1	6.7e-05	151	173	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ykC++C+k + +s+ k H +t+ XP_016432428.1 151 YKCEKCSKKYAVQSDWKAHTKTC 173 9********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	6.0E-8	74	97	No hit	No description
Gene3D	G3DSA:3.30.160.60	8.0E-6	74	97	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	3.8E-5	75	97	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	11.094	75	97	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0041	75	97	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	77	97	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	116	146	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.5E-5	139	172	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.0E-8	146	171	No hit	No description
SMART	SM00355	71	151	171	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: 578 aa Download sequence Send to blast
MAAGPSSAVF LAMREEEQNQ QMKQQQQQQQ ELLIQQQPQQ QQAPQKKRRN QPGTPNPDAE 60 IIALSPKTLM ATNRFVCEVC NKGFQREQNL QLHRRGHNLP WKLKQKSTKE VKRKVYLCPE 120 PTCVHHDPSR ALGDLTGIKK HYSRKHGEKK YKCEKCSKKY AVQSDWKAHT KTCGTREYKC 180 DCGTLFSRRD SFITHRAFCD ALAQESARNP PSLSSIGSHL YGSNNNMSLG HSKMGSQISD 240 HQHHSSNSTD ILHFGSNIKT STGQFDHNNL MGTSIGSAFR PSTSFFLPAD QSNHQDYGAN 300 KPSIHGLMQL PDLHNNGNNN SSPSVASMFN LNFFQNSNNN SENVGNSNIS GGGGGLLLPS 360 HQFSNSSGDG SNNSSNMFSA GSLLGTDHHI SSSSIPSLYG NNLNNNNNTA SPMSATALLQ 420 KAAQMGSTTS NNSSASLLKA FGSSSSATKS DIHPPPPVNF GNVVYGDPLS ENHLHDLVVN 480 AYGNNDQNQQ NNYGNSFEQQ QPPQKKQMLN NFSMENMGTE QANRLTRDFL GVGEIVRSMS 540 GGFGSSHRDH QQMSTLDSKA VPPPQSHHQS FGGAGNFQ

Sequence ? help Back to Top

Protein Sequence Length: 578 aa Download sequence Send to blast

MAAGPSSAVF LAMREEEQNQ QMKQQQQQQQ ELLIQQQPQQ QQAPQKKRRN QPGTPNPDAE  60
IIALSPKTLM ATNRFVCEVC NKGFQREQNL QLHRRGHNLP WKLKQKSTKE VKRKVYLCPE  120
PTCVHHDPSR ALGDLTGIKK HYSRKHGEKK YKCEKCSKKY AVQSDWKAHT KTCGTREYKC  180
DCGTLFSRRD SFITHRAFCD ALAQESARNP PSLSSIGSHL YGSNNNMSLG HSKMGSQISD  240
HQHHSSNSTD ILHFGSNIKT STGQFDHNNL MGTSIGSAFR PSTSFFLPAD QSNHQDYGAN  300
KPSIHGLMQL PDLHNNGNNN SSPSVASMFN LNFFQNSNNN SENVGNSNIS GGGGGLLLPS  360
HQFSNSSGDG SNNSSNMFSA GSLLGTDHHI SSSSIPSLYG NNLNNNNNTA SPMSATALLQ  420
KAAQMGSTTS NNSSASLLKA FGSSSSATKS DIHPPPPVNF GNVVYGDPLS ENHLHDLVVN  480
AYGNNDQNQQ NNYGNSFEQQ QPPQKKQMLN NFSMENMGTE QANRLTRDFL GVGEIVRSMS  540
GGFGSSHRDH QQMSTLDSKA VPPPQSHHQS FGGAGNFQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-34	147	226	3	72	Zinc finger protein JACKDAW
5b3h_F	6e-34	147	226	3	72	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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:0000305\|PubMed:19726569}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000305\|PubMed:17933900}.

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	HG975440	1e-110	HG975440.1 Solanum pennellii chromosome ch01, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016432428.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_016432429.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q8GYC1	1e-126	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A1S3WXN3	0.0	A0A1S3WXN3_TOBAC; protein indeterminate-domain 5, chloroplastic-like
STRING	XP_009786293.1	0.0	(Nicotiana sylvestris)

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

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-101	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]