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

Gh_D12G1529

Organism

Gossypium hirsutum

Taxonomic ID

3635

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

C2H2

Protein Properties

Length: 494aa MW: 53302.3 Da PI: 9.0498

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D12G1529	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.5	2.5e-05	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Gh_D12G1529 6 FICEVCNKGFQREQNLQLHRRGH 28 89*******************88 PP
2	zf-C2H2	13.4	0.00023	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Gh_D12G1529 82 WKCEKCSKRYAVQSDWKAHSKTC 104 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	5.3E-6	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.37E-7	5	28	No hit	No description
Pfam	PF12171	2.3E-5	6	28	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	6	28	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.99	6	28	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	47	77	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.7E-5	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.37E-7	77	102	No hit	No description
SMART	SM00355	130	82	102	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: 494 aa Download sequence Send to blast
MATNRFICEV CNKGFQREQN LQLHRRGHNL PWKLKQKSTK EVKKKVYLCP EPTCVHHEPS 60 RALGDLTGIK KHYSRKHGEK KWKCEKCSKR YAVQSDWKAH SKTCGTREYR CDCGTLFSRR 120 DSFITHRAFC DALAQETARH PTNNLTPIGS HHIFGGNHHQ MSLGLSQNQP LTSNMLRLGS 180 GTGVAKFEHL NSPPSNPSSL QNMPAFFMGD AANQGFLPEH QSHHGNGPYI NKPLHGLMQL 240 PDLQGNTNST APNSASLFNL GFFPSNSGAS SISTGENGGA SNSGFLSGNQ FNMGDVQVGS 300 GMASLYSSSS MQHENVSPNM SATALLQKAA QMGSTTSNNT CSLLRGLGSS SSSGVKSDRQ 360 VFAPNNFESG GSLRSQMEND SNLQGLMNSL ANGNSSIFGQ DHSNFGGFTG NGMTVEHHSN 420 NANFSNVDEA KLHQKLGVRI GESDKLTLDF LGVGEMVGNM GGNGQHGINI GSLNPDVKSS 480 AQATSQQFGC PKLV

Sequence ? help Back to Top

Protein Sequence Length: 494 aa Download sequence Send to blast

MATNRFICEV CNKGFQREQN LQLHRRGHNL PWKLKQKSTK EVKKKVYLCP EPTCVHHEPS  60
RALGDLTGIK KHYSRKHGEK KWKCEKCSKR YAVQSDWKAH SKTCGTREYR CDCGTLFSRR  120
DSFITHRAFC DALAQETARH PTNNLTPIGS HHIFGGNHHQ MSLGLSQNQP LTSNMLRLGS  180
GTGVAKFEHL NSPPSNPSSL QNMPAFFMGD AANQGFLPEH QSHHGNGPYI NKPLHGLMQL  240
PDLQGNTNST APNSASLFNL GFFPSNSGAS SISTGENGGA SNSGFLSGNQ FNMGDVQVGS  300
GMASLYSSSS MQHENVSPNM SATALLQKAA QMGSTTSNNT CSLLRGLGSS SSSGVKSDRQ  360
VFAPNNFESG GSLRSQMEND SNLQGLMNSL ANGNSSIFGQ DHSNFGGFTG NGMTVEHHSN  420
NANFSNVDEA KLHQKLGVRI GESDKLTLDF LGVGEMVGNM GGNGQHGINI GSLNPDVKSS  480
AQATSQQFGC PKLV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-34	78	139	3	64	Zinc finger protein JACKDAW
5b3h_F	3e-34	78	139	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.19258	0.0	boll

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012438382.1	0.0	PREDICTED: protein indeterminate-domain 4, chloroplastic
Refseq	XP_012438383.1	0.0	PREDICTED: protein indeterminate-domain 4, chloroplastic
Refseq	XP_012438384.1	0.0	PREDICTED: protein indeterminate-domain 4, chloroplastic
Swissprot	Q8GYC1	1e-124	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A0D2U4K4	0.0	A0A0D2U4K4_GOSRA; Uncharacterized protein
STRING	Gorai.008G168900.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4373	26	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.2	1e-103	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]