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_A03G1366

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: 445aa MW: 49446.4 Da PI: 9.1155

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A03G1366	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	15.8	3.9e-05	43	63	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C++Cgk F r nL+ H r H Gh_A03G1366 43 CEICGKGFQRDQNLQLHRRGH 63 *******************88 PP
2	zf-C2H2	13.6	0.0002	117	139	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Gh_A03G1366 117 WKCEKCSKRYAVQSDWKAHSKTC 139 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00355	0.076	41	63	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	1.03E-6	41	63	No hit	No description
PROSITE profile	PS50157	11.489	41	63	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	7.7E-5	41	63	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	43	63	IPR007087	Zinc finger, C2H2
SMART	SM00355	120	82	112	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	5.6E-5	105	138	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.03E-6	112	137	No hit	No description
SMART	SM00355	130	117	137	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: 445 aa Download sequence Send to blast
MLETMAEEPV SNGFMQDPVP GSNNPPVAKR KRNLPGTPGK FLCEICGKGF QRDQNLQLHR 60 RGHNLPWKLK QRTTKEVRKR VYVCPEKTCV HHHPSRALGD LTGIKKHFYR KHGEKKWKCE 120 KCSKRYAVQS DWKAHSKTCG TREYKCDCGT LFSRRDSFIT HRAFCDALAE ETARVNAASS 180 MHSLATTNFS YQLMGNPLDT GMPQHFPSIF KTISSNDETI DQTRRGFSLW MGQAPQGHDS 240 IGKSLQEIQQ FGSLNSGSMY SDPLVSTSNP PASDYQLNWV FGNKVSSGNA EDQLTSTSLP 300 LNNNAKENGT QLVSIPSLFS TQHQSQQTPS FSMSATALLQ KAAQIGATST DTSFLGSFGT 360 KCSNSQIQDG SKYSDLYVSN TQTTTLGRDM ENMANDISTL NQLQMYPAKR RYLQNEESGG 420 GQTRDFLGVG VQQAICHPSS INGWI

Sequence ? help Back to Top

Protein Sequence Length: 445 aa Download sequence Send to blast

MLETMAEEPV SNGFMQDPVP GSNNPPVAKR KRNLPGTPGK FLCEICGKGF QRDQNLQLHR  60
RGHNLPWKLK QRTTKEVRKR VYVCPEKTCV HHHPSRALGD LTGIKKHFYR KHGEKKWKCE  120
KCSKRYAVQS DWKAHSKTCG TREYKCDCGT LFSRRDSFIT HRAFCDALAE ETARVNAASS  180
MHSLATTNFS YQLMGNPLDT GMPQHFPSIF KTISSNDETI DQTRRGFSLW MGQAPQGHDS  240
IGKSLQEIQQ FGSLNSGSMY SDPLVSTSNP PASDYQLNWV FGNKVSSGNA EDQLTSTSLP  300
LNNNAKENGT QLVSIPSLFS TQHQSQQTPS FSMSATALLQ KAAQIGATST DTSFLGSFGT  360
KCSNSQIQDG SKYSDLYVSN TQTTTLGRDM ENMANDISTL NQLQMYPAKR RYLQNEESGG  420
GQTRDFLGVG VQQAICHPSS INGWI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-36	113	179	3	69	Zinc finger protein JACKDAW
5b3h_F	3e-36	113	179	3	69	Zinc finger protein JACKDAW
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in the ground tissue and stele cells of embryos and 2-days post-germination roots but not in the quiescent center (PubMed:17785527). Detected only in cells that perform asymmetric cell divisions (PubMed:17785527). In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269\|PubMed:17785527, ECO:0000269\|PubMed:25829440}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). 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). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269\|PubMed:17785527, ECO:0000269\|PubMed:21935722, ECO:0000269\|PubMed:24821766, ECO:0000269\|PubMed:25829440}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269\|PubMed:21935722}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016692521.1	0.0	PREDICTED: zinc finger protein NUTCRACKER-like
Swissprot	Q9ZWA6	1e-137	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	A0A2P5RGR4	0.0	A0A2P5RGR4_GOSBA; Uncharacterized protein
STRING	Gorai.005G198900.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3710	26	60

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.2	1e-140	C2H2 family protein

Publications ? help Back to Top
Muñoz-Strale D,León G Identification of two highly specific pollen promoters using transcriptomic data. Plant Physiol. Biochem., 2014. 83: p. 292-9 [PMID:25208507] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]