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_A12G1412

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: 574aa MW: 62089.4 Da PI: 9.7013

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A12G1412	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	16.2	2.9e-05	58	80	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Gh_A12G1412 58 FICEVCNKGFQREQNLQLHRRGH 80 89*******************88 PP
2	zf-C2H2	13.2	0.00027	134	156	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Gh_A12G1412 134 WKCEKCSKRYAVQSDWKAHSKTC 156 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF12171	2.1E-5	57	80	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	58	80	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	1.64E-7	58	80	No hit	No description
PROSITE profile	PS50157	10.99	58	80	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	1.4E-5	58	80	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	60	80	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	99	129	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.1E-5	122	155	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.64E-7	129	154	No hit	No description
SMART	SM00355	130	134	154	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: 574 aa Download sequence Send to blast
MATASSSSGP FFGIREENQS QTKQQLQQHH TPTSSTGPVD PSPPPKKKRN QPGTPSKFIC 60 EVCNKGFQRE QNLQLHRRGH NLPWKLKQKT TKEVKKKVYL CPEPTCVHHD PSRALGDLTG 120 IKKHYSRKHG EKKWKCEKCS KRYAVQSDWK AHSKTCGTRE YRCDCGTLFS RRDSFITHRA 180 FCDALAQETA RHPPPLNSIG THLYGTSNYM GLGLSQVGTQ ISSIQDPNNN QTAADILKLG 240 GGGPSRSSQF DHLLPPSMGS SSSSSFRPQQ QAMGFVMEES NQIFNQEHQS QHGLLGNSKP 300 FQGLMQFPPD NNNNNNNNAA SNASSAANLF NLSFLSNSGN NGGAGDYNLT SSGLLISDNF 360 NNENGGNGGT NNASNLFSNN LMSDQMTSNI PSLFSSSVQN NNMVPQMSAT ALLQKAAQMG 420 STSRNKNTND DSLLRTFANS SSTGTKTSNF GAIFGDTAGS NLHELMNSIA SGNSPIFGSG 480 YDAVHGQESP YTNRSSMGQE QPPPPPPQSM NVSGGGSDRL TRDFLGVGHI VRNMSGGAAQ 540 QRQGIGISRL SSERNSNITA PTSQQSFGER GNFQ

Sequence ? help Back to Top

Protein Sequence Length: 574 aa Download sequence Send to blast

MATASSSSGP FFGIREENQS QTKQQLQQHH TPTSSTGPVD PSPPPKKKRN QPGTPSKFIC  60
EVCNKGFQRE QNLQLHRRGH NLPWKLKQKT TKEVKKKVYL CPEPTCVHHD PSRALGDLTG  120
IKKHYSRKHG EKKWKCEKCS KRYAVQSDWK AHSKTCGTRE YRCDCGTLFS RRDSFITHRA  180
FCDALAQETA RHPPPLNSIG THLYGTSNYM GLGLSQVGTQ ISSIQDPNNN QTAADILKLG  240
GGGPSRSSQF DHLLPPSMGS SSSSSFRPQQ QAMGFVMEES NQIFNQEHQS QHGLLGNSKP  300
FQGLMQFPPD NNNNNNNNAA SNASSAANLF NLSFLSNSGN NGGAGDYNLT SSGLLISDNF  360
NNENGGNGGT NNASNLFSNN LMSDQMTSNI PSLFSSSVQN NNMVPQMSAT ALLQKAAQMG  420
STSRNKNTND DSLLRTFANS SSTGTKTSNF GAIFGDTAGS NLHELMNSIA SGNSPIFGSG  480
YDAVHGQESP YTNRSSMGQE QPPPPPPQSM NVSGGGSDRL TRDFLGVGHI VRNMSGGAAQ  540
QRQGIGISRL SSERNSNITA PTSQQSFGER GNFQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-34	130	191	3	64	Zinc finger protein JACKDAW
5b3h_F	3e-34	130	191	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.20456	0.0	boll

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Highly expressed in leaf tissues. {ECO:0000305\|PubMed:22898356}.

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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JX614606	1e-179	JX614606.1 Gossypium hirsutum clone NBRI_GE58125 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016703113.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q9ZUL3	1e-129	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A1U8KQ33	0.0	A0A1U8KQ33_GOSHI; protein indeterminate-domain 5, chloroplastic-like
STRING	Gorai.008G169000.1	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
AT2G02080.1	6e-92	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]