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_D12G1530

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: 605aa MW: 65791.8 Da PI: 9.334

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D12G1530	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	16.1	3.1e-05	89	111	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Gh_D12G1530 89 FICEVCNKGFQREQNLQLHRRGH 111 89*******************88 PP
2	zf-C2H2	13.1	0.00029	165	187	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Gh_D12G1530 165 WKCEKCSKRYAVQSDWKAHSKTC 187 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	6.8E-6	88	111	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.5E-7	88	111	No hit	No description
Pfam	PF12171	3.0E-5	89	111	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	89	111	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.99	89	111	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	91	111	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	130	160	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.2E-5	153	186	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.5E-7	160	185	No hit	No description
SMART	SM00355	130	165	185	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: 605 aa Download sequence Send to blast
MATASSSSGP FFGIREENQS QTKQQQQQHT PTSSTGPVDP SPPPKKKRNQ PGTPSKYPIF 60 FFILFLLHIY PDAEVVALSP KTLMATNRFI CEVCNKGFQR EQNLQLHRRG HNLPWKLKQK 120 TTKEVKKKVY LCPEPTCVHH DPSRALGDLT GIKKHYSRKH GEKKWKCEKC SKRYAVQSDW 180 KAHSKTCGTR EYRCDCGTLF SRRDSFITHR AFCDALAQET ARHPPPLNSI GTHLYGTSNY 240 MGLGLSQVGT QISSIQDPNN NQTAADILKL GGGGASRSSQ FDHLLPPSMG SSSSSSFRPQ 300 QQAMGFVMEE SNQIFNQEHQ SQHGLLGNSK PFQGLMQFPP DDDNNNNNNN ASNASSAANL 360 FNLSFLSNSG NNGCAGDYNL TSSGLLMSDN FNNENGGNGG TNNASNLFSN NLMSDQMTSN 420 IPSLFSSSVQ NNNMVPQMSA TALLQKAAQM GSTSSNKNTN DDSLLRTFAN SSSTGTKTSN 480 FGAIFGDTAG NNLHELMNSI ASGNSPIFGS GYDAVHGQES PYTNRSSMGQ EQPPPPPPQS 540 MNVSGGGSDR LTRDFLGVGQ IVRNMRGGAA QQRQGIGISR LSSERNSNIT APTSQQSFGE 600 RGNFQ

Sequence ? help Back to Top

Protein Sequence Length: 605 aa Download sequence Send to blast

MATASSSSGP FFGIREENQS QTKQQQQQHT PTSSTGPVDP SPPPKKKRNQ PGTPSKYPIF  60
FFILFLLHIY PDAEVVALSP KTLMATNRFI CEVCNKGFQR EQNLQLHRRG HNLPWKLKQK  120
TTKEVKKKVY LCPEPTCVHH DPSRALGDLT GIKKHYSRKH GEKKWKCEKC SKRYAVQSDW  180
KAHSKTCGTR EYRCDCGTLF SRRDSFITHR AFCDALAQET ARHPPPLNSI GTHLYGTSNY  240
MGLGLSQVGT QISSIQDPNN NQTAADILKL GGGGASRSSQ FDHLLPPSMG SSSSSSFRPQ  300
QQAMGFVMEE SNQIFNQEHQ SQHGLLGNSK PFQGLMQFPP DDDNNNNNNN ASNASSAANL  360
FNLSFLSNSG NNGCAGDYNL TSSGLLMSDN FNNENGGNGG TNNASNLFSN NLMSDQMTSN  420
IPSLFSSSVQ NNNMVPQMSA TALLQKAAQM GSTSSNKNTN DDSLLRTFAN SSSTGTKTSN  480
FGAIFGDTAG NNLHELMNSI ASGNSPIFGS GYDAVHGQES PYTNRSSMGQ EQPPPPPPQS  540
MNVSGGGSDR LTRDFLGVGQ IVRNMRGGAA QQRQGIGISR LSSERNSNIT APTSQQSFGE  600
RGNFQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-34	161	222	3	64	Zinc finger protein JACKDAW
5b3h_F	1e-34	161	222	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}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JX614606	0.0	JX614606.1 Gossypium hirsutum clone NBRI_GE58125 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012438385.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q9ZUL3	1e-140	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A0D2T7B8	0.0	A0A0D2T7B8_GOSRA; Uncharacterized protein
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	1e-105	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]