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

Cotton_A_20230_BGI-A2_v1.0

Organism

Gossypium arboreum

Taxonomic ID

29729

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: 612aa MW: 66451.5 Da PI: 9.6345

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cotton_A_20230_BGI-A2_v1.0	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.1	3.2e-05	93	115	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Cotton_A_20230_BGI-A2_v1.0 93 FICEVCNKGFQREQNLQLHRRGH 115 89*******************88 PP
2	zf-C2H2	13.1	0.0003	169	191	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Cotton_A_20230_BGI-A2_v1.0 169 WKCEKCSKRYAVQSDWKAHSKTC 191 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.34E-7	92	115	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.9E-6	92	115	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0052	93	115	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.99	93	115	IPR007087	Zinc finger, C2H2
Pfam	PF12171	3.0E-5	93	115	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	95	115	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	134	164	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.2E-5	157	190	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.34E-7	164	189	No hit	No description
SMART	SM00355	130	169	189	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: 612 aa Download sequence Send to blast
MATASSSSGP FFGIREENQS QTKQQLQQHH TPTSSTGPVD PSPPPKKKRN QPGTPSKYPI 60 FFSSYFYYIY VFVYPDAEVV ALSPKTLMAT NRFICEVCNK GFQREQNLQL HRRGHNLPWK 120 LKQKTTKEVK KKVYLCPEPT CVHHDPSRAL GDLTGIKKHY SRKHGEKKWK CEKCSKRYAV 180 QSDWKAHSKT CGTREYRCDC GTLFSRRDSF ITHRAFCDAL AQETARHPPP LNSIGTHLYG 240 TSNYMGLGLS QVGTQISSIQ DPNNNQTAAD ILKLGGGGGG GPSRSSQFDH LLPPSMGSSS 300 SSSFRPQQQA MGFVMEESNQ IFNQEHQSQH GLLGNSKPFQ GLMQFPPDNN NNNNNNAASN 360 ASSAANLFNL SFLSKSGNNG GAGDYNLTSS GLLMSDNFNN ENGGNGGTNN ASNLFSNNLM 420 SDQMTSNIPS LFSSSVQNNN MVPQMSATAL LQKAAQMGST SRNKNTNDDS LLRTFANSSS 480 TGTKTSNFGA IFGDTAGSNL HELMNSIASG NSPIFGSGYD AVHGQESPYT NRSSMGQEQP 540 PPPPPQSMNV SGGGSDRLTR DFLGVGHIVR NMSGGAAQQR QGIGISRLSS ERNSNITAPT 600 SQQSFGERGN FQ

Sequence ? help Back to Top

Protein Sequence Length: 612 aa Download sequence Send to blast

MATASSSSGP FFGIREENQS QTKQQLQQHH TPTSSTGPVD PSPPPKKKRN QPGTPSKYPI  60
FFSSYFYYIY VFVYPDAEVV ALSPKTLMAT NRFICEVCNK GFQREQNLQL HRRGHNLPWK  120
LKQKTTKEVK KKVYLCPEPT CVHHDPSRAL GDLTGIKKHY SRKHGEKKWK CEKCSKRYAV  180
QSDWKAHSKT CGTREYRCDC GTLFSRRDSF ITHRAFCDAL AQETARHPPP LNSIGTHLYG  240
TSNYMGLGLS QVGTQISSIQ DPNNNQTAAD ILKLGGGGGG GPSRSSQFDH LLPPSMGSSS  300
SSSFRPQQQA MGFVMEESNQ IFNQEHQSQH GLLGNSKPFQ GLMQFPPDNN NNNNNNAASN  360
ASSAANLFNL SFLSKSGNNG GAGDYNLTSS GLLMSDNFNN ENGGNGGTNN ASNLFSNNLM  420
SDQMTSNIPS LFSSSVQNNN MVPQMSATAL LQKAAQMGST SRNKNTNDDS LLRTFANSSS  480
TGTKTSNFGA IFGDTAGSNL HELMNSIASG NSPIFGSGYD AVHGQESPYT NRSSMGQEQP  540
PPPPPQSMNV SGGGSDRLTR DFLGVGHIVR NMSGGAAQQR QGIGISRLSS ERNSNITAPT  600
SQQSFGERGN FQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-34	165	226	3	64	Zinc finger protein JACKDAW
5b3h_F	1e-34	165	226	3	64	Zinc finger protein JACKDAW
Search in ModeBase

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-141	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
AT2G02070.1	1e-120	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]