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_A05G1677

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: 495aa MW: 51513.8 Da PI: 9.189

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A05G1677	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	17.2	1.4e-05	69	91	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Gh_A05G1677 69 FVCEICNKGFQRDQNLQLHRRGH 91 89*******************88 PP
2	zf-C2H2	15.8	4.1e-05	145	167	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC+ C+k + +s+ k H++t+ Gh_A05G1677 145 WKCERCSKKYAVQSDWKAHMKTC 167 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.35E-7	68	91	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.6E-5	68	91	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.017	69	91	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.949	69	91	IPR007087	Zinc finger, C2H2
Pfam	PF12171	7.9E-5	69	91	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	71	91	IPR007087	Zinc finger, C2H2
SMART	SM00355	220	110	140	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.2E-5	133	166	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.35E-7	140	166	No hit	No description
SMART	SM00355	77	145	165	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: 495 aa Download sequence Send to blast
MVELENSSAM TVSTASGEAT ASSLGNQIQD NQLTGGGPPK KKRNLPGMPD PDAEVIALSP 60 KTLLATNRFV CEICNKGFQR DQNLQLHRRG HNLPWKLRQR TSKEIRKRVY VCPEPSCVHH 120 NPARALGDLT GIKKHFCRKH GEKKWKCERC SKKYAVQSDW KAHMKTCGTR EYKCDCGTIF 180 SRRDSFITHR AFCDALAEES VRTQTIGVAN PEGNKNVNGN GSGNTTMVGG GAAATLPPPQ 240 PLTPSTTSAV SPGLSIQSSE VPENPMGLSP AAATTATTNV FASIFAPNSQ PSKISAPSSF 300 LQATTPLERT SLSLSSPLYL SNNGSSIFAG PENDHCHYAP SPQPAMSATA LLQKAAQMGA 360 AASNPSLLRG LGLAVSSASP AGQDPNVKSE SNTATASLGL GFPSNGSSGL TNPIIGSSSL 420 FGNKPTTLDL LGLGMADSGA SSSGLSALLT SFGGGFNVGA ATATSYGAGG SNNSPRETWE 480 GGAERKPNGP ANAML

Sequence ? help Back to Top

Protein Sequence Length: 495 aa Download sequence Send to blast

MVELENSSAM TVSTASGEAT ASSLGNQIQD NQLTGGGPPK KKRNLPGMPD PDAEVIALSP  60
KTLLATNRFV CEICNKGFQR DQNLQLHRRG HNLPWKLRQR TSKEIRKRVY VCPEPSCVHH  120
NPARALGDLT GIKKHFCRKH GEKKWKCERC SKKYAVQSDW KAHMKTCGTR EYKCDCGTIF  180
SRRDSFITHR AFCDALAEES VRTQTIGVAN PEGNKNVNGN GSGNTTMVGG GAAATLPPPQ  240
PLTPSTTSAV SPGLSIQSSE VPENPMGLSP AAATTATTNV FASIFAPNSQ PSKISAPSSF  300
LQATTPLERT SLSLSSPLYL SNNGSSIFAG PENDHCHYAP SPQPAMSATA LLQKAAQMGA  360
AASNPSLLRG LGLAVSSASP AGQDPNVKSE SNTATASLGL GFPSNGSSGL TNPIIGSSSL  420
FGNKPTTLDL LGLGMADSGA SSSGLSALLT SFGGGFNVGA ATATSYGAGG SNNSPRETWE  480
GGAERKPNGP ANAML

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-36	141	206	3	68	Zinc finger protein JACKDAW
5b3h_F	6e-36	141	206	3	68	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.7937	0.0	boll\| ovule\| stem

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Strongly up-regulated during seed development. {ECO:0000269\|PubMed:21571950}.
Uniprot	TISSUE SPECIFICITY: At 3 days post anthesis (DPA), expressed in the chalazal endosperm region. By 6 DPA, expressed in the endosperm and embryo. In fully germinated seed, strongest expression in the root tip and not detected in the cotyledons. In 4-days old seedlings, restricted to the vasculature of the cotyledons, the shoot apical meristem region, and the root tip. By 8 days, restricted to newly emerged leaves. {ECO:0000269\|PubMed:21571950}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor promoting the transition to germination by regulating light and hormonal signaling during seed maturation (PubMed:21571950). Acts as a positive regulator of phytochrome and/or gibberellin action (PubMed:21571950, PubMed:25035403). {ECO:0000269\|PubMed:21571950, ECO:0000269\|PubMed:25035403}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HQ526115	3e-44	HQ526115.1 Gossypium herbaceum clone NBRI_D2_1707 simple sequence repeat marker, mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016752233.1	0.0	PREDICTED: protein indeterminate-domain 2-like
Swissprot	Q9LVQ7	1e-143	IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBL	A0A1U8PPG6	0.0	A0A1U8PPG6_GOSHI; protein indeterminate-domain 2-like
STRING	Gorai.009G203800.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM155	28	306

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	1e-129	indeterminate(ID)-domain 2

Publications ? help Back to Top
Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]