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_D05G2825

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: 1495aa MW: 166189 Da PI: 6.8366

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D05G2825	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	11.8	0.00075	1384	1407	3	23
ET..TTTEEESSHHHHHHHHHH.T CS zf-C2H2 3 Cp..dCgksFsrksnLkrHirt.H 23 C C++sF++k++L+ H r+ + Gh_D05G2825 1384 CDleGCHMSFKTKEELRLHKRNrC 1407 77779***************9877 PP
2	zf-C2H2	11.1	0.0013	1406	1429	2	23
EET..TTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCp..dCgksFsrksnLkrHirtH 23 +Cp Cgk F+++ + + H+r+H Gh_D05G2825 1406 RCPyeGCGKKFRSHKYAVLHQRVH 1429 69999*****************99 PP
3	zf-C2H2	11.4	0.00097	1465	1491	1	23
EEET..TTTEEESSHHHHHHHHHH..T CS zf-C2H2 1 ykCp..dCgksFsrksnLkrHirt..H 23 ykC+ Cg sF+ s++ rH r+ H Gh_D05G2825 1465 YKCKveGCGLSFRFVSDFSRHRRKtgH 1491 99*********************9777 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00545	8.5E-14	15	55	IPR003349	JmjN domain
PROSITE profile	PS51183	13.883	16	57	IPR003349	JmjN domain
Pfam	PF02375	8.9E-15	17	50	IPR003349	JmjN domain
SuperFamily	SSF51197	4.26E-27	227	451	No hit	No description
SMART	SM00558	1.0E-44	284	453	IPR003347	JmjC domain
PROSITE profile	PS51184	33.839	284	453	IPR003347	JmjC domain
Pfam	PF02373	2.5E-35	317	436	IPR003347	JmjC domain
SMART	SM00355	22	1382	1404	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	0.036	1405	1429	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	1.39E-5	1405	1442	No hit	No description
PROSITE profile	PS50157	11.863	1405	1434	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	1.5E-4	1406	1433	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	1407	1429	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	6.5E-10	1434	1459	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	11.946	1435	1464	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0016	1435	1459	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	1437	1459	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	2.03E-10	1445	1487	No hit	No description
Gene3D	G3DSA:3.30.160.60	3.9E-11	1460	1488	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.22	1465	1491	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	9.619	1465	1495	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	1467	1491	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009741	Biological Process	response to brassinosteroid
GO:0009826	Biological Process	unidimensional cell growth
GO:0033169	Biological Process	histone H3-K9 demethylation
GO:0048577	Biological Process	negative regulation of short-day photoperiodism, flowering
GO:0048579	Biological Process	negative regulation of long-day photoperiodism, flowering
GO:0005634	Cellular Component	nucleus
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 1495 aa Download sequence Send to blast
MGNVEMPKWL KRLPLAPEFR PTDTEFADPI AYISKIEKEA GAYGICKIIP PLPKPSKRYV 60 FNNLNRSLAK SPELGSDVSI GSVSNFGDSG GDVRERRAVF TTRHQELGRS GKRMKGVVSS 120 PQCGAQKQVW QSGEIYTLEQ FESKSKTFAK SLLGLLKEVS PLHIEALFWK VASEKSIYVE 180 YANDVPGSGF GEPEGQFRYF HRRRRKRMSY RRENSECRKD EIDAVNNSQM VEINNTSVKS 240 GPDTRVETPK SSTTLSAIAS DVNSHSKRKS GNASNDMEGT AGWKLSNSPW NLQVIARSAG 300 SLTRFMPDDI PGVTSPMVYI GMLFSWFAWH VEDHELHSMN FLHTGSSKTW YAVPGDHAFA 360 FEEVIRAEAY GGNIDRLAAL SLLGEKTTLL SPELIVASGI PCCRLIQNPG EFVVTFPRAY 420 HVGFSHGFNC GEAANFGTPQ WLQVAKDAAV RRAAMNYLPM LSHQQLLYLL TMSFMSRVPR 480 SLLPGARSSR LRDRLKEERE VLVKKAFVED LLTENKLLSL LLKRGSTYRA IMWDPLLLPY 540 TSRDSELPSR TATDSTIMQE NVSDIHGEDK SDQKNLLDEM CFYMENLNYL YSNDDLTCDF 600 QVDSGTLVCV ACGILGYPFM SVVQPSEGAA MEFLPVDHLS SQGPTVLVPK NAHSCPIEGS 660 VSDNLNHVLD LSLPSKQSAL PSITKFSDGW DTSNKYLRPR VFCLEHAVQV EELLQSKGGA 720 KMLVICHSDY QKIKANAIPV ADDIGIPFNY NDVPLDAASE EDLNLINFAI DDEHDEIQED 780 WTSKLGVNLR YCVKVRKNSS FKQVQHALPL SGLFTDKYSS LELFNIKWQS RKSRSKGKLN 840 HPSPSKPCES VEMKVDEIMM EKLDSDISKY GQKIIQYTRR KKRKSDYSTG GGGGVELLKN 900 DLPREDSAAS SQFLDKHGGN KSKINARSES IQAQLEVPTT SVVQRDQNRI VEETGPDDEA 960 QSLIACAGSI KKCENKLMER NSENGEISPA EKCSKFCLVA DGEVYLENTA TATKVCNPVS 1020 EQQSDEPTSG YGLINGNSAS SHSAQRCAGR YNQGLEDITV PKFSINGGAF SGMTSENEVQ 1080 QGTEATSRNN SEVIIRSEVP KEPFAAADSC DGTVSQNKAQ KQEIQINARK EVLLSGSFTS 1140 AGIDHQSTDL SVEEYSTISK NPGAEEDCHT DVALDVEVLQ DIQATKGTGG DEVITCSDLP 1200 IQEKQPTPVM MEACSEIQQD SSSSKKLCVG ATADADSHEN DPNRYEKNEE SASCCHTPIN 1260 QTTIPIQNYS RAHRETCATV NVNDGTDVCS SVENGDLESA MVNCKSNAMG RKRKRELEET 1320 CQKVGSDGFI RSPCEGLRPR AWKDATSSFD ADKASSEGLQ TKETRKPSTH AHRKIIIKKG 1380 SHGCDLEGCH MSFKTKEELR LHKRNRCPYE GCGKKFRSHK YAVLHQRVHD DDRPLKCPWK 1440 GCSMSFKWAW ARTEHIRVHT GERPYKCKVE GCGLSFRFVS DFSRHRRKTG HYIDS

Sequence ? help Back to Top

Protein Sequence Length: 1495 aa Download sequence Send to blast

MGNVEMPKWL KRLPLAPEFR PTDTEFADPI AYISKIEKEA GAYGICKIIP PLPKPSKRYV  60
FNNLNRSLAK SPELGSDVSI GSVSNFGDSG GDVRERRAVF TTRHQELGRS GKRMKGVVSS  120
PQCGAQKQVW QSGEIYTLEQ FESKSKTFAK SLLGLLKEVS PLHIEALFWK VASEKSIYVE  180
YANDVPGSGF GEPEGQFRYF HRRRRKRMSY RRENSECRKD EIDAVNNSQM VEINNTSVKS  240
GPDTRVETPK SSTTLSAIAS DVNSHSKRKS GNASNDMEGT AGWKLSNSPW NLQVIARSAG  300
SLTRFMPDDI PGVTSPMVYI GMLFSWFAWH VEDHELHSMN FLHTGSSKTW YAVPGDHAFA  360
FEEVIRAEAY GGNIDRLAAL SLLGEKTTLL SPELIVASGI PCCRLIQNPG EFVVTFPRAY  420
HVGFSHGFNC GEAANFGTPQ WLQVAKDAAV RRAAMNYLPM LSHQQLLYLL TMSFMSRVPR  480
SLLPGARSSR LRDRLKEERE VLVKKAFVED LLTENKLLSL LLKRGSTYRA IMWDPLLLPY  540
TSRDSELPSR TATDSTIMQE NVSDIHGEDK SDQKNLLDEM CFYMENLNYL YSNDDLTCDF  600
QVDSGTLVCV ACGILGYPFM SVVQPSEGAA MEFLPVDHLS SQGPTVLVPK NAHSCPIEGS  660
VSDNLNHVLD LSLPSKQSAL PSITKFSDGW DTSNKYLRPR VFCLEHAVQV EELLQSKGGA  720
KMLVICHSDY QKIKANAIPV ADDIGIPFNY NDVPLDAASE EDLNLINFAI DDEHDEIQED  780
WTSKLGVNLR YCVKVRKNSS FKQVQHALPL SGLFTDKYSS LELFNIKWQS RKSRSKGKLN  840
HPSPSKPCES VEMKVDEIMM EKLDSDISKY GQKIIQYTRR KKRKSDYSTG GGGGVELLKN  900
DLPREDSAAS SQFLDKHGGN KSKINARSES IQAQLEVPTT SVVQRDQNRI VEETGPDDEA  960
QSLIACAGSI KKCENKLMER NSENGEISPA EKCSKFCLVA DGEVYLENTA TATKVCNPVS  1020
EQQSDEPTSG YGLINGNSAS SHSAQRCAGR YNQGLEDITV PKFSINGGAF SGMTSENEVQ  1080
QGTEATSRNN SEVIIRSEVP KEPFAAADSC DGTVSQNKAQ KQEIQINARK EVLLSGSFTS  1140
AGIDHQSTDL SVEEYSTISK NPGAEEDCHT DVALDVEVLQ DIQATKGTGG DEVITCSDLP  1200
IQEKQPTPVM MEACSEIQQD SSSSKKLCVG ATADADSHEN DPNRYEKNEE SASCCHTPIN  1260
QTTIPIQNYS RAHRETCATV NVNDGTDVCS SVENGDLESA MVNCKSNAMG RKRKRELEET  1320
CQKVGSDGFI RSPCEGLRPR AWKDATSSFD ADKASSEGLQ TKETRKPSTH AHRKIIIKKG  1380
SHGCDLEGCH MSFKTKEELR LHKRNRCPYE GCGKKFRSHK YAVLHQRVHD DDRPLKCPWK  1440
GCSMSFKWAW ARTEHIRVHT GERPYKCKVE GCGLSFRFVS DFSRHRRKTG HYIDS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ip0_A	4e-55	267	565	137	461	Transcription factor jumonji (Jmj) family protein
6ip4_A	4e-55	267	565	137	461	Arabidopsis JMJ13
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed at low levels in cotyledons and leaves. Detected in inflorescences, stems, roots and siliques but not in shoot apical meristems or root tips. {ECO:0000269\|PubMed:15377760, ECO:0000269\|PubMed:18713399}.

Functional Description ? help Back to Top
Source	Description
UniProt	Acts probably as a histone 'Lys-4' (H3K4me) demethylase. Involved in transcriptional gene regulation. Acts as a repressor of the photoperiodic flowering pathway and of FT. Binds around the transcription start site of the FT locus. {ECO:0000269\|PubMed:15377760, ECO:0000269\|PubMed:18467490, ECO:0000269\|PubMed:19946624}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016685832.1	0.0	PREDICTED: LOW QUALITY PROTEIN: probable lysine-specific demethylase ELF6
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	A0A1U8J654	0.0	A0A1U8J654_GOSHI; LOW QUALITY PROTEIN: probable lysine-specific demethylase ELF6
STRING	Gorai.009G313100.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM11520	27	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G04240.1	0.0	C2H2 family protein

Publications ? help Back to Top
Heidari B,Nemie-Feyissa D,Kangasjärvi S,Lillo C Antagonistic regulation of flowering time through distinct regulatory subunits of protein phosphatase 2A. PLoS ONE, 2013. 8(7): p. e67987 [PMID:23976921] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Crevillén P, et al. Epigenetic reprogramming that prevents transgenerational inheritance of the vernalized state. Nature, 2014. 515(7528): p. 587-90 [PMID:25219852] Yang H,Howard M,Dean C Physical coupling of activation and derepression activities to maintain an active transcriptional state at FLC. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(33): p. 9369-74 [PMID:27482092]