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_A05G2549

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: 166621 Da PI: 6.8235

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A05G2549	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_A05G2549 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_A05G2549 1406 RCPyeGCGKKFRSHKYAVLHQRVH 1429 69999*****************99 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	5.22E-27	236	451	No hit	No description
PROSITE profile	PS51184	33.855	284	453	IPR003347	JmjC domain
SMART	SM00558	5.4E-45	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
SuperFamily	SSF57667	1.37E-5	1405	1442	No hit	No description
PROSITE profile	PS50157	11.863	1405	1434	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.036	1405	1429	IPR015880	Zinc finger, C2H2-like
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	1.02E-9	1445	1487	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.8E-10	1460	1488	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	8.891	1465	1495	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.66	1465	1491	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	1467	1491	IPR007087	Zinc finger, C2H2

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: 1495 aa Download sequence Send to blast
MGNVEIPKWL KRLPLAPEFR PTDTEFADPI AYISKIEKEA GAYGICKIIP PLPKPSKKYV 60 FNNLNRSLSK SPELGSDVNI GSVSNFGDSG GDERERRAVF TTRHQELGWS GKRMKGVVSS 120 PQCGAQKQVW QSGEIYTLEQ FESKSKTFAK SLLGLLKEVS PLHIEALFWK VASEKSIYVE 180 YANDVPGSGF GEPEGQFRYF HRRRRKRMSY WRENSDCRKD EIDAVNYSQM VEINNTSVKS 240 DPDTRVETPK SSTTLSTIAS DVNSHSKRKS GNASNDMEGT AGWKLSNSPW NLQVIARSAG 300 SLTRFMPDDI PGVTSPMVYI GMLFSWFAWH VEDHELHSMN FLHTGSSKTW YAVPGDHAFA 360 FEEVIRAEAY GGNIDRLAAL SLLGEKTTLL SPELIVASGI PCCRLIQNPG EFVVTFPRAY 420 HVGFSHGFNC GEAANFGTPQ WLQVAKEAAV RRAAMNYLPM LSHQQLLYLL TMSFMSRVPR 480 SLLPGARSSR LRDRLKEERE VLVKKAFVED LLTENKLLSL LLKKGSTYRA IMWDPLLLPY 540 TSRDSELPSR TATDSTIMQE NVSDINGEDK SDQKNLLDEM CFYMENLNYL YSNDDDLTCD 600 FQVDSGTLVC VACGILGYPF MSVVQPSEGA AVEFLPVDHL SSQGSTVLVP KNAHSCPVEG 660 SVSDNLNHVL DLSLPFKHSA LPSITKFSDG WDTSNKYLRP RIFCLEHAVQ VEELLRSKGG 720 AKMLIICHSD YQKIKANAIP VADDIGIPFN YNDVPLDAAS EEDLNLINFA IDDEHDEIQE 780 DWTSKLGVNL RYCVKVRKNS SFKQVQHALP LSGLFTDKYS SLELFNIKWK SRKSRSKGKL 840 NHPSPSKPCE SVEMKVDEIM VEKLDSDISK YGQKIIQYSR RKKRKSDYST GGGGGVELLK 900 NDLPREDSAA SSQLLDKHGG NKSKINSRSE SIQAQLEVPT TSVVQRDQNK IVEESGPDDE 960 AQSLIACASS IKKCENKLME RNSENDESSP AEKCSKFCLV ADDEVYLENT ATATKVCNPV 1020 SEQQSDEPTS GYGLINGNSA SSHSAQRCAG RYNQGLEDIT VPKFSINGGA FSGMTSENEV 1080 QQGTEATSRN NSEVIIRSEV LKEPFAAADS CDGTVSQNKA QKQEIRINAR KEVLSGSFTS 1140 AGIDHQSTDL SVEEYSTISK NPGAEEDCHT DVTLDVEVFQ EIQATKGTGG DEVITCSNLP 1200 MQEKQPTPVM MEACSEIQQD SSSSKKPCVG ATADADSHEN DPNRYEKNEE SASCCRTPIN 1260 QTTIPIQKYS RAHRDTYATV NVNDGTGVCS SVENGDLESA MVNCKSNAMG RKRKRELEET 1320 CQKVGSDGFI RSPCEGLRPR AWKDATSSFD ADKASSEGLQ TKETRKPSTH AHRKIIIKKG 1380 SHGCDLEGCH MSFKTKEELR LHKRNRCPYE GCGKKFRSHK YAVLHQRVHD DDRPLKCPWK 1440 GCSMSFKWAW ARTEHIRVHT GERPYKCKVE GCSLSFRFVS DFSRHRRKTG HYIDS

Sequence ? help Back to Top

Protein Sequence Length: 1495 aa Download sequence Send to blast

MGNVEIPKWL KRLPLAPEFR PTDTEFADPI AYISKIEKEA GAYGICKIIP PLPKPSKKYV  60
FNNLNRSLSK SPELGSDVNI GSVSNFGDSG GDERERRAVF TTRHQELGWS GKRMKGVVSS  120
PQCGAQKQVW QSGEIYTLEQ FESKSKTFAK SLLGLLKEVS PLHIEALFWK VASEKSIYVE  180
YANDVPGSGF GEPEGQFRYF HRRRRKRMSY WRENSDCRKD EIDAVNYSQM VEINNTSVKS  240
DPDTRVETPK SSTTLSTIAS DVNSHSKRKS GNASNDMEGT AGWKLSNSPW NLQVIARSAG  300
SLTRFMPDDI PGVTSPMVYI GMLFSWFAWH VEDHELHSMN FLHTGSSKTW YAVPGDHAFA  360
FEEVIRAEAY GGNIDRLAAL SLLGEKTTLL SPELIVASGI PCCRLIQNPG EFVVTFPRAY  420
HVGFSHGFNC GEAANFGTPQ WLQVAKEAAV RRAAMNYLPM LSHQQLLYLL TMSFMSRVPR  480
SLLPGARSSR LRDRLKEERE VLVKKAFVED LLTENKLLSL LLKKGSTYRA IMWDPLLLPY  540
TSRDSELPSR TATDSTIMQE NVSDINGEDK SDQKNLLDEM CFYMENLNYL YSNDDDLTCD  600
FQVDSGTLVC VACGILGYPF MSVVQPSEGA AVEFLPVDHL SSQGSTVLVP KNAHSCPVEG  660
SVSDNLNHVL DLSLPFKHSA LPSITKFSDG WDTSNKYLRP RIFCLEHAVQ VEELLRSKGG  720
AKMLIICHSD YQKIKANAIP VADDIGIPFN YNDVPLDAAS EEDLNLINFA IDDEHDEIQE  780
DWTSKLGVNL RYCVKVRKNS SFKQVQHALP LSGLFTDKYS SLELFNIKWK SRKSRSKGKL  840
NHPSPSKPCE SVEMKVDEIM VEKLDSDISK YGQKIIQYSR RKKRKSDYST GGGGGVELLK  900
NDLPREDSAA SSQLLDKHGG NKSKINSRSE SIQAQLEVPT TSVVQRDQNK IVEESGPDDE  960
AQSLIACASS IKKCENKLME RNSENDESSP AEKCSKFCLV ADDEVYLENT ATATKVCNPV  1020
SEQQSDEPTS GYGLINGNSA SSHSAQRCAG RYNQGLEDIT VPKFSINGGA FSGMTSENEV  1080
QQGTEATSRN NSEVIIRSEV LKEPFAAADS CDGTVSQNKA QKQEIRINAR KEVLSGSFTS  1140
AGIDHQSTDL SVEEYSTISK NPGAEEDCHT DVTLDVEVFQ EIQATKGTGG DEVITCSNLP  1200
MQEKQPTPVM MEACSEIQQD SSSSKKPCVG ATADADSHEN DPNRYEKNEE SASCCRTPIN  1260
QTTIPIQKYS RAHRDTYATV NVNDGTGVCS SVENGDLESA MVNCKSNAMG RKRKRELEET  1320
CQKVGSDGFI RSPCEGLRPR AWKDATSSFD ADKASSEGLQ TKETRKPSTH AHRKIIIKKG  1380
SHGCDLEGCH MSFKTKEELR LHKRNRCPYE GCGKKFRSHK YAVLHQRVHD DDRPLKCPWK  1440
GCSMSFKWAW ARTEHIRVHT GERPYKCKVE GCSLSFRFVS DFSRHRRKTG HYIDS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6ip0_A	5e-55	267	467	137	346	Transcription factor jumonji (Jmj) family protein
6ip4_A	5e-55	267	467	137	346	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_017606763.1	0.0	PREDICTED: probable lysine-specific demethylase ELF6
Swissprot	Q6BDA0	0.0	ELF6_ARATH; Probable lysine-specific demethylase ELF6
TrEMBL	A0A0B0MQH6	0.0	A0A0B0MQH6_GOSAR; Putative lysine-specific demethylase ELF6-like protein
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]