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

Neem_3117_f_1

Organism

Azadirachta indica

Taxonomic ID

124943

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta

Family

HD-ZIP

Protein Properties

Length: 819aa MW: 91123.4 Da PI: 7.979

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Neem_3117_f_1	genome	NGD	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	61.8	1.1e-19	52	107	1	56
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 +++ +++t+ q++e+e++F+++++p+ ++r+eL+++lgL+ qVk+WFqN+R+++k Neem_3117_f_1 52 KKRYHRHTQRQIQEMEAFFKECPHPDDKQRKELSRELGLEPLQVKFWFQNKRTQMK 107 688999***********************************************998 PP
2	START	181.6	4.5e-57	241	459	1	206
HHHHHHHHHHHHHHHHC-TT-EEEE...EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S..EEEEEEEEC CS START 1 elaeeaaqelvkkalaeepgWvkss...esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla..kaetlevis 86 ela +a++el+++a+a+ep+W e++n+de+l++f+++ + ++ea+r+s vv+m++ +lve+l+d+++ +++ + + Neem_3117_f_1 241 ELAVAAMEELMRMAQAGEPLWIPGEnctEMLNEDEYLRTFPRGIGpkplgLRSEASRESSVVIMNHINLVEILMDVAK---SMVKcvLRYCFKSYD 333 57899***************999999**********999****************************5...444433122334444 PP TT.........EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE- CS START 87 sg.........galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvdl 172 +g l +ae+q++splvp R+ +fvRy++q+++g+w++vdvS+ds ++ p + +++++pSg+li++++ng+skv+wvehv++ Neem_3117_f_1 334 PGspinrsrrkLQWSLASAEFQVPSPLVPtRENYFVRYCKQHPDGTWAVVDVSLDSLRPSP----ISKCRRRPSGCLIQELPNGYSKVIWVEHVEV 425 44555555644888899**************************************99....689999********************* PP -SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS START 173 kgrlphwllrslvksglaegaktwvatlqrqcek 206 ++r++h+++r++v+ gla+gak+wvatl+rqce+ Neem_3117_f_1 426 DDRSVHEIYRPVVNCGLAFGAKRWVATLDRQCER 459 ******************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	6.9E-22	37	107	IPR009057	Homeodomain-like
SuperFamily	SSF46689	2.97E-19	38	110	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.422	49	109	IPR001356	Homeobox domain
SMART	SM00389	8.5E-19	50	113	IPR001356	Homeobox domain
Pfam	PF00046	2.7E-17	52	107	IPR001356	Homeobox domain
CDD	cd00086	2.08E-18	52	110	No hit	No description
PROSITE pattern	PS00027	0	84	107	IPR017970	Homeobox, conserved site
SuperFamily	SSF55961	6.41E-30	232	461	No hit	No description
PROSITE profile	PS50848	35.703	232	462	IPR002913	START domain
CDD	cd08875	8.07E-101	236	458	No hit	No description
SMART	SM00234	2.3E-49	241	459	IPR002913	START domain
Pfam	PF01852	7.3E-47	242	459	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	2.0E-4	359	458	IPR023393	START-like domain
SuperFamily	SSF55961	8.8E-27	479	710	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0008289	Molecular Function	lipid binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 819 aa Download sequence Send to blast
MFESDHMFDM TSKSSESDLG KLKDDDYETK SGTETMEIPS GDDQDPSQCP KKKRYHRHTQ 60 RQIQEMEAFF KECPHPDDKQ RKELSRELGL EPLQVKFWFQ NKRTQMKAQQ ERHENQILKA 120 ENEKLRAENN RYKEALGNAT CPNCGGPAAL GEMSFDEQHL RIENARLREE IDRISAIAAK 180 YVGKPLSSFP HLSSHLPSRS LDLGFNNLGT QSGFVGEMYG GGDLIRSISG PTEADKPMIV 240 ELAVAAMEEL MRMAQAGEPL WIPGENCTEM LNEDEYLRTF PRGIGPKPLG LRSEASRESS 300 VVIMNHINLV EILMDVAKSM VKCVLRYCFK SYDPGSPINR SRRKLQWSLA SAEFQVPSPL 360 VPTRENYFVR YCKQHPDGTW AVVDVSLDSL RPSPISKCRR RPSGCLIQEL PNGYSKVIWV 420 EHVEVDDRSV HEIYRPVVNC GLAFGAKRWV ATLDRQCERL ASSMASNIPA GDLCVITSPE 480 GRKSMLKLAE RMVTSFCTGV GASTAHAWTT LSATGSDDVR VMTRKSMDDP GRPPGIVLSA 540 ATSFWIPVPP KRVFDFLRDE NSRSEWDILS NGGLVQEMAH IANGREPGNC VSLLRVNSAN 600 SSQSNMLVLQ ESCTDSTGSY VIYAPVDIVA MNMVLSGGDP DYVALLPSGF AILPDGPGLN 660 GGRILEVGSG GSLLTVAFQI LVDSVPTAKL SLGSVATVNS LIKCTVERIK AAVCNLIDID 720 EPGTNNIEKK RKKGDKKPAG IWCLRYFKKF IKRRSQERTL LDPCTLLLLC VEVVKKHFLC 780 KAKRFLYFDS QRTKRNTSLM TPIGSGEGIA KLIEITRSN

Sequence ? help Back to Top

Protein Sequence Length: 819 aa Download sequence Send to blast

MFESDHMFDM TSKSSESDLG KLKDDDYETK SGTETMEIPS GDDQDPSQCP KKKRYHRHTQ  60
RQIQEMEAFF KECPHPDDKQ RKELSRELGL EPLQVKFWFQ NKRTQMKAQQ ERHENQILKA  120
ENEKLRAENN RYKEALGNAT CPNCGGPAAL GEMSFDEQHL RIENARLREE IDRISAIAAK  180
YVGKPLSSFP HLSSHLPSRS LDLGFNNLGT QSGFVGEMYG GGDLIRSISG PTEADKPMIV  240
ELAVAAMEEL MRMAQAGEPL WIPGENCTEM LNEDEYLRTF PRGIGPKPLG LRSEASRESS  300
VVIMNHINLV EILMDVAKSM VKCVLRYCFK SYDPGSPINR SRRKLQWSLA SAEFQVPSPL  360
VPTRENYFVR YCKQHPDGTW AVVDVSLDSL RPSPISKCRR RPSGCLIQEL PNGYSKVIWV  420
EHVEVDDRSV HEIYRPVVNC GLAFGAKRWV ATLDRQCERL ASSMASNIPA GDLCVITSPE  480
GRKSMLKLAE RMVTSFCTGV GASTAHAWTT LSATGSDDVR VMTRKSMDDP GRPPGIVLSA  540
ATSFWIPVPP KRVFDFLRDE NSRSEWDILS NGGLVQEMAH IANGREPGNC VSLLRVNSAN  600
SSQSNMLVLQ ESCTDSTGSY VIYAPVDIVA MNMVLSGGDP DYVALLPSGF AILPDGPGLN  660
GGRILEVGSG GSLLTVAFQI LVDSVPTAKL SLGSVATVNS LIKCTVERIK AAVCNLIDID  720
EPGTNNIEKK RKKGDKKPAG IWCLRYFKKF IKRRSQERTL LDPCTLLLLC VEVVKKHFLC  780
KAKRFLYFDS QRTKRNTSLM TPIGSGEGIA KLIEITRSN

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	728	732	KKRKK

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that binds to the L1 box DNA sequence 5'-TAAATG[CT]A-3'. Plays a role in maintaining the identity of L1 cells, possibly by interacting with their L1 box or other target-gene promoters. Functionally redundant to ATML1. {ECO:0000269\|PubMed:12505995}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021294392.1	0.0	homeobox-leucine zipper protein MERISTEM L1
Refseq	XP_021294395.1	0.0	homeobox-leucine zipper protein MERISTEM L1
Refseq	XP_021294396.1	0.0	homeobox-leucine zipper protein MERISTEM L1
Refseq	XP_021294397.1	0.0	homeobox-leucine zipper protein MERISTEM L1
Swissprot	Q93V99	0.0	PDF2_ARATH; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBL	A0A061GGE7	0.0	A0A061GGE7_THECC; Protodermal factor 2 isoform 1
STRING	EOY28624	0.0	(Theobroma cacao)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM491	28	149

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G04890.1	0.0	protodermal factor 2

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]