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_D03G1290

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

HD-ZIP

Protein Properties

Length: 851aa MW: 93275.3 Da PI: 6.0285

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D03G1290	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	57.4	2.5e-18	27	85	3	57
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57 k ++t+eq+e+Le++++++++ps +r++L +++ +++ +q+kvWFqNrR +ek+ Gh_D03G1290 27 KYVRYTAEQVEALERVYAECPKPSSLRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 85 56789****************************************************97 PP
2	START	158	7.6e-50	166	374	2	205
HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EEEEEEEEX CS START 2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..galqlmvae 97 +aee+++e+++ka+ ++ Wv+++ +++g++++ +++ s+++sg a+ra+g+v +++ +e+l+d++ W ++++ e+ g g+++l +++ Gh_D03G1290 166 IAEETLAEFLSKATGTAVDWVQMPGMKPGPDSVGIIAISQSCSGVAARACGLVSLEPT-KIAEILKDRPSWLRDCRNLEVFTMFPAGsgGTIELVYTQ 262 7899****************************************************.7777777777***9999999999888***** PP XTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHH CS START 98 lqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrslvksglae 191 + a+++l+p Rdf+++Ry+ +l+ g++v++++S++ p+ +++vRae+lpSg+li+p+++g+s +++v+h +l++++++++lr+l++s+ + Gh_D03G1290 263 MFAPTTLAPaRDFWTLRYTTTLENGSFVVCERSLSGSGAGPStaaAAQFVRAEVLPSGYLIRPCEGGGSIIHIVDHLNLEAWSVPEVLRPLYESSKVI 360 *******************************88888877999************************************************ PP HHHHHHHHTXXXXX CS START 192 gaktwvatlqrqce 205 ++k++ a+l++ ++ Gh_D03G1290 361 AQKMTIAALRYVKQ 374 *******99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	15.337	22	86	IPR001356	Homeobox domain
SuperFamily	SSF46689	2.22E-16	23	88	IPR009057	Homeodomain-like
SMART	SM00389	1.7E-15	24	90	IPR001356	Homeobox domain
CDD	cd00086	4.87E-16	27	87	No hit	No description
Pfam	PF00046	7.6E-16	28	85	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	3.0E-18	29	85	IPR009057	Homeodomain-like
CDD	cd14686	4.94E-6	79	118	No hit	No description
PROSITE profile	PS50848	27.348	156	384	IPR002913	START domain
CDD	cd08875	1.91E-68	160	376	No hit	No description
SuperFamily	SSF55961	9.2E-34	165	377	No hit	No description
SMART	SM00234	2.4E-41	165	375	IPR002913	START domain
Gene3D	G3DSA:3.30.530.20	1.2E-19	165	370	IPR023393	START-like domain
Pfam	PF01852	1.5E-47	166	374	IPR002913	START domain
SuperFamily	SSF55961	3.43E-5	406	500	No hit	No description
SuperFamily	SSF55961	3.43E-5	535	600	No hit	No description
Pfam	PF08670	5.6E-46	701	850	IPR013978	MEKHLA

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding
GO:0008289	Molecular Function	lipid binding

Sequence ? help Back to Top
Protein Sequence Length: 851 aa Download sequence Send to blast
MAMAVAQHRV STSGSSSINK HLDASGKYVR YTAEQVEALE RVYAECPKPS SLRRQQLIRE 60 CPILSNIEPK QIKVWFQNRR CREKQRKESS RLQTVNRKLS AMNKLLMEEN DRLQKQVSQL 120 VCENGYMRQQ LHTVNASATD ASCDSVVTTP QHSLRDPTNP AGLLSIAEET LAEFLSKATG 180 TAVDWVQMPG MKPGPDSVGI IAISQSCSGV AARACGLVSL EPTKIAEILK DRPSWLRDCR 240 NLEVFTMFPA GSGGTIELVY TQMFAPTTLA PARDFWTLRY TTTLENGSFV VCERSLSGSG 300 AGPSTAAAAQ FVRAEVLPSG YLIRPCEGGG SIIHIVDHLN LEAWSVPEVL RPLYESSKVI 360 AQKMTIAALR YVKQIAQETS GEVVYSMGRQ PAVLRTFSQR LSRGFNDAIN GFNDDGWSIM 420 NCDGNEDVII AINSSKSFSC TSNPNNALPF VGGVLCAKAS MLLQNVPPAV LVRFLREHRS 480 EWADFNVDAY TAASLKAGTY AYPGMRPTRF TGSQIIMPLG HTIEHEEILE VIRLEGHSLV 540 QEDAFVSRDI HLLQICSGID ENAVGACSEL VFAPIDEMFP DDAPLIPSGF RIIPLESKPS 600 DTQDSLTTNR TLDLTSSLEV GPATNHSSGD VPSSQNSRSV LTIAFQFPFD SSLQDNVATM 660 ARQYVRSVIS SVQRVAMAIS PSGLSADVGP KLSPGSPEAL TLAQWICQSY RQVASVFVNL 720 RAELLRSESL GSDSILKNLW QHQDAILCCS LKSLPVFIFA NQAGLDMLET TLVSLQDITL 780 DKIFDEPGRK ALCSDFAKLM QQGYAYFPAG ICMSTMGRHV SYEQAVAWKV LEADESTVHC 840 LAFSFVNWSF V

Sequence ? help Back to Top

Protein Sequence Length: 851 aa Download sequence Send to blast

MAMAVAQHRV STSGSSSINK HLDASGKYVR YTAEQVEALE RVYAECPKPS SLRRQQLIRE  60
CPILSNIEPK QIKVWFQNRR CREKQRKESS RLQTVNRKLS AMNKLLMEEN DRLQKQVSQL  120
VCENGYMRQQ LHTVNASATD ASCDSVVTTP QHSLRDPTNP AGLLSIAEET LAEFLSKATG  180
TAVDWVQMPG MKPGPDSVGI IAISQSCSGV AARACGLVSL EPTKIAEILK DRPSWLRDCR  240
NLEVFTMFPA GSGGTIELVY TQMFAPTTLA PARDFWTLRY TTTLENGSFV VCERSLSGSG  300
AGPSTAAAAQ FVRAEVLPSG YLIRPCEGGG SIIHIVDHLN LEAWSVPEVL RPLYESSKVI  360
AQKMTIAALR YVKQIAQETS GEVVYSMGRQ PAVLRTFSQR LSRGFNDAIN GFNDDGWSIM  420
NCDGNEDVII AINSSKSFSC TSNPNNALPF VGGVLCAKAS MLLQNVPPAV LVRFLREHRS  480
EWADFNVDAY TAASLKAGTY AYPGMRPTRF TGSQIIMPLG HTIEHEEILE VIRLEGHSLV  540
QEDAFVSRDI HLLQICSGID ENAVGACSEL VFAPIDEMFP DDAPLIPSGF RIIPLESKPS  600
DTQDSLTTNR TLDLTSSLEV GPATNHSSGD VPSSQNSRSV LTIAFQFPFD SSLQDNVATM  660
ARQYVRSVIS SVQRVAMAIS PSGLSADVGP KLSPGSPEAL TLAQWICQSY RQVASVFVNL  720
RAELLRSESL GSDSILKNLW QHQDAILCCS LKSLPVFIFA NQAGLDMLET TLVSLQDITL  780
DKIFDEPGRK ALCSDFAKLM QQGYAYFPAG ICMSTMGRHV SYEQAVAWKV LEADESTVHC  840
LAFSFVNWSF V

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.13663	0.0	ovule

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed at the earliest stages and throughout LSM initiation and development. In embryo development, expressed at the heart stage until the 'walking stick' stage in the adaxial portion of the cotyledon primordia, the shoot apical meristem (SAM) and the vascular precursor cells of the hypocotyl and root. In developing flowers, expressed first at stage 1 in the center of L3 layer and then expands to the center of L2 and L1 layers. Expressed in the center of flower meristem through stages 4 and 5. At stage 6, expressed in the adaxial side of the carpel primordia and then on the adaxial carpel face. {ECO:0000269\|PubMed:11169198}.
Uniprot	TISSUE SPECIFICITY: Expressed in the interfascicular regions of stem and vascular bundles of young roots and leaves. {ECO:0000269\|PubMed:10559440}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the regulation of interfascicular fiber (cortical cells) and secondary xylem differentiation in the inflorescence stems. Required for lateral shoot meristems (LSMs) and flower meristems (FMs) initiation. May be involved in the determination of vascular patterning and organ polarity (PubMed:10559440, PubMed:11169198, PubMed:11402186, PubMed:15111711, PubMed:15598805, PubMed:7555701). Directly regulates the expression of AGO10, ZPR1, ZPR2, ZPR3 and ZPR4 (PubMed:22781836). Required to regulate adaxial-abaxial polarity and leaf axial patterning (PubMed:20807212). {ECO:0000269\|PubMed:10559440, ECO:0000269\|PubMed:11169198, ECO:0000269\|PubMed:11402186, ECO:0000269\|PubMed:15111711, ECO:0000269\|PubMed:15598805, ECO:0000269\|PubMed:20807212, ECO:0000269\|PubMed:22781836, ECO:0000269\|PubMed:7555701}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. Repressed by ZPR and miR165. Induced by DOF5.1 (PubMed:20807212). {ECO:0000269\|PubMed:15111711, ECO:0000269\|PubMed:17237362, ECO:0000269\|PubMed:20807212}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016753711.1	0.0	PREDICTED: homeobox-leucine zipper protein REVOLUTA-like
Swissprot	Q9SE43	0.0	REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBL	A0A2P5XTI5	0.0	A0A2P5XTI5_GOSBA; Uncharacterized protein
STRING	Gorai.003G142200.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4779	27	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60690.1	0.0	HD-ZIP family protein

Publications ? help Back to Top
Lian H,Li X,Liu Z,He Y HYL1 is required for establishment of stamen architecture with four microsporangia in Arabidopsis. J. Exp. Bot., 2013. 64(11): p. 3397-410 [PMID:23918970] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Baima S, et al. Negative feedback regulation of auxin signaling by ATHB8/ACL5-BUD2 transcription module. Mol Plant, 2014. 7(6): p. 1006-1025 [PMID:24777988] Jia X, et al. Functional plasticity of miR165/166 in plant development revealed by small tandem target mimic. Plant Sci., 2015. 233: p. 11-21 [PMID:25711809] Roodbarkelari F,Du F,Truernit E,Laux T ZLL/AGO10 maintains shoot meristem stem cells during Arabidopsis embryogenesis by down-regulating ARF2-mediated auxin response. BMC Biol., 2015. 13: p. 74 [PMID:26358077] Shi B, et al. Two-Step Regulation of a Meristematic Cell Population Acting in Shoot Branching in Arabidopsis. PLoS Genet., 2016. 12(7): p. e1006168 [PMID:27398935]