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_A13G2011

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: 831aa MW: 91229.3 Da PI: 6.6026

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A13G2011	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	57.2	2.8e-18	24	81	4	57
-SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS Homeobox 4 RttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57 ++t+eq+e+Le++++++++ps +r++L +++ +++ +q+kvWFqNrR +ek+ Gh_A13G2011 24 YVRYTAEQVEALERVYAECPKPSSLRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 81 5789****************************************************97 PP
2	START	158.6	4.7e-50	162	369	2	204
HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEECTT..EEEEEEEEX CS START 2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevissg..galqlmvae 97 +aee+++e+++ka+ ++ +Wv+++ +++g++++ +f+ s+++sg a+ra+g+v +++ +e+l+d++ W ++++k e+ g g+++l +++ Gh_A13G2011 162 IAEETLAEFLSKATGTAVNWVQMPGMKPGPDSVGIFAISQSCSGMAARACGLVSLEPT-KIAEILKDRPSWFRDCRKLEVFTMFPAGngGTIELVYTQ 258 7899****************************************************.7777777777*********9999999***** PP XTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHH CS START 98 lqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrslvksglae 191 + a+++l+p Rdf+++Ry+ +++ g++v++++S++ p+ +++vRae+lpSg+li+p+++g+s +++v+h +l++++++++lr+l++s+++ Gh_A13G2011 259 MFAPTTLAPaRDFWTLRYTTTSENGSLVVCERSLSGSGAGPSvasAAQFVRAEVLPSGYLIRPCEGGGSIIHIVDHLNLEAWSVPEVLRPLYESSRVI 356 *******************************998888889999*********************************************** PP HHHHHHHHTXXXX CS START 192 gaktwvatlqrqc 204 ++k++ +l++ + Gh_A13G2011 357 AQKMTIPALRYVR 369 ****9999876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	15.24	18	82	IPR001356	Homeobox domain
SMART	SM00389	2.0E-15	20	86	IPR001356	Homeobox domain
SuperFamily	SSF46689	3.12E-16	23	85	IPR009057	Homeodomain-like
CDD	cd00086	4.83E-16	23	83	No hit	No description
Pfam	PF00046	7.4E-16	24	81	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	2.9E-18	25	81	IPR009057	Homeodomain-like
CDD	cd14686	1.75E-6	75	114	No hit	No description
PROSITE profile	PS50848	26.784	152	380	IPR002913	START domain
CDD	cd08875	5.65E-69	156	372	No hit	No description
SMART	SM00234	2.6E-40	161	371	IPR002913	START domain
SuperFamily	SSF55961	2.47E-33	161	373	No hit	No description
Gene3D	G3DSA:3.30.530.20	5.4E-19	161	344	IPR023393	START-like domain
Pfam	PF01852	1.2E-47	162	370	IPR002913	START domain
Pfam	PF08670	9.5E-44	692	830	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: 831 aa Download sequence Send to blast
MAMAMTHHHN RESSIDKHLD TGKYVRYTAE QVEALERVYA ECPKPSSLRR QQLIRECPIL 60 SNIEPKQIKV WFQNRRCREK QRKEASRLQT VNRKLTAMNK LLMEENDRLQ KQVSQLVCEN 120 GYMRQQLHTV NASATDASCD SAVTTPQHSL RNANNPAGLL SIAEETLAEF LSKATGTAVN 180 WVQMPGMKPG PDSVGIFAIS QSCSGMAARA CGLVSLEPTK IAEILKDRPS WFRDCRKLEV 240 FTMFPAGNGG TIELVYTQMF APTTLAPARD FWTLRYTTTS ENGSLVVCER SLSGSGAGPS 300 VASAAQFVRA EVLPSGYLIR PCEGGGSIIH IVDHLNLEAW SVPEVLRPLY ESSRVIAQKM 360 TIPALRYVRQ IAQETSGEVV YSLGRQPAVL RTFSQRLSRG FNEAINGFNE DGWSIMNCDG 420 TEDVIIAINS GKSLSNSSNL TTGLSFLGGV LCAKASMLLQ NVPPAVLVRF LREHRLEWAD 480 FNVDAYSAAS LKAGTYTYPG MRPTSFTGSQ IIMPLGQTVE HEELLEVIRL EGQSLTQEDA 540 FLSRDIHLLQ ICSGIDDNAV GACSELVFAP IDEMFPDDAA LLPSGFRIIP LESKPDSLAT 600 NRTLDLTSSL EVGPATSQAA GDSPSQNARS VLTIAFQFPF DTNLQDNVAT MARQYVRSVI 660 SSVQRVAMAI SPCGSSPTIG PKPSPGSPEA LTLAHWICQS YRQLLKSESL GGDSVLKNLW 720 QHQDAILCCS LKSVPVFIFA NQAGLDMLET TLVALQDITL DKIFDELGRK ALCFDFTKLM 780 QQGFTHLLAG VCMSTMGRHV SYEQAVAWKV LAADAKTVHC LAFSFINWSF V

Sequence ? help Back to Top

Protein Sequence Length: 831 aa Download sequence Send to blast

MAMAMTHHHN RESSIDKHLD TGKYVRYTAE QVEALERVYA ECPKPSSLRR QQLIRECPIL  60
SNIEPKQIKV WFQNRRCREK QRKEASRLQT VNRKLTAMNK LLMEENDRLQ KQVSQLVCEN  120
GYMRQQLHTV NASATDASCD SAVTTPQHSL RNANNPAGLL SIAEETLAEF LSKATGTAVN  180
WVQMPGMKPG PDSVGIFAIS QSCSGMAARA CGLVSLEPTK IAEILKDRPS WFRDCRKLEV  240
FTMFPAGNGG TIELVYTQMF APTTLAPARD FWTLRYTTTS ENGSLVVCER SLSGSGAGPS  300
VASAAQFVRA EVLPSGYLIR PCEGGGSIIH IVDHLNLEAW SVPEVLRPLY ESSRVIAQKM  360
TIPALRYVRQ IAQETSGEVV YSLGRQPAVL RTFSQRLSRG FNEAINGFNE DGWSIMNCDG  420
TEDVIIAINS GKSLSNSSNL TTGLSFLGGV LCAKASMLLQ NVPPAVLVRF LREHRLEWAD  480
FNVDAYSAAS LKAGTYTYPG MRPTSFTGSQ IIMPLGQTVE HEELLEVIRL EGQSLTQEDA  540
FLSRDIHLLQ ICSGIDDNAV GACSELVFAP IDEMFPDDAA LLPSGFRIIP LESKPDSLAT  600
NRTLDLTSSL EVGPATSQAA GDSPSQNARS VLTIAFQFPF DTNLQDNVAT MARQYVRSVI  660
SSVQRVAMAI SPCGSSPTIG PKPSPGSPEA LTLAHWICQS YRQLLKSESL GGDSVLKNLW  720
QHQDAILCCS LKSVPVFIFA NQAGLDMLET TLVALQDITL DKIFDELGRK ALCFDFTKLM  780
QQGFTHLLAG VCMSTMGRHV SYEQAVAWKV LAADAKTVHC LAFSFINWSF V

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY966446	0.0	AY966446.1 Gossypium barbadense class III HD-zip protein mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016717477.1	0.0	PREDICTED: homeobox-leucine zipper protein REVOLUTA-like
Swissprot	Q9SE43	0.0	REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBL	A0A1U8LSC4	0.0	A0A1U8LSC4_GOSHI; homeobox-leucine zipper protein REVOLUTA-like
STRING	Gorai.013G266900.1	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]