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

LPERR01G36440.1

Organism

Leersia perrieri

Taxonomic ID

77586

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Leersia

Family

HD-ZIP

Protein Properties

Length: 1330aa MW: 148125 Da PI: 8.1207

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LPERR01G36440.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	55.4	1.1e-17	1210	1265	2	57
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 rk+ ++++eql++Le++++ ++++ ++ ++ LA+kl+++ rqV vWFqNrRa+ k+ LPERR01G36440.1 1210 RKKLRLSEEQLKALENVYQADSNLHHALKQGLAEKLNIKPRQVEVWFQNRRARTKH 1265 678899***********************************************995 PP
2	HD-ZIP_I/II	95	7.8e-31	1210	1296	1	87
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeL 87 +kk+rls+eq+k+LE+ ++++++L++ K+ la++L+++prqv+vWFqnrRARtk kq+E++++ Lkr+++ l++en+rL+ e ++ LPERR01G36440.1 1210 RKKLRLSEEQLKALENVYQADSNLHHALKQGLAEKLNIKPRQVEVWFQNRRARTKHKQIEEECKNLKRWLEGLNKENQRLKMELMRV 1296 69*******************************************************************************998776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd03800	1.51E-136	222	686	No hit	No description
Pfam	PF00862	2.2E-12	223	486	IPR000368	Sucrose synthase
SuperFamily	SSF53756	1.62E-50	237	686	No hit	No description
Pfam	PF00534	6.5E-9	529	644	IPR001296	Glycosyl transferase, family 1
Gene3D	G3DSA:3.40.50.2000	5.7E-6	529	644	No hit	No description
Pfam	PF05116	3.0E-16	829	1031	IPR006380	Sucrose-phosphatase, N-terminal
Gene3D	G3DSA:1.10.10.60	2.4E-16	1192	1266	IPR009057	Homeodomain-like
SuperFamily	SSF46689	3.89E-16	1197	1267	IPR009057	Homeodomain-like
PROSITE profile	PS50071	15.937	1206	1266	IPR001356	Homeobox domain
SMART	SM00389	5.3E-15	1208	1270	IPR001356	Homeobox domain
CDD	cd00086	3.42E-14	1210	1267	No hit	No description
Pfam	PF00046	3.7E-15	1210	1265	IPR001356	Homeobox domain
PROSITE pattern	PS00027	0	1241	1264	IPR017970	Homeobox, conserved site
SMART	SM00340	0.0074	1266	1304	IPR003106	Leucine zipper, homeobox-associated

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005985	Biological Process	sucrose metabolic process
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0005794	Cellular Component	Golgi apparatus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0016157	Molecular Function	sucrose synthase activity
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1330 aa Download sequence Send to blast
MAGNEWINGY LEAILDSGGA AGGGGGGGGG SGGGGGGGEG DPPRSPAARA ASPRGPHMNF 60 NPTHYFVEEV VKGVDESDLH RTWIKVVATR NARERSTRLE NMCWRIWHLA RKKKQASTDR 120 SIDLSRFLLS RVGLLVFFSC APCMTELMLE LEGIQRISAR RKEQEQVRRE TTEDLAEDLS 180 EGEKADTVGE LAQPETPKKK FQRNFSDLTV SWSDENKEKK LYIVLISLHG LVRGDNMELG 240 RDSDTGGQVK YVVELARALA MMPGVYRVDL FTRQVSSPDV DWSYGEPTEM LTAGSTDGEG 300 SGESAGAYIV RIPCGPRDKY LRKEALWPYL QEFVDGALAH ILNMSKALGE QVGNGKLVLP 360 YVIHGHYADA GDVAALLSGA LNVPMVLTGH SLGRNKLEQI MKQGRMSKEE IDSTYKIMRR 420 IEGEELALDA AELVITSTRQ EIDEQWGLYD GFDVKLEKVL RARARRGVSC HGRFMPRMVV 480 IPPGMDFSNV VVPDDISDGD GDGNDMIGFE IASPRSLPPI WAEVMRFLTN PHKPMILALS 540 RPDPKKNITT LVKAFGECRP LRELANLTLI MGNRDDIDDM SAGNASVLTT VLKLIDKYDL 600 YGSVAFPKHH KQADVPEIYR LAAKMKGVFI NPALVEPFGL TLIENAIADA LLKLVADKNL 660 WQDCRKNGLR NIQLYSWPEH CRTYLTRIAG CRIRNPRWLT DTPANAAAEE EEALEDSLMD 720 VHDLSLRLSI DGERGSSMND SPSSDPQDSV QRIMNKIKRS SVSSPQAAAS GETDSAKIPA 780 EATATAGTVN KYPLLRRRRR LFVVAVDCYG DDGRASKRML QVIQEVFRAV RSDSQMSRIS 840 GFALSTAMSL PETLKLLQMG KIPPTDFDAV ICGSGSEVYY PGTAQCIDAE GRLRPDQDYL 900 MHINHRWSHD GAKQTIAKLA QDGSGTIVEP DVESCNPHCV AFFIKDPKKV KTIDEMRERM 960 RMRGLRCHLM YCRNATRLHV VPLLASRSQA LRYLFVRWGL SVGNMYLIVG EHGDTDHEEM 1020 LSGLHKTVIL RGVTDKGSEE LVRSSGSYQR EDVVPSESPL ITSTKGDLKA DEIMRALKEV 1080 TKASSGISRI TLVMFSRWSV KLKNNSGINV ERNCHSPTQY MQRLGGVSVQ TCACWFQSRV 1140 STTNMEEIEE MTILSLGIGT PSKHSRSSTS FRLNGETDHK PTLRKKGCEI EMKVRNSSRP 1200 DQDNSNGHMR KKLRLSEEQL KALENVYQAD SNLHHALKQG LAEKLNIKPR QVEVWFQNRR 1260 ARTKHKQIEE ECKNLKRWLE GLNKENQRLK MELMRVSRPV LTLHDQAHSV SKVAVMCSSC 1320 NKSSSETCTV

Sequence ? help Back to Top

Protein Sequence Length: 1330 aa Download sequence Send to blast

MAGNEWINGY LEAILDSGGA AGGGGGGGGG SGGGGGGGEG DPPRSPAARA ASPRGPHMNF  60
NPTHYFVEEV VKGVDESDLH RTWIKVVATR NARERSTRLE NMCWRIWHLA RKKKQASTDR  120
SIDLSRFLLS RVGLLVFFSC APCMTELMLE LEGIQRISAR RKEQEQVRRE TTEDLAEDLS  180
EGEKADTVGE LAQPETPKKK FQRNFSDLTV SWSDENKEKK LYIVLISLHG LVRGDNMELG  240
RDSDTGGQVK YVVELARALA MMPGVYRVDL FTRQVSSPDV DWSYGEPTEM LTAGSTDGEG  300
SGESAGAYIV RIPCGPRDKY LRKEALWPYL QEFVDGALAH ILNMSKALGE QVGNGKLVLP  360
YVIHGHYADA GDVAALLSGA LNVPMVLTGH SLGRNKLEQI MKQGRMSKEE IDSTYKIMRR  420
IEGEELALDA AELVITSTRQ EIDEQWGLYD GFDVKLEKVL RARARRGVSC HGRFMPRMVV  480
IPPGMDFSNV VVPDDISDGD GDGNDMIGFE IASPRSLPPI WAEVMRFLTN PHKPMILALS  540
RPDPKKNITT LVKAFGECRP LRELANLTLI MGNRDDIDDM SAGNASVLTT VLKLIDKYDL  600
YGSVAFPKHH KQADVPEIYR LAAKMKGVFI NPALVEPFGL TLIENAIADA LLKLVADKNL  660
WQDCRKNGLR NIQLYSWPEH CRTYLTRIAG CRIRNPRWLT DTPANAAAEE EEALEDSLMD  720
VHDLSLRLSI DGERGSSMND SPSSDPQDSV QRIMNKIKRS SVSSPQAAAS GETDSAKIPA  780
EATATAGTVN KYPLLRRRRR LFVVAVDCYG DDGRASKRML QVIQEVFRAV RSDSQMSRIS  840
GFALSTAMSL PETLKLLQMG KIPPTDFDAV ICGSGSEVYY PGTAQCIDAE GRLRPDQDYL  900
MHINHRWSHD GAKQTIAKLA QDGSGTIVEP DVESCNPHCV AFFIKDPKKV KTIDEMRERM  960
RMRGLRCHLM YCRNATRLHV VPLLASRSQA LRYLFVRWGL SVGNMYLIVG EHGDTDHEEM  1020
LSGLHKTVIL RGVTDKGSEE LVRSSGSYQR EDVVPSESPL ITSTKGDLKA DEIMRALKEV  1080
TKASSGISRI TLVMFSRWSV KLKNNSGINV ERNCHSPTQY MQRLGGVSVQ TCACWFQSRV  1140
STTNMEEIEE MTILSLGIGT PSKHSRSSTS FRLNGETDHK PTLRKKGCEI EMKVRNSSRP  1200
DQDNSNGHMR KKLRLSEEQL KALENVYQAD SNLHHALKQG LAEKLNIKPR QVEVWFQNRR  1260
ARTKHKQIEE ECKNLKRWLE GLNKENQRLK MELMRVSRPV LTLHDQAHSV SKVAVMCSSC  1320
NKSSSETCTV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2r60_A	3e-35	244	718	31	493	Glycosyl transferase, group 1
2r66_A	3e-35	244	718	31	493	Glycosyl transferase, group 1
2r68_A	3e-35	244	718	31	493	Glycosyl transferase, group 1
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	16	30	SGGAAGGGGGGGGGS
2	794	800	LRRRRRL
3	1258	1266	RRARTKHKQ

Functional Description ? help Back to Top
Source	Description
UniProt	Plays a role in photosynthetic sucrose synthesis by catalyzing the rate-limiting step of sucrose biosynthesis from UDP-glucose and fructose- 6-phosphate. Involved in the regulation of carbon partitioning in the leaves of plants. May regulate the synthesis of sucrose and therefore play a major role as a limiting factor in the export of photoassimilates out of the leaf. Plays a role for sucrose availability that is essential for plant growth and fiber elongation (By similarity). {ECO:0000250}.
UniProt	Plays a role in photosynthetic sucrose synthesis by catalyzing the rate-limiting step of sucrose biosynthesis from UDP-glucose and fructose- 6-phosphate. Involved in the regulation of carbon partitioning in the leaves of plants. May regulate the synthesis of sucrose and therefore play a major role as a limiting factor in the export of photoassimilates out of the leaf. Plays a role for sucrose availability that is essential for plant growth and fiber elongation (By similarity). {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LPERR01G36440.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Circadian-regulated, with the highest expression 1 hour before the beginning of light period (in 14 hours light/10 hours dark cycle). {ECO:0000269\|PubMed:21683881}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK121341	0.0	AK121341.1 Oryza sativa Japonica Group cDNA clone:J023120M11, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015688130.1	0.0	PREDICTED: probable sucrose-phosphate synthase 1
Swissprot	A2WYE9	0.0	SPSA1_ORYSI; Probable sucrose-phosphate synthase 1
Swissprot	Q0JGK4	0.0	SPSA1_ORYSJ; Probable sucrose-phosphate synthase 1
TrEMBL	A0A0D9V9K4	0.0	A0A0D9V9K4_9ORYZ; Uncharacterized protein
STRING	LPERR01G36440.1	0.0	(Leersia perrieri)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP906	6	6

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G06710.1	5e-27	homeobox from Arabidopsis thaliana

Publications ? help Back to Top
Chávez-Bárcenas AT, et al. Tissue-specific and developmental pattern of expression of the rice sps1 gene. Plant Physiol., 2000. 124(2): p. 641-54 [PMID:11027714] Nakano H,Makino A,Mae T The Effect of Elevated Partial Pressures of CO2 on the Relationship between Photosynthetic Capacity and N Content in Rice Leaves. Plant Physiol., 1997. 115(1): p. 191-198 [PMID:12223799] Makino A,Nakano H,Mae T Responses of Ribulose-1,5-Bisphosphate Carboxylase, Cytochrome f, and Sucrose Synthesis Enzymes in Rice Leaves to Leaf Nitrogen and Their Relationships to Photosynthesis. Plant Physiol., 1994. 105(1): p. 173-179 [PMID:12232197] Ishimaru K,Ono K,Kashiwagi T Identification of a new gene controlling plant height in rice using the candidate-gene strategy. Planta, 2004. 218(3): p. 388-95 [PMID:14534788] Ding J, et al. Validation of a rice specific gene, sucrose phosphate synthase, used as the endogenous reference gene for qualitative and real-time quantitative PCR detection of transgenes. J. Agric. Food Chem., 2004. 52(11): p. 3372-7 [PMID:15161200] Jha AB,Dubey RS Carbohydrate metabolism in growing rice seedlings under arsenic toxicity. J. Plant Physiol., 2004. 161(7): p. 867-72 [PMID:15310076] Yang L, et al. Estimating the copy number of transgenes in transformed rice by real-time quantitative PCR. Plant Cell Rep., 2005. 23(10-11): p. 759-63 [PMID:15459795] Lutfiyya LL, et al. Phylogenetic and expression analysis of sucrose phosphate synthase isozymes in plants. J. Plant Physiol., 2007. 164(7): p. 923-33 [PMID:16876912] Ishimaru K,Hirotsu N,Madoka Y,Kashiwagi T Quantitative trait loci for sucrose, starch, and hexose accumulation before heading in rice. Plant Physiol. Biochem., 2007 Oct-Nov. 45(10-11): p. 799-804 [PMID:17845859] Li JY, et al. Effects of elevated CO2 on growth, carbon assimilation, photosynthate accumulation and related enzymes in rice leaves during sink-source transition. J Integr Plant Biol, 2008. 50(6): p. 723-32 [PMID:18713413] Pattanagul W,Thitisaksakul M Effect of salinity stress on growth and carbohydrate metabolism in three rice (Oryza sativa L.) cultivars differing in salinity tolerance. Indian J. Exp. Biol., 2008. 46(10): p. 736-42 [PMID:19024173] Jiang L, et al. International collaborative study of the endogenous reference gene, sucrose phosphate synthase (SPS), used for qualitative and quantitative analysis of genetically modified rice. J. Agric. Food Chem., 2009. 57(9): p. 3525-32 [PMID:19326953] Ohara K,Sasaki K,Yazaki K Two solanesyl diphosphate synthases with different subcellular localizations and their respective physiological roles in Oryza sativa. J. Exp. Bot., 2010. 61(10): p. 2683-92 [PMID:20421194] Sharma S, et al. Delineating the structural, functional and evolutionary relationships of sucrose phosphate synthase gene family II in wheat and related grasses. BMC Plant Biol., 2010. 10: p. 134 [PMID:20591144] Wang C, et al. Evaluation of four genes in rice for their suitability as endogenous reference standards in quantitative PCR. J. Agric. Food Chem., 2010. 58(22): p. 11543-7 [PMID:20961039] Okamura M, et al. Tissue specificity and diurnal change in gene expression of the sucrose phosphate synthase gene family in rice. Plant Sci., 2011. 181(2): p. 159-66 [PMID:21683881] Zhu C, et al. The temporal and species dynamics of photosynthetic acclimation in flag leaves of rice (Oryza sativa) and wheat (Triticum aestivum) under elevated carbon dioxide. Physiol Plant, 2012. 145(3): p. 395-405 [PMID:22268610] Mishra P,Dubey RS Excess nickel modulates activities of carbohydrate metabolizing enzymes and induces accumulation of sugars by upregulating acid invertase and sucrose synthase in rice seedlings. Biometals, 2013. 26(1): p. 97-111 [PMID:23179408] Saad AS, et al. A rice stress-responsive NAC gene enhances tolerance of transgenic wheat to drought and salt stresses. Plant Sci., 2013. 203-204: p. 33-40 [PMID:23415326] Yonekura M, et al. The promoter activities of sucrose phosphate synthase genes in rice, OsSPS1 and OsSPS11, are controlled by light and circadian clock, but not by sucrose. Front Plant Sci, 2013. 4: p. 31 [PMID:23460029] Choudhury B,Mitra S,Biswas AK Regulation of sugar metabolism in rice (Oryza sativa L.) seedlings under arsenate toxicity and its improvement by phosphate. Physiol Mol Biol Plants, 2010. 16(1): p. 59-68 [PMID:23572955] Hirose T, et al. Analysis of gene-disruption mutants of a sucrose phosphate synthase gene in rice, OsSPS1, shows the importance of sucrose synthesis in pollen germination. Plant Sci., 2014. 225: p. 102-6 [PMID:25017165] Zhang F,Wang L,Wang R,Ying Y,Wu J Simple screening strategy with only water bath needed for the identification of insect-resistant genetically modified rice. Anal. Chem., 2015. 87(3): p. 1523-6 [PMID:25582220] Wang X,Chen X,Xu J,Dai C,Shen W Degradation and detection of transgenic Bacillus thuringiensis DNA and proteins in flour of three genetically modified rice events submitted to a set of thermal processes. Food Chem. Toxicol., 2015. 84: p. 89-98 [PMID:26277627] Li L, et al. A novel reference plasmid for the qualitative detection of genetically modified rice in food and feed. Biomed Res Int, 2015. 2015: p. 948297 [PMID:26495318] Valdez-Alarcón JJ,Ferrando M,Salerno G,Jimenez-Moraila B,Herrera-Estrella L Characterization of a rice sucrose-phosphate synthase-encoding gene. Gene, 1996. 170(2): p. 217-22 [PMID:8666248]