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

Gorai.011G127500.2

Common Name

B456_011G127500, LOC105776293

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

Protein Properties

Length: 918aa MW: 100524 Da PI: 6.5601

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.011G127500.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	58.3	1.4e-18	321	420	1	98
EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 f+kvl+ sd+++ grlvlpk +ae++ ++++e+ l+++d +g++W +++++ +++s++yvl+ G ++ +L++gD+v+F++++ Gorai.011G127500.2 321 FEKVLSASDAGRIGRLVLPKACAEAYfpPISQPEGLPLRIQDVKGKEWVFQFRFwpNNNSRMYVLE-GVTPCMQSMQLQAGDTVTFSRMD- 409 99************************555567778***********99899999999.*******************876. PP SEE..EEEEE- CS B3 88 sefelvvkvfr 98 e++lv+++++ Gorai.011G127500.2 410 PEGKLVMGFRK 420 77777877776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.50.10	3.1E-4	3	42	IPR013088	Zinc finger, NHR/GATA-type
Gene3D	G3DSA:2.40.330.10	2.9E-30	313	428	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	8.5E-20	318	421	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.61E-22	319	420	No hit	No description
SMART	SM01019	7.0E-20	321	421	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.011	321	422	IPR003340	B3 DNA binding domain
Pfam	PF02362	4.2E-16	321	420	IPR003340	B3 DNA binding domain
PROSITE profile	PS51050	14.559	586	636	IPR011124	Zinc finger, CW-type
Pfam	PF07496	5.1E-13	591	633	IPR011124	Zinc finger, CW-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010030	Biological Process	positive regulation of seed germination
GO:2000034	Biological Process	regulation of seed maturation
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 918 aa Download sequence Send to blast
MASKSCMNGL CGATTSIEWR KGWALRSGDF ANLCDKCGSA YEQSIFCDIF HSKDAGWREC 60 SSCGKRLHCG CIVSRSLLEL LDSGGGIICI SCAKKSGLNP MIEDEKPNGF GIVKIDAGQL 120 HSISADNQLI SISNENLKLM QLSNNAESIG LRQLLQLHND DSSRSLLQMK QEEVLPPAID 180 IGSTCLSNTN QASNGSVQAV KPAIFKANIS ETLPQTNLSI SLGSSLGNQN VFPGSVVDEK 240 GKMSSVLQQA SKSLHLLPKP PKPVLAGLEV NAGMVPQIRV ARPPVEGRGR NQLLPRYWPR 300 ITDQELQQIS GDSNSTIVPL FEKVLSASDA GRIGRLVLPK ACAEAYFPPI SQPEGLPLRI 360 QDVKGKEWVF QFRFWPNNNS RMYVLEGVTP CMQSMQLQAG DTVTFSRMDP EGKLVMGFRK 420 ATNNAVVQEN LPSAIPNGTL SSESLFSGVF ENLPIISGYS GLLQSPKGST DPHLNALSKH 480 LSSTGGDISW NKSGKHEDRI REGLLLPSML TPERKRTRNI GSKSKRLLID SQDALELKLT 540 WEEAQDLLRP PPSIKPSVVT IEDHDFEEYD EPPVFGKRSI FAVRSTGGQE QWAQCDSCSK 600 WRRLPVDVLL PPKWTCADNN WDQSRSSCSA PEELTPRELE NLLRLNRDFK KRRIAAFTRP 660 TQEHESSSGL DALANAAILG DNADNSGTTS VATTTKHPRH RPGCSCIVCI QPPSGKGKHK 720 PTCTCVVCMT VKRRFKTLTM RKKKRQSERE AEIAQRNQQA WGPSEEAEVD SSAKHVSSSH 780 LNPFENEARS ANELESKSQS SNKLVEANKG QIDLNCDPDR EDDSQLGPNR TSMTSLVRVA 840 SLPLETYLKE NGLTNLVYEQ QGNSASNAPP QSMSGTVEGE TQENSCFPSA TEEPESKDEE 900 NGETGSDRVD DNNDKDP*

Sequence ? help Back to Top

Protein Sequence Length: 918 aa Download sequence Send to blast

MASKSCMNGL CGATTSIEWR KGWALRSGDF ANLCDKCGSA YEQSIFCDIF HSKDAGWREC  60
SSCGKRLHCG CIVSRSLLEL LDSGGGIICI SCAKKSGLNP MIEDEKPNGF GIVKIDAGQL  120
HSISADNQLI SISNENLKLM QLSNNAESIG LRQLLQLHND DSSRSLLQMK QEEVLPPAID  180
IGSTCLSNTN QASNGSVQAV KPAIFKANIS ETLPQTNLSI SLGSSLGNQN VFPGSVVDEK  240
GKMSSVLQQA SKSLHLLPKP PKPVLAGLEV NAGMVPQIRV ARPPVEGRGR NQLLPRYWPR  300
ITDQELQQIS GDSNSTIVPL FEKVLSASDA GRIGRLVLPK ACAEAYFPPI SQPEGLPLRI  360
QDVKGKEWVF QFRFWPNNNS RMYVLEGVTP CMQSMQLQAG DTVTFSRMDP EGKLVMGFRK  420
ATNNAVVQEN LPSAIPNGTL SSESLFSGVF ENLPIISGYS GLLQSPKGST DPHLNALSKH  480
LSSTGGDISW NKSGKHEDRI REGLLLPSML TPERKRTRNI GSKSKRLLID SQDALELKLT  540
WEEAQDLLRP PPSIKPSVVT IEDHDFEEYD EPPVFGKRSI FAVRSTGGQE QWAQCDSCSK  600
WRRLPVDVLL PPKWTCADNN WDQSRSSCSA PEELTPRELE NLLRLNRDFK KRRIAAFTRP  660
TQEHESSSGL DALANAAILG DNADNSGTTS VATTTKHPRH RPGCSCIVCI QPPSGKGKHK  720
PTCTCVVCMT VKRRFKTLTM RKKKRQSERE AEIAQRNQQA WGPSEEAEVD SSAKHVSSSH  780
LNPFENEARS ANELESKSQS SNKLVEANKG QIDLNCDPDR EDDSQLGPNR TSMTSLVRVA  840
SLPLETYLKE NGLTNLVYEQ QGNSASNAPP QSMSGTVEGE TQENSCFPSA TEEPESKDEE  900
NGETGSDRVD DNNDKDP*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6j9a_A	3e-68	299	428	2	131	B3 domain-containing transcription repressor VAL1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	731	742	KRRFKTLTMRKK
2	731	744	KRRFKTLTMRKKKR

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional repressor of gene expression involved in embryonic pathways, such as LEC1, ABI3, and FUS3. Repressor of the sugar-inducible genes involved in the seed maturation program in seedlings. Plays an essential role in regulating the transition from seed maturation to seedling growth. Functionally redundant with VAL1/HSI2. {ECO:0000269\|PubMed:17158584, ECO:0000269\|PubMed:17267611}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012454315.1	0.0	PREDICTED: B3 domain-containing transcription repressor VAL2-like isoform X1
Refseq	XP_012454316.1	0.0	PREDICTED: B3 domain-containing transcription repressor VAL2-like isoform X1
Refseq	XP_012454317.1	0.0	PREDICTED: B3 domain-containing transcription repressor VAL2-like isoform X1
Swissprot	Q5CCK4	0.0	VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBL	A0A0D2UTD2	0.0	A0A0D2UTD2_GOSRA; Uncharacterized protein
STRING	Gorai.011G127500.1	0.0	(Gossypium raimondii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G32010.1	0.0	HSI2-like 1

Link Out ? help Back to Top
Phytozome	Gorai.011G127500.2
Entrez Gene	105776293

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] Jia H,McCarty DR,Suzuki M Distinct roles of LAFL network genes in promoting the embryonic seedling fate in the absence of VAL repression. Plant Physiol., 2013. 163(3): p. 1293-305 [PMID:24043445] Chhun T, et al. HSI2 Repressor Recruits MED13 and HDA6 to Down-Regulate Seed Maturation Gene Expression Directly During Arabidopsis Early Seedling Growth. Plant Cell Physiol., 2016. 57(8): p. 1689-706 [PMID:27335347] Yuan W, et al. A cis cold memory element and a trans epigenome reader mediate Polycomb silencing of FLC by vernalization in Arabidopsis. Nat. Genet., 2016. 48(12): p. 1527-1534 [PMID:27819666] Li C,Cui Y A DNA element that remembers winter. Nat. Genet., 2016. 48(12): p. 1451-1452 [PMID:27898079]