PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Cotton_A_19407_BGI-A2_v1.0
Common NameF383_12242
Organism
Gossypium arboreum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family B3
Protein Properties Length: 391aa    MW: 44624.9 Da    PI: 8.1448
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cotton_A_19407_BGI-A2_v1.0genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B352.11.2e-1621106597
                                 -..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
                          B3   5 ltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                                 +  ++ l  + l +p+kf++++g++   s   tl+ +sgr W v+l  rk  +r++l  GW  Fv+   +++g f+vF++dg+
  Cotton_A_19407_BGI-A2_v1.0  21 M-VASILHDKKLKIPNKFVKKFGHE--LSSIATLNVPSGRLWLVEL--RKENKRVWLDCGWTVFVEYYSICSGYFLVFRYDGN 98 
                                 4.444555667***********965..78899**************..*********************************** PP

                                 SEE..EEEEE CS
                          B3  88 sefelvvkvf 97 
                                 s f  +v+++
  Cotton_A_19407_BGI-A2_v1.0  99 SHF--NVHIY 106
                                 *99..66554 PP
2B362.47.6e-20292382498
                                 E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                          B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                                 +l ps+v k   l +p+ fa ++ +g+      +tl+ ++g++W v++iy ++s    ++kGW eFv +n+L+egD++vF+l+
  Cotton_A_19407_BGI-A2_v1.0 292 ILRPSYVYKGIFLHIPRCFALRYlNGVDG---IVTLQVSEGKKWPVRCIYGQSS--WKFSKGWAEFVLDNNLDEGDVCVFELI 369
                                 6789*******************866643...5***************777776..4599*********************** PP

                                 SSSEE..EEEEE- CS
                          B3  86 grsefelvvkvfr 98 
                                 +++e  l+v++fr
  Cotton_A_19407_BGI-A2_v1.0 370 STKEIVLKVTIFR 382
                                 9999999999998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.39E-2113109IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.8E-2313109IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086312.94316109IPR003340B3 DNA binding domain
CDDcd100171.37E-1516107No hitNo description
SMARTSM010192.7E-1217109IPR003340B3 DNA binding domain
PfamPF023622.0E-1319106IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.5E-25281382IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.34E-25282382IPR015300DNA-binding pseudobarrel domain
CDDcd100171.04E-22287382No hitNo description
SMARTSM010191.2E-18289384IPR003340B3 DNA binding domain
PROSITE profilePS5086314.142289384IPR003340B3 DNA binding domain
PfamPF023626.4E-19292382IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 391 aa     Download sequence    Send to blast
MSQPTGPSLP HKKSCIFYKL MVASILHDKK LKIPNKFVKK FGHELSSIAT LNVPSGRLWL  60
VELRKENKRV WLDCGWTVFV EYYSICSGYF LVFRYDGNSH FNVHIYNLNA SEINYQSNGL  120
NDSREPGHDK HLKDVEDGAF AQIMRSQPTS SSSCFLIDDD FDECVDHDRK KRKNSTFLDQ  180
KNDVDDLRVT VQSTRDKGIQ FNGVELTSAA DEGGLNFLNG TQKNTKEIKQ EIEPDIDEYK  240
SLGKFIVKEE LPAMNSPRSD HKKRRDATAE GKQIALRAAA MFKPDNPFCR VILRPSYVYK  300
GIFLHIPRCF ALRYLNGVDG IVTLQVSEGK KWPVRCIYGQ SSWKFSKGWA EFVLDNNLDE  360
GDVCVFELIS TKEIVLKVTI FRVLEDGVAV N
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-4325938519144B3 domain-containing transcription factor VRN1
4i1k_B1e-4325938519144B3 domain-containing transcription factor VRN1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtInvolved in the regulation of vernalization. Acts as transcriptional repressor of FLC, a major target of the vernalization pathway. Binds DNA in vitro in a non-sequence-specific manner. {ECO:0000269|PubMed:12114624}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_017616948.10.0PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X1
SwissprotQ8L3W12e-41VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A0B0PVV10.0A0A0B0PVV1_GOSAR; B3 domain-containing transcription factor VRN1
STRINGGorai.013G039700.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM112428103
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49480.11e-44related to vernalization1 1
Publications ? help Back to Top
  1. Mantegazza O, et al.
    Analysis of the arabidopsis REM gene family predicts functions during flower development.
    Ann. Bot., 2014. 114(7): p. 1507-15
    [PMID:25002525]
  2. Kumar A,Singh A,Panigrahy M,Sahoo PK,Panigrahi KCS
    Carbon nanoparticles influence photomorphogenesis and flowering time in Arabidopsis thaliana.
    Plant Cell Rep., 2018. 37(6): p. 901-912
    [PMID:29541883]