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 Gh_D02G2117
Organism
Gossypium hirsutum
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: 349aa    MW: 40471.3 Da    PI: 9.2327
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gh_D02G2117genomeNAU-NBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B350.73.4e-16596198
                 EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
           B3  1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                 ff +l+ s +l+ + l++p +f++++  +   s+   l+ ++g +W+v +  +k +++ ++++GW+eFv+   +++g f++F+++g+s f   v++f+
  Gh_D02G2117  5 FFHKLILSTTLQDKKLRIPDNFIKKFRDE--LSVAAALTVPDGHVWRVGI--KKVDNKAWFKEGWQEFVERYYIRVGYFLIFRYEGNSAF--SVSIFD 96
                 788999999**************999755..999****************..99999*****************************9999..998886 PP
2B362.66.5e-20247337498
                  E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
           B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                  vl ps+  + ++++lp  fae+h +g++     ++l+ ++gr+W v++ yr+++    +++GW eF  +n+L egD++vF+l +++ef l+v+vfr
  Gh_D02G2117 247 VLRPSYLYRGCIMYLPSCFAEQHlSGVSG---FIKLQLPDGRQWPVRCLYRGGR--AKFSQGWYEFTLENNLGEGDVCVFELLRSREFVLKVTVFR 337
                  78899******************866743...5***************666665..5699**********************999*********98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.4E-22396IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.89E-21396IPR015300DNA-binding pseudobarrel domain
CDDcd100171.25E-17596No hitNo description
PfamPF023626.1E-13596IPR003340B3 DNA binding domain
PROSITE profilePS5086313.507598IPR003340B3 DNA binding domain
SMARTSM010191.2E-13698IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.106.4E-25236337IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.35E-25237337IPR015300DNA-binding pseudobarrel domain
CDDcd100174.34E-23242337No hitNo description
SMARTSM010191.0E-22244339IPR003340B3 DNA binding domain
PROSITE profilePS5086313.648244339IPR003340B3 DNA binding domain
PfamPF023628.2E-18247337IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009909Biological Processregulation of flower development
GO:0010048Biological Processvernalization response
GO:0005654Cellular Componentnucleoplasm
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 349 aa     Download sequence    Send to blast
MPRPFFHKLI LSTTLQDKKL RIPDNFIKKF RDELSVAAAL TVPDGHVWRV GIKKVDNKAW  60
FKEGWQEFVE RYYIRVGYFL IFRYEGNSAF SVSIFDLYNS EINYQTNALV GTQYNLGRQY  120
PFEELEDDEC VSPAMPNLFG RSKLNCINWS GEVNHHAPKG VNNQPIRVKL HSSGAELPKL  180
KKPGRKKQKF QPSEEDSSLG HEDDMEMRNR FYESASARKR IVTAEERERA INAAKAFEPT  240
NPFCRVVLRP SYLYRGCIMY LPSCFAEQHL SGVSGFIKLQ LPDGRQWPVR CLYRGGRAKF  300
SQGWYEFTLE NNLGEGDVCV FELLRSREFV LKVTVFRVME STGLMDRSQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-7621034015144B3 domain-containing transcription factor VRN1
4i1k_B2e-7621034015144B3 domain-containing transcription factor VRN1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ghi.192390.0boll
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots and at lower levels in aerial parts. {ECO:0000269|PubMed:12114624}.
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_012480289.10.0PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X1
SwissprotQ8L3W11e-153VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A0D2RSI20.0A0A0D2RSI2_GOSRA; Uncharacterized protein
STRINGGorai.005G240900.10.0(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
AT3G18990.11e-148B3 family protein
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]