PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Gh_D04G1599
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: 372aa    MW: 43380.7 Da    PI: 9.5941
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gh_D04G1599genomeNAU-NBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B355.88.1e-18596198
                 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++++g +   s+   l+ ++g +W+v +  rk ++++++ +GW+eFv+   +++g  +vF+++g+s+f  +v++f+
  Gh_D04G1599  5 FFHKLILSTTLQHKKLRIPDNFVKKFGDE--LSVAAALTVPDGHVWRVGI--RKADKKVWFHEGWQEFVERYYIRAGYLLVFRYEGNSCF--CVSIFS 96
                 8899999******************9865..99*****************..**************************************..999986 PP
2B362.47.2e-20242333499
                  E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
           B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                  vl ps+  + ++++lp  fae++ +g++     ++l+ ++gr+W v+++yr+++    +++GW eF  +n+L egD+++F+l +++ef l+v+vfr 
  Gh_D04G1599 242 VLRPSYLYRGCIMYLPSCFAEKYlSGVSG---FIKLQLPDGRQWPVRCRYRGGK--AKFSQGWYEFTLENNLGEGDVCIFELLRSREFVLKVTVFRV 333
                  78899******************866743...5***************555555..6699**********************999*********985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.7E-22396IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.73E-21396IPR015300DNA-binding pseudobarrel domain
CDDcd100172.30E-19596No hitNo description
PfamPF023621.0E-14596IPR003340B3 DNA binding domain
PROSITE profilePS5086313.62598IPR003340B3 DNA binding domain
SMARTSM010194.6E-17698IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.8E-24230332IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.37E-24232332IPR015300DNA-binding pseudobarrel domain
CDDcd100171.38E-22237332No hitNo description
PROSITE profilePS5086313.958239334IPR003340B3 DNA binding domain
SMARTSM010192.2E-23239334IPR003340B3 DNA binding domain
PfamPF023629.8E-18242332IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 372 aa     Download sequence    Send to blast
MPRPFFHKLI LSTTLQHKKL RIPDNFVKKF GDELSVAAAL TVPDGHVWRV GIRKADKKVW  60
FHEGWQEFVE RYYIRAGYLL VFRYEGNSCF CVSIFSLYNS EINYQTNAFV GTQYYHRKPY  120
PFEDLEDDEC ISPTLQNLIS RSKVNNCMNW SGEINFRALK GMNSQSFRGA VLSKPNKPGR  180
KKQKFDHAEP DSSVGREYDV YTNFRLYESA SARKRTVTTE ERERAINTAK SFEPMNPFCR  240
VVLRPSYLYR GCIMYLPSCF AEKYLSGVSG FIKLQLPDGR QWPVRCRYRG GKAKFSQGWY  300
EFTLENNLGE GDVCIFELLR SREFVLKVTV FRVRESAPVS MKCRPELNQL TNSEHILPDD  360
VKPIRVDKSM PF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-7320533515144B3 domain-containing transcription factor VRN1
4i1k_B1e-7320533515144B3 domain-containing transcription factor VRN1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ghi.167560.0boll| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1098613920.0
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankGU9296950.0GU929695.1 Gossypium hirsutum reduced vernalization response 1 (V1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016739200.10.0PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X1
SwissprotQ8L3W11e-145VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A1U8NK210.0A0A1U8NK21_GOSHI; B3 domain-containing transcription factor VRN1-like isoform X1
STRINGGorai.012G150900.10.0(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-139B3 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]