PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Phvul.003G011300.1
Common NamePHAVU_003G011300g
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Phaseolus
Family B3
Protein Properties Length: 436aa    MW: 49120.4 Da    PI: 8.9162
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Phvul.003G011300.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B355.41.1e-17796398
                        EE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
                  B3  3 kvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95
                         +l+ s + +s++l++p +f++++g +   s+  tl+ ++g  W++ l  +k ++++++ +GW++Fv+   + +g f+vF+++g+s+f   v+
  Phvul.003G011300.1  7 HKLVLSTTIQSRQLRIPDTFLRKYGTQ--LSTIATLTVPDGSIWRIGL--KKADNKIWFVDGWQDFVQRYSVGVGYFLVFMYEGNSSF--IVH 93
                        5667788999999***********966..9999***************..*************************************9..999 PP

                        EE- CS
                  B3 96 vfr 98
                        +f+
  Phvul.003G011300.1 94 IFN 96
                        986 PP

2B361.61.3e-19301392499
                         E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
                  B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                         vl ps+  + ++++lp  fae++ +g++     ++l+ ++gr+W+v++ yr+++    l++GW eF  +n+L egD++vF+l +++e el 
  Phvul.003G011300.1 301 VLRPSYLYRGCIMYLPSCFAEKNlNGVSG---FIKLQLSNGRQWSVRCLYRGGR--AKLSQGWFEFTVENNLGEGDVCVFELLRTKEVELQ 386
                         78899******************876743...59999999********665555..66*************************99****** PP

                         EEEE-S CS
                  B3  94 vkvfrk 99 
                         v+vfr 
  Phvul.003G011300.1 387 VTVFRV 392
                         ****96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.0E-21397IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.1E-23397IPR015300DNA-binding pseudobarrel domain
CDDcd100171.21E-18496No hitNo description
PROSITE profilePS5086313.211598IPR003340B3 DNA binding domain
SMARTSM010198.4E-16698IPR003340B3 DNA binding domain
PfamPF023624.7E-15896IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.0E-24290391IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.63E-24291392IPR015300DNA-binding pseudobarrel domain
CDDcd100171.26E-22296391No hitNo description
SMARTSM010195.2E-19298393IPR003340B3 DNA binding domain
PROSITE profilePS5086314.269298393IPR003340B3 DNA binding domain
PfamPF023622.1E-17301392IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 436 aa     Download sequence    Send to blast
MARPCFHKLV LSTTIQSRQL RIPDTFLRKY GTQLSTIATL TVPDGSIWRI GLKKADNKIW  60
FVDGWQDFVQ RYSVGVGYFL VFMYEGNSSF IVHIFNLSTA ELNYQSAIRN HIEGPCYANY  120
NHIFEEMEDV DSIDLSDLSP AYLASGAMQN KGFAGSGDQL TPGKSHTPAL QNLFNGGSKL  180
NRVNWGDGGS AYSSKAANSQ GTQSTRDIGV QFNAVEFKRS TEELKLRYSN EESVNKTAKK  240
KRKSESQGEE PSGENEEEAE MRYRFYESAS ARKRTVTAEE RERAINASKA FEPTNPFCRV  300
VLRPSYLYRG CIMYLPSCFA EKNLNGVSGF IKLQLSNGRQ WSVRCLYRGG RAKLSQGWFE  360
FTVENNLGEG DVCVFELLRT KEVELQVTVF RVTEDAGLLH TPLAVQQQSQ NMSHTKLLNP  420
HLQHRVSSTV KLIRN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A5e-7126439415144B3 domain-containing transcription factor VRN1
4i1k_B5e-7126439415144B3 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPhvul.003G011300.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0946860.0BT094686.1 Soybean clone JCVI-FLGm-24P12 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007153153.10.0hypothetical protein PHAVU_003G011300g
SwissprotQ8L3W11e-130VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLV7C4R20.0V7C4R2_PHAVU; Uncharacterized protein
STRINGXP_007153153.10.0(Phaseolus vulgaris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF21473485
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.11e-129B3 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]