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 29945.m000088
Common NameRCOM_1113980
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family B3
Protein Properties Length: 212aa    MW: 24098.4 Da    PI: 8.6372
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
29945.m000088genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B357.82e-18112195190
                    EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                    f+k +++s+v +  +l lp +f+++h  k  ++ +++led +g +++ k+   +++ +  l++GW++F+ +++L++gD vvF+l++ ++f
  29945.m000088 112 FVKSMVRSHVYSCFWLGLPTQFCKNHLPK--KDLDMILEDDNGSTYDAKY--LGNRTG--LSGGWRGFALDHKLDDGDAVVFELVEPDKF 195
                    89*********************888533..5679***************..777655..***********************9987666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.6E-21104196IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019369.42E-24106198IPR015300DNA-binding pseudobarrel domain
CDDcd100172.93E-25110196No hitNo description
SMARTSM010192.0E-23112203IPR003340B3 DNA binding domain
PfamPF023624.7E-17112196IPR003340B3 DNA binding domain
PROSITE profilePS5086311.801112203IPR003340B3 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: 212 aa     Download sequence    Send to blast
MVADNGNSNT YEEARKLRLK ENKKRFEDLG ISKISKSLSN LTTPEKKTKM DIDLPPLRKS  60
SSWTVAIILW IFFSYVARPL DEVKLASYED RTRALKAAEE FQNSLQSGNP SFVKSMVRSH  120
VYSCFWLGLP TQFCKNHLPK KDLDMILEDD NGSTYDAKYL GNRTGLSGGW RGFALDHKLD  180
DGDAVVFELV EPDKFKHIAS SFKPFDMASS EK
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
11424RKLRLKENKKR
Cis-element ? help Back to Top
SourceLink
PlantRegMap29945.m000088
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015583363.11e-122putative B3 domain-containing protein At5g58280
RefseqXP_015583364.11e-122putative B3 domain-containing protein At5g58280
SwissprotQ5KQI43e-60Y5814_ORYSJ; B3 domain-containing protein Os05g0481400
TrEMBLB9T5231e-155B9T523_RICCO; DNA binding protein, putative
STRINGXP_002533342.11e-156(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF124332328
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G58280.13e-60B3 family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]