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 PH01000277G0820
Organism
Phyllostachys heterocycla
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Bambusoideae; Arundinarodae; Arundinarieae; Arundinariinae; Phyllostachys
Family ARF
Protein Properties Length: 592aa    MW: 64687.1 Da    PI: 7.2944
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PH01000277G0820genomeICBRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.93.8e-2369169198
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+lt sd++++g +++p++ ae++       ++ +  s++l+ +d++g +W++++iyr++++r++lt+GW++F + ++L +gD v+F   + 
  PH01000277G0820  69 FCKTLTASDTSTHGGFSVPRRAAEDCfppldykQLRP--SQELIAKDLHGVKWRFRHIYRGQPRRHLLTTGWSSFINKKKLFSGDAVLFL--RG 158
                      99****************************9866554..559************************************************..34 PP

                      SEE..EEEEE- CS
               B3  88 sefelvvkvfr 98 
                      +++el+++v+r
  PH01000277G0820 159 DDGELKLGVRR 169
                      89999*99998 PP
2Auxin_resp114.59.7e-38195275182
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                      +a++++++svF+v+YnPra++seF+v+++k++k l++++++GmRfk+++e+ed++err sG+++g+s++dp+rWp+SkWrsL
  PH01000277G0820 195 VANSLKHRSVFHVCYNPRATASEFIVPYWKFLKGLNHPFCIGMRFKIQYESEDVNERR-SGIIAGISEVDPMRWPGSKWRSL 275
                      68999*****************************************************.9********************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.32E-4555208IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.9E-3764169IPR015300DNA-binding pseudobarrel domain
CDDcd100173.19E-2167169No hitNo description
PfamPF023625.1E-2169169IPR003340B3 DNA binding domain
PROSITE profilePS5086312.54869171IPR003340B3 DNA binding domain
SMARTSM010193.4E-2269171IPR003340B3 DNA binding domain
PfamPF065072.0E-31196275IPR010525Auxin response factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 592 aa     Download sequence    Send to blast
MGIDLNTVDE EEDAPPPPAD AATDEVYARL ALVAEGEVFQ RNMRGAGIDG EDDMEEDDGE  60
RKSRMLHMFC KTLTASDTST HGGFSVPRRA AEDCFPPLDY KQLRPSQELI AKDLHGVKWR  120
FRHIYRGQPR RHLLTTGWSS FINKKKLFSG DAVLFLRGDD GELKLGVRRV IQLKNEALFK  180
AFSSNSSKIH ALSAVANSLK HRSVFHVCYN PRATASEFIV PYWKFLKGLN HPFCIGMRFK  240
IQYESEDVNE RRSGIIAGIS EVDPMRWPGS KWRSLLVRWE DGTDCNSQNR VSPWEIEIVG  300
GLDSIDQSLS APSSKRTKLC PQGNLNVPTM YGNGRPDSME TEKFPRVLQG QELMGSITHR  360
VTGSPQLADV TKFKSYGAKR FLTGARSCML SGPTSRLPPG NSGFTYQSVG FGESVGFPEV  420
LQGQEISQTV PLFQGMMSDA CSLKGRCTSA AMSGLSAATQ GCSLSLSTLQ PAQVPSPSSD  480
LFNQAVVPQL GLASKNDRDA NGSQPDPFGI GKASTPRDAA KPGLDGREVG RTSCRLFGFS  540
LTEKVLPTEE DGVKEGNYET DCQNPRMLEL FGHSHSTPGA LHALCAAPLG I*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldx_A9e-801930984362Auxin response factor 1
4ldx_B9e-801930984362Auxin response factor 1
4ldy_A7e-801930984362Auxin response factor 1
4ldy_B7e-801930984362Auxin response factor 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs).
Cis-element ? help Back to Top
SourceLink
PlantRegMapPH01000277G0820
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_024315553.10.0auxin response factor 3
SwissprotQ5JMM10.0ARFC_ORYSJ; Auxin response factor 3
TrEMBLI1HRN40.0I1HRN4_BRADI; Auxin response factor
STRINGBRADI2G50120.10.0(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP51132756
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-126ARF 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. Song X, et al.
    Rice RNA-dependent RNA polymerase 6 acts in small RNA biogenesis and spikelet development.
    Plant J., 2012. 71(3): p. 378-89
    [PMID:22443269]