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 Pahal.C01848.1
Organism
Panicum hallii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family C3H
Protein Properties Length: 327aa    MW: 35505.1 Da    PI: 7.5003
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pahal.C01848.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH47.53e-15253277226
                     -S---SGGGGTS--TTTTT-SS-SS CS
         zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                     ktelC+ + +tG C+yGd+C+FaHg
  Pahal.C01848.1 253 KTELCNKWEETGACPYGDQCQFAHG 277
                     9***********************8 PP
2zf-CCCH19.71.5e-06290315126
                     --S---SGGGGTS.--TTTTT-SS-SS CS
         zf-CCCH   1 yktelCrffartG.tCkyGdrCkFaHg 26 
                     ykte Cr  ++ G  C+yG rC+F H+
  Pahal.C01848.1 290 YKTEVCRMVLA-GvVCPYGHRCHFRHS 315
                     9**********.66**********997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.103.5E-18247284IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.7E-10248283IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.488251279IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-8251278IPR000571Zinc finger, CCCH-type
PfamPF006422.6E-12253277IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-11285315IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.28E-8286316IPR000571Zinc finger, CCCH-type
SMARTSM003564.8E-4289316IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.131289317IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 327 aa     Download sequence    Send to blast
MEVVLAPTQP DGLHAAFGPK EPCGFGDRRF SSPSLLTNGD DLFYGYASPS SPFGFSRVLS  60
TPSPRAASLS RGSSDSGSVV HDGNDAAAAA AAERRQRLAR LALQYQEVVT RFELCLSYLA  120
DTSNEAAALR RENDELRIAN EDLARRIKMV GGKLVDEFSG LSLAEEHPIP LGPLTPLPAA  180
PAIPKSISVR SPGYLKMNQS GKHRPSKPTK LGSQRVFVGM DNGVNGEGEL KGGEEQQPNS  240
GLEFEVYNQG MLKTELCNKW EETGACPYGD QCQFAHGIAE LRPVIRHPRY KTEVCRMVLA  300
GVVCPYGHRC HFRHSITPTD LFPRQP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A5e-22253315567Butyrate response factor 2
Search in ModeBase
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0985712e-96AC098571.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1126_B10, complete sequence.
GenBankAC0988322e-96AC098832.3 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1268_B08, complete sequence.
GenBankAK1063542e-96AK106354.1 Oryza sativa Japonica Group cDNA clone:002-102-A03, full insert sequence.
GenBankAP0149612e-96AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
GenBankCP0126132e-96CP012613.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025808834.10.0zinc finger CCCH domain-containing protein 39-like
SwissprotQ6L5G11e-119C3H39_ORYSJ; Zinc finger CCCH domain-containing protein 39
TrEMBLA0A2S3H9C90.0A0A2S3H9C9_9POAL; Uncharacterized protein
STRINGSi022648m0.0(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP27753784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G66810.12e-55C3H 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]