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 KN538814.1_FGP054
Organism
Oryza longistaminata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family C3H
Protein Properties Length: 383aa    MW: 41778.7 Da    PI: 8.4877
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN538814.1_FGP054genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH48.21.7e-15309334126
                        --S---SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                        +ktelC+ + +tG C+yGd+C+FaHg
  KN538814.1_FGP054 309 FKTELCNKWEETGACPYGDQCQFAHG 334
                        79***********************9 PP
2zf-CCCH23.59.8e-08347372126
                        --S---SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                        ykt  Cr  +++G C+yG rC+F H+
  KN538814.1_FGP054 347 YKTQVCRMVLAGGVCPYGHRCHFRHS 372
                        9**********************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.101.1E-18303341IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.57E-10305340IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.601308336IPR000571Zinc finger, CCCH-type
SMARTSM003567.2E-10308335IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-12309334IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.31E-8342374IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.8E-12342372IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.685346374IPR000571Zinc finger, CCCH-type
SMARTSM003568.9E-5346373IPR000571Zinc finger, CCCH-type
PfamPF006425.0E-5347372IPR000571Zinc 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: 383 aa     Download sequence    Send to blast
MQEALLPPAH PGRFYSDFGP KPFGGGDQRL SSPNLLTNGG DLFYGCYSPF SPTRVLSPPP  60
PRRAASFSHC SSSSDSVVDD GDGAGAEHRL HLAHLALQYQ EMANRFELCL SHLADAADEA  120
AALRQENAEL RVANNDLACR IAKFGGRQSS AIALAGDLRR LRLPKEQTVP ALPPPPQSPP  180
AALMNPVAVP EKQAVLPKSI SIRSTGYQKL NQGGKLRVSK PVNVGSVRPN PPIPPLCCVW  240
LPLLQRTDSS AESKIPILTS TMFLMRQCKQ QRVFVGIDGA EGGEHKVGVK NEEPPMGGLE  300
FEVYNQGMFK TELCNKWEET GACPYGDQCQ FAHGVAELRP VIRHPRYKTQ VCRMVLAGGV  360
CPYGHRCHFR HSITPADRFS FGH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A2e-22309372467Butyrate response factor 2
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN538814.1_FGP054
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0985710.0AC098571.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1126_B10, complete sequence.
GenBankAC0988320.0AC098832.3 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1268_B08, complete sequence.
GenBankAP0149610.0AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
GenBankCP0126130.0CP012613.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015640820.10.0zinc finger CCCH domain-containing protein 39
SwissprotQ6L5G10.0C3H39_ORYSJ; Zinc finger CCCH domain-containing protein 39
TrEMBLA0A0E0DUR20.0A0A0E0DUR2_9ORYZ; Uncharacterized protein
STRINGOMERI05G22150.10.0(Oryza meridionalis)
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
AT1G66810.14e-45C3H 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]