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 KN539163.1_FGP008
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: 574aa    MW: 63506.7 Da    PI: 6.675
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN539163.1_FGP008genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.32e-062949526
                       --SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                       +C+ +   G+C+ G++C++ H+
  KN539163.1_FGP008 29 ECNMYKM-GFCPNGPNCRYKHV 49
                       6666666.*************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501037.864123IPR000571Zinc finger, CCCH-type
SMARTSM003561124IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.0652451IPR000571Zinc finger, CCCH-type
SMARTSM003560.00312650IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.7E-43048IPR000571Zinc finger, CCCH-type
PfamPF041463.7E-44169303IPR007275YTH domain
PROSITE profilePS5088257.421169304IPR007275YTH domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006979Biological Processresponse to oxidative stress
GO:0034052Biological Processpositive regulation of plant-type hypersensitive response
GO:1900363Biological Processregulation of mRNA polyadenylation
GO:2000031Biological Processregulation of salicylic acid mediated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003723Molecular FunctionRNA binding
GO:0004521Molecular Functionendoribonuclease activity
GO:0005516Molecular Functioncalmodulin binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 574 aa     Download sequence    Send to blast
MPVCRFFRDF GECREPDCAY KHSYDDVKEC NMYKMGFCPN GPNCRYKHVK LPGPPPPVEE  60
VLQKILQIRS FNKFNQHRHN NYNQQGERPQ HPQGSGLPNQ NSIDNTTTTT AQPAVGQQAQ  120
TTNQQPPQQQ QQQQQQQQKP NTNDQVQSVP NGSSNQATRI ATPLPQGPSR YFIVKSCNRE  180
NLEISVQQGI WATQRSNEAK LNEAFESIEN VILIFSINRT RNFQGCAKMT SRIGGYIGGG  240
NWKSAHGTAH YGRNFSIQWL KLCELSFQKT HHLRNPYNDN LPVKISRDCQ ELEPFIGEQL  300
ASLLYLEPDS ELTAILIAAE AKKEEEKAKG VSADEAADNQ DIVLFDDNEE EEEEESEEEE  360
EGNGQESQGR GRGRGMMWPP QMPMLRGVGP MMGGRGFPPN MIGDGFGFGG GFGMPDPFGV  420
PRGFPPFGPR FPGDFARGGP MPGMVFPGRP PQPGGMFPMG LEMMMGPGRG PLMGGLGMGG  480
PGRPNRPVGM APFMPPPPPP NNRGTKREQR RPGGERGDRY ETTSDQGSRG HDATGNSGAE  540
GARSQSGDRY GRSALRDDDS ESDEEAAPRR SRKR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zuu_A1e-104154332218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_B1e-104154332218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_C1e-104154332218030-kDa cleavage and polyadenylation specificity factor 30
5zuu_D1e-104154332218030-kDa cleavage and polyadenylation specificity factor 30
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN539163.1_FGP008
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0037280.0AP003728.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0710B08.
GenBankAP0049890.0AP004989.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, BAC clone:B1153E06.
GenBankAP0149620.0AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015644405.10.0zinc finger CCCH domain-containing protein 45
SwissprotQ0DA500.0C3H45_ORYSJ; Zinc finger CCCH domain-containing protein 45
TrEMBLA0A0E0GD410.0A0A0E0GD41_ORYNI; Uncharacterized protein
TrEMBLA0A0P0X0B10.0A0A0P0X0B1_ORYSJ; Os06g0677700 protein
STRINGOS06T0677700-000.0(Oryza sativa)
STRINGONIVA02G35500.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP59892428