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 ONIVA12G04980.2
Organism
Oryza nivara
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: 687aa    MW: 78050.3 Da    PI: 6.3003
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ONIVA12G04980.2genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH283.7e-094570126
                     --S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHg 26
                     ++++ C+++ ++G Ck+G +C ++H+
  ONIVA12G04980.2 45 PGEPDCSYYVKFGSCKFGISCVYNHP 70
                     5789*********************9 PP
2zf-CCCH29.11.7e-0991117127
                      --S---SGGGGTS--TTTTT-SS-SSS CS
          zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                      ++++ C+++ ++G Ck+G +C+F+H+p
  ONIVA12G04980.2  91 PGEPDCSYYVKFGSCKFGMNCRFNHPP 117
                      5789*********************96 PP
3zf-CCCH34.34e-11158183126
                      --S---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                      ++t lC++++  G+Ck+G +CkF H+
  ONIVA12G04980.2 158 PGTGLCSYYMNRGICKFGTNCKFDHP 183
                      5799*********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.6484472IPR000571Zinc finger, CCCH-type
SMARTSM003562.7E-44471IPR000571Zinc finger, CCCH-type
PfamPF006422.1E-64670IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.85990118IPR000571Zinc finger, CCCH-type
SMARTSM003561.7E-490117IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-692117IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.694157185IPR000571Zinc finger, CCCH-type
SMARTSM003569.1E-6157184IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.49E-6158184IPR000571Zinc finger, CCCH-type
PfamPF006422.3E-8159183IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.1E-4160182IPR000571Zinc finger, CCCH-type
SuperFamilySSF483712.88E-30356516IPR016024Armadillo-type fold
Gene3DG3DSA:1.25.40.1802.7E-30356515IPR016021MIF4G-like domain
SMARTSM005431.4E-5360613IPR003890MIF4G-like, type 3
PfamPF028541.5E-20361519IPR003890MIF4G-like, type 3
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003723Molecular FunctionRNA binding
GO:0005515Molecular Functionprotein binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 687 aa     Download sequence    Send to blast
MPQDDDWFWG RPTPVVVGDG ETTSKPKPPV AGKTKKVEEQ HPRRPGEPDC SYYVKFGSCK  60
FGISCVYNHP DPRPQHGADD KKPAEQFPRR PGEPDCSYYV KFGSCKFGMN CRFNHPPRMP  120
VPPQQEYFSG NACHCHHIEG KSKVEQVKLN VLGLPLRPGT GLCSYYMNRG ICKFGTNCKF  180
DHPDPGSDHE KWVVSSNANQ VSSQVNIYSV LDHGESNEHT FTSEEVHQPG IPSFHQGISY  240
TRDQLLQLCQ NVEVPKDILK FCQNINVELN GEDKMSGFGA EKDHVQTPSY KRFDATDSRD  300
WHSRSAQTNW EQKFWDNFSE AKEPYSLGWK QEKFNKPDQS SFHFDSKDQR GIISGKDEVL  360
KTLKSILNTF TPKMFDLQKG QLIETRISSA DILKDVINLI FEKIVAEPAF CSTYAQLCTY  420
LNQNLTPFPP EDCDCEEITF KQALSNKCQE IFESAHTVCS EIGKLIGQDR EMEQRDKERV  480
VKLETLGNIN FIRALLKKKL ITNKIIDHIV QAVMDCCKFR FEPLGKVDLL NIIFEGMLDS  540
DSAGAESNIC VNAMIGGNKS SIASNDVEMT RKNVNRQNEE AILQKSYDEV PNNKMDPQKN  600
YADGAISYLI EKEKPTNLES SVRICRGGCS ISEIMELVVD AGAVEGSDEH FMATLLFIKP  660
EYREIFLTLD TREGRLGWLK RMYKVKE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1hu3_A2e-1235851410175EIF4GII
Search in ModeBase
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1015100.0AK101510.1 Oryza sativa Japonica Group cDNA clone:J033045L14, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015641849.10.0zinc finger CCCH domain-containing protein 43
RefseqXP_025882269.10.0zinc finger CCCH domain-containing protein 43
SwissprotQ5Z5Q30.0C3H43_ORYSJ; Zinc finger CCCH domain-containing protein 43
TrEMBLA0A0E0J7P70.0A0A0E0J7P7_ORYNI; Uncharacterized protein
STRINGONIVA12G04980.10.0(Oryza nivara)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02830.13e-31zinc finger protein 1
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]