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 Zjn_sc00017.1.g03170.1.am.mkhc
Organism
Zoysia japonica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Zoysieae; Zoysiinae; Zoysia
Family C3H
Protein Properties Length: 628aa    MW: 72500.4 Da    PI: 6.798
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Zjn_sc00017.1.g03170.1.am.mkhcgenomeZGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH22.81.6e-07129148625
                                     -SGGGGTS--TTTTT-SS-S CS
                         zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                                     C+f+++tG C++G rC++ H
  Zjn_sc00017.1.g03170.1.am.mkhc 129 CPFHLKTGACRFGVRCSRVH 148
                                     ******************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010311.798123151IPR000571Zinc finger, CCCH-type
PRINTSPR018484.0E-11129148IPR009145U2 auxiliary factor small subunit
PfamPF006421.4E-5129148IPR000571Zinc finger, CCCH-type
PRINTSPR018484.0E-11148168IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3305.9E-8198233IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549282.38E-6198233IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS501037.901227248IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000398Biological ProcessmRNA splicing, via spliceosome
GO:0089701Cellular ComponentU2AF
GO:0000166Molecular Functionnucleotide binding
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 628 aa     Download sequence    Send to blast
AAEAEAAVDP EEETRLLELE LAQAAEESDQ ARQAFEEAER RWLEAAAARA AKRAAKAAEE  60
EEARAAEASS RHKDGDGNKL EEDDEWEYVE EGPAEIIWQG NEIIVKKKKV KVPKGVKEKL  120
PTQEDKAHCP FHLKTGACRF GVRCSRVHFY PDKSCTLLMK HMYNGPGLAL EQDEGLEAYN  180
DPATWFHLIE GAQTVDLNGS FHLRGNVYVH YKSLDSALLA HNSMNGRYFA GKQTCSHGAA  240
CNFIHCFRNP GGDYEWSDWD NPPPKYWIRK MTALFGLSAD TNSLSTTPDF ECSQGSDRKR  300
LKSSGDRYVS RRLKDEDGYK QRFCRDYSHS MEEHCSRSMK NEQSRHRRDP HAVDKHRSRE  360
IEGNKGKYPQ NGRESHRHLQ SHRHLHEERY KSDHSGREKG DDGKIRSRKN RSDQQGYLEP  420
RSSDWHSDYT DLSNSPSGRS TSRYVDYKRR RQSTEDNNTG KNSSFVHRSG EEEDRTKRHS  480
SRYSEDDYYD KKNDYYDEKN DGRGKTGKGG NHHDDSDDRW VATNSDVDSD YEIYQRSSSN  540
SSNSEQKDEA HSDAEARHQR SLMEAKDHKS RRRHSEHRQY CDTEEDTSYS DTTDSSTDSW  600
GRRSRSSEEK VSKHRSRKNI DQSREKAE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A6e-1212224511167Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0058081e-50AP005808.3 Oryza sativa Japonica Group genomic DNA, chromosome 2, BAC clone:OSJNBb0038F20.
GenBankAP0149581e-50AP014958.1 Oryza sativa Japonica Group DNA, chromosome 2, cultivar: Nipponbare, complete sequence.
GenBankCP0126101e-50CP012610.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 2 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002453991.21e-177zinc finger CCCH domain-containing protein 16 isoform X2
SwissprotQ6YVX91e-169C3H16_ORYSJ; Zinc finger CCCH domain-containing protein 16
TrEMBLA0A1D6HAP60.0A0A1D6HAP6_MAIZE; Rough endosperm3
STRINGPavir.Ab01939.1.p1e-176(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP92961317
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G10320.11e-73C3H 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]