PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Zpz_sc00197.1.g00150.1.am.mkhc
Organism
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: 697aa    MW: 80333.5 Da    PI: 7.8314
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Zpz_sc00197.1.g00150.1.am.mkhcgenomeZGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH22.61.8e-07179198625
                                     -SGGGGTS--TTTTT-SS-S CS
                         zf-CCCH   6 CrffartGtCkyGdrCkFaH 25 
                                     C+f+++tG C++G rC++ H
  Zpz_sc00197.1.g00150.1.am.mkhc 179 CPFHLKTGACRFGVRCSRVH 198
                                     ******************99 PP

2zf-CCCH24.35.6e-08294321126
                                     --S---SGGGGTS..--TTTTT-SS-SS CS
                         zf-CCCH   1 yktelCrffartG..tCkyGdrCkFaHg 26 
                                     +k ++C  ++r+   tC++G+ C+F+H+
  Zpz_sc00197.1.g00150.1.am.mkhc 294 WKAAICGEYMRSRykTCSHGAACNFIHC 321
                                     7889***********************8 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010311.798173201IPR000571Zinc finger, CCCH-type
SMARTSM003562.4174200IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-5179198IPR000571Zinc finger, CCCH-type
PRINTSPR018481.1E-18179198IPR009145U2 auxiliary factor small subunit
Gene3DG3DSA:3.30.70.3301.8E-11242289IPR012677Nucleotide-binding alpha-beta plait domain
SuperFamilySSF549281.92E-9248289IPR012677Nucleotide-binding alpha-beta plait domain
PRINTSPR018481.1E-18275299IPR009145U2 auxiliary factor small subunit
PROSITE profilePS5010310.756293323IPR000571Zinc finger, CCCH-type
SMARTSM003560.03293322IPR000571Zinc finger, CCCH-type
PfamPF006421.4E-5294321IPR000571Zinc finger, CCCH-type
PRINTSPR018481.1E-18313325IPR009145U2 auxiliary factor small subunit
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: 697 aa     Download sequence    Send to blast
MSAPVAETAD GSGEAGPHAA ALATRREKLK ERKKERRRRA RREAAARARE AAEAEAAVDP  60
EEETRLLELE LAQAAEESDH ARQAFEEAER RWLEAAAARA AKRAAKAAEE EEARAAEASS  120
RHKDGDGNKL EEDDEWEYVE EGPAEIIWQG NEIIVKKKKV KVPKGVKEKL PTQEDKAHCP  180
FHLKTGACRF GVRCSRVHFY PDKSCTLLMK HMYNGPGLAL EQDEGLEAYN DPATWFHLIE  240
GVQTVDLNGS FHLRGNVYVH YKSLDSALLA YNSMNGRYFA GKQISCEFVA LTKWKAAICG  300
EYMRSRYKTC SHGAACNFIH CFRNPGGDYE WSDWDNPPPK YWIRKMTALF GLSADTNSLS  360
TTPDFECSQG SDRKRLKSSG DRYVSRRLKD EDGYKQRFCR DYSHSMEEHC SRSMKNEQSR  420
HRRDPHAVDK HRSREIEGNK GKYPQNGRES HRHLHEERYK SDHSGRVKGD DGKIRSRKNR  480
SNQQGYLEPR SSDWHSDYTD LSNSPSGRST SRYVDYKRRR QSSEDYNTGK HSSFVHRSSE  540
EEDRTKRHSS RYSEDDYYDK KNDYYDEKND GRGKTGKGGN HHDDSDDRWV ATNSDVDSDY  600
EIYQRSSSNS SNSERKDEAH SDAEARHQRS LMEAKDHKSS RRHSEHRQYR DTEEDTSYSD  660
TTDSSSDSWG RRSRSSEEKV SKHRSRRNID QSREKAE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4yh8_A2e-1717232011167Splicing factor U2AF 23 kDa subunit
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
13542RRRRARRE
Cis-element ? help Back to Top
SourceLink
PlantRegMapZpz_sc00197.1.g00150.1.am.mkhc
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0239761e-112BT023976.1 Zea mays clone EL01N0356C06 mRNA sequence.
GenBankJF6811441e-112JF681144.1 Zea mays RGH3 splicing factor mRNA, complete cds.
GenBankJN7914171e-112JN791417.1 Zea mays rough endosperm 3-umu1 alpha isoform (Rgh3) mRNA, Rgh3-umu1 allele, complete cds, alternatively spliced.
GenBankJN7914181e-112JN791418.1 Zea mays rough endosperm 3-umu1 gamma isoform (Rgh3) mRNA, Rgh3-umu1 allele, complete cds, alternatively spliced.
GenBankJN7914191e-112JN791419.1 Zea mays rough endosperm 3 alpha isoform (Rgh3) mRNA, complete cds, alternatively spliced.
GenBankJN7914201e-112JN791420.1 Zea mays rough endosperm 3 beta isoform 1 (Rgh3) mRNA, complete cds, alternatively spliced.
GenBankJN7914231e-112JN791423.1 Zea mays rough endosperm 3 beta isoform 4 (Rgh3) mRNA, complete cds, alternatively spliced.
GenBankJN7914241e-112JN791424.1 Zea mays rough endosperm 3 gamma isoform 1 (Rgh3) mRNA, complete cds, alternatively spliced.
GenBankJN7914271e-112JN791427.1 Zea mays rough endosperm 3 gamma isoform 4 (Rgh3) mRNA, complete cds, alternatively spliced.
GenBankJN7914281e-112JN791428.1 Zea mays rough endosperm 3 gamma isoform 5 (Rgh3) mRNA, complete cds, alternatively spliced.
GenBankJN7914291e-112JN791429.1 Zea mays rough endosperm 3 gamma isoform 6 (Rgh3) mRNA, complete cds, alternatively spliced.
GenBankJN7914301e-112JN791430.1 Zea mays rough endosperm 3 gamma isoform 7 (Rgh3) mRNA, complete cds, alternatively spliced.
GenBankJN7914311e-112JN791431.1 Zea mays rough endosperm 3 gamma isoform 8 (Rgh3) mRNA, complete cds, alternatively spliced.
GenBankJN7914321e-112JN791432.1 Zea mays rough endosperm 3 gamma isoform 9 (Rgh3) mRNA, complete cds, alternatively spliced.
GenBankJN7914331e-112JN791433.1 Zea mays rough endosperm 3 delta isoform (Rgh3) mRNA, complete cds, alternatively spliced.
GenBankJN7914341e-112JN791434.1 Zea mays rough endosperm 3 zeta isoform (Rgh3) mRNA, complete cds, alternatively spliced.
GenBankJN7914351e-112JN791435.1 Zea mays rough endosperm 3 eta isoform (Rgh3) mRNA, complete cds, alternatively spliced.
GenBankJN7914371e-112JN791437.1 Zea mays rough endosperm 3 (Rgh3) mRNA, complete sequence; alternatively spliced.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002453991.20.0zinc finger CCCH domain-containing protein 16 isoform X2
SwissprotQ6YVX90.0C3H16_ORYSJ; Zinc finger CCCH domain-containing protein 16
TrEMBLA0A1D6HAP60.0A0A1D6HAP6_MAIZE; Rough endosperm3
STRINGPavir.Ab01939.1.p0.0(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
AT1G10320.14e-95C3H 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]