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 Sobic.003G117700.1.p
Common NameSb03g009920, SORBIDRAFT_03g009920
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family C3H
Protein Properties Length: 450aa    MW: 48304.5 Da    PI: 7.9319
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.003G117700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH33.38.3e-114268127
                          --S---SGGGGTS--TTTTT-SS-SSS CS
               zf-CCCH  1 yktelCrffartGtCkyGdrCkFaHgp 27
                          ++++ C +++rtG C yG+rC+++H++
  Sobic.003G117700.1.p 42 PGEADCAYYLRTGACGYGERCRYNHPR 68
                          57899********************96 PP
2zf-CCCH39.97e-1390116127
                           --S---SGGGGTS--TTTTT-SS-SSS CS
               zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                           ++++lC ++a++GtCk+G++CkF H++
  Sobic.003G117700.1.p  90 PGQPLCEYYAKNGTCKFGSNCKFDHPR 116
                           589**********************96 PP
3zf-CCCH39.31.1e-12136160327
                           S---SGGGGTS--TTTTT-SS-SSS CS
               zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                           +++C+++++tG+Ck+G++CkF+H++
  Sobic.003G117700.1.p 136 EKECSYYMKTGHCKFGSTCKFHHPE 160
                           689********************96 PP
4zf-CCCH37.92.9e-12288314127
                           --S---SGGGGTS--TTTTT-SS-SSS CS
               zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHgp 27 
                           +++++C ++++tGtCkyG+ Ck++H++
  Sobic.003G117700.1.p 288 PGQPECEHYMKTGTCKYGAVCKYHHPQ 314
                           5789*********************97 PP
5zf-CCCH25.62.1e-08336360327
                           S---SGGGGTS--TTTTT-SS-SSS CS
               zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                             +C ++a  G+Ck+G++CkF H++
  Sobic.003G117700.1.p 336 SQPCAYYAHHGFCKFGPTCKFDHPM 360
                           679********************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.0424169IPR000571Zinc finger, CCCH-type
SMARTSM003568.9E-64168IPR000571Zinc finger, CCCH-type
PfamPF006421.6E-84368IPR000571Zinc finger, CCCH-type
SuperFamilySSF902295.63E-64569IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.1E-54769IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.91589117IPR000571Zinc finger, CCCH-type
SMARTSM003562.0E-789116IPR000571Zinc finger, CCCH-type
PfamPF006423.5E-1091116IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.88E-692117IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.3E-694117IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.558133161IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-5133160IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.79E-6135160IPR000571Zinc finger, CCCH-type
PfamPF006424.3E-10136160IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.0E-5139159IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.723287315IPR000571Zinc finger, CCCH-type
SMARTSM003564.2E-6287314IPR000571Zinc finger, CCCH-type
PfamPF006423.9E-9289314IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.06E-5291314IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.105.5E-4293312IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.568333361IPR000571Zinc finger, CCCH-type
SMARTSM003565.9E-5333360IPR000571Zinc finger, CCCH-type
PfamPF006425.1E-6335360IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.09E-5335361IPR000571Zinc 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: 450 aa     Download sequence    Send to blast
MEPYAAAKGG GADAGTGLEE SMRRLGLGDD GEPGEEKLPE RPGEADCAYY LRTGACGYGE  60
RCRYNHPRDR PPPVNGVGKT AGMVEYPERP GQPLCEYYAK NGTCKFGSNC KFDHPREGGF  120
VPVTLNSSGF PLRLGEKECS YYMKTGHCKF GSTCKFHHPE VGFLSETPGM YPPVQPSPIS  180
SSHPYPHLAN WQMGRPPVVP GSFLPGSYPP MMLPPTVMPM QGWNPYVSPM NQVTPAGGQQ  240
AVPAGASYGL SHQGPTSAMT YGSHYAQLYS SSGTSSSNIQ EYAFPERPGQ PECEHYMKTG  300
TCKYGAVCKY HHPQYFSGPK SNYMLSPLGL PLRPGSQPCA YYAHHGFCKF GPTCKFDHPM  360
GTPNYSISAS SLADVPVAPY PHSFPVTPMP PYLPSSDLRP QYTLVKDSSA NPPPAPGTTY  420
GPVGSMSKVY APHTLIRSPA SAAAGMQAS*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.203700.0embryo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.003G117700.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0637610.0BT063761.1 Zea mays full-length cDNA clone ZM_BFc0104J02 mRNA, complete cds.
GenBankBT0678680.0BT067868.1 Zea mays full-length cDNA clone ZM_BFc0176C01 mRNA, complete cds.
GenBankJX4284740.0JX428474.1 Zea mays subsp. mays clone pUT3070 C3H12 C3H type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002457592.10.0zinc finger CCCH domain-containing protein 5
SwissprotQ5NAV30.0C3H5_ORYSJ; Zinc finger CCCH domain-containing protein 5
TrEMBLC5XFV70.0C5XFV7_SORBI; Uncharacterized protein
STRINGSb03g009920.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP27613889
Representative plantOGRP28651131
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G47850.39e-90C3H 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]