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 Pp3c5_25680V3.3.p
Organism
Physcomitrella patens
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Bryophyta; Bryophytina; Bryopsida; Funariidae; Funariales; Funariaceae; Physcomitrella
Family C3H
Protein Properties Length: 343aa    MW: 37682.9 Da    PI: 7.6663
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pp3c5_25680V3.3.pgenomeCOSMOSSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH24.54.7e-082444526
                       --SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                        C f++r G C+yG+rC++ H+
  Pp3c5_25680V3.3.p 24 VCTFYQR-GLCSYGARCRYEHV 44
                       69*9999.***********997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501038.784118IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.7651946IPR000571Zinc finger, CCCH-type
SMARTSM003562.1E-51945IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.28E-52043IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.2E-42343IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-52444IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.878124151IPR000571Zinc finger, CCCH-type
SMARTSM003569.8E-4125150IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.40.108.0E-10177255IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF578508.16E-13180257No hitNo description
CDDcd001624.44E-4192254No hitNo description
PfamPF000973.2E-5193250IPR018957Zinc finger, C3HC4 RING-type
PROSITE profilePS5008911.634193251IPR001841Zinc finger, RING-type
SMARTSM001843.0E-6193250IPR001841Zinc finger, RING-type
PROSITE patternPS005180217226IPR017907Zinc finger, RING-type, conserved site
SMARTSM003560.1280308IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.859280309IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 343 aa     Download sequence    Send to blast
MHGACLKGVD CQFSHNWSDQ SSQVCTFYQR GLCSYGARCR YEHVKVSRLT QPLATPVPVP  60
RHLPAAISLT STVDSSSRAT VIAKPSLAHL KDAWQQNSTE SLANGVSAIS LGEADEPEAL  120
SNDPSDRPIC AFAAAGNCPL GESCRNIHGD LCTTCGKHCL HPYRPLDREN HKIQCERNKK  180
NLEALLKSQD IECSICLERV LSKPTVAERK FGLMSGCDHP FCVGCIRGWR SGSHAPGMDI  240
DTVVRACPVC RVPTHYVVPS VVWYFSPEEK EEIINGYKNK LGEVDCRHFD YGNGTCPFGT  300
SCFYKHAFKD GTLEEVKLRH LGAADGNTVI VKNVRLSDFL KL*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ppa.184850.0protonema
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in dry seeds. Increased expression throughout imbibition and germination and when radicle and shoots are emerging. Up-regulated during cell differentiation. {ECO:0000269|PubMed:17870591}.
UniprotTISSUE SPECIFICITY: Expressed in primary roots and leaves. Detected in vascular bundle tissues. {ECO:0000269|PubMed:17870591}.
Functional Description ? help Back to Top
Source Description
UniProtE3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins. {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024375821.10.0E3 ubiquitin-protein ligase makorin-like isoform X1
SwissprotQ5ZA071e-140C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBLA0A2K1KL260.0A0A2K1KL26_PHYPA; Uncharacterized protein
STRINGPP1S154_11V6.10.0(Physcomitrella patens)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08505.21e-127C3H 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]
  2. Sahi VP, et al.
    A molecular insight into Darwin's "plant brain hypothesis" through expression pattern study of the MKRN gene in plant embryo compared with mouse embryo.
    Plant Signal Behav, 2012. 7(3): p. 375-81
    [PMID:22499205]
  3. Wadekar HB,Sahi VP,Morita EH,Abe S
    MKRN expression pattern during embryonic and post-embryonic organogenesis in rice (Oryza sativa L. var. Nipponbare).
    Planta, 2013. 237(4): p. 1083-95
    [PMID:23262670]