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 Niben101Scf12317g00016.1
Organism
Nicotiana benthamiana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family MYB_related
Protein Properties Length: 326aa    MW: 37176.3 Da    PI: 8.5978
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf12317g00016.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding34.25.7e-11293326135
                               TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS CS
           Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgR 35 
                               +g+WT eEd++++++v+++G+  W+ Ia+ ++ gR
  Niben101Scf12317g00016.1 293 KGPWTREEDDKIIELVAKYGPMKWSVIAKSLP-GR 326
                               79******************99**********.98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS513759.93189123IPR002885Pentatricopeptide repeat
PROSITE profilePS513758.407124154IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007568.4E-4129157IPR002885Pentatricopeptide repeat
PROSITE profilePS5137510.15155189IPR002885Pentatricopeptide repeat
PfamPF130415.7E-10155201IPR002885Pentatricopeptide repeat
Gene3DG3DSA:1.10.10.602.5E-7273298IPR009057Homeodomain-like
SuperFamilySSF466898.98E-18273326IPR009057Homeodomain-like
PROSITE profilePS5129421.152288326IPR017930Myb domain
PfamPF002499.4E-10293326IPR001005SANT/Myb domain
CDDcd001674.97E-9295326No hitNo description
Gene3DG3DSA:1.10.10.601.7E-13299326IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 326 aa     Download sequence    Send to blast
MKSLLRFKSK LTPVFCLVFI GPSPLLFALG NLLQHLRCYS GVATQWQNET RLINSNDMLN  60
EFTTYCYQRD LPRAMKALNS LQTHKIWADA VTYSELIKCC LARGAVEQGI RVHQHVFSNG  120
YEPKTFLVNT LINMYMKFNM LDEAQALFDQ MSDRNVVSWT TMIAAYSSTK INNKALEFLI  180
LMLRDGIRPN MFTYSSVLRA CDDLSNLRQL HCSILKVGLE SDVFVRNCKV PYLKSLENDA  240
CPSQELCATT LKTPDPGEPL VQLGEQRVVG LLSRSEVQCL HRWQKVLNPD LVKGPWTREE  300
DDKIIELVAK YGPMKWSVIA KSLPGR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5iww_D1e-296622728334PLS9-PPR
Search in ModeBase
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019257370.11e-148PREDICTED: pentatricopeptide repeat-containing protein At2g03880, mitochondrial
RefseqXP_019257371.11e-148PREDICTED: pentatricopeptide repeat-containing protein At2g03880, mitochondrial
RefseqXP_019257372.11e-148PREDICTED: pentatricopeptide repeat-containing protein At2g03880, mitochondrial
SwissprotQ9SI531e-74PP147_ARATH; Pentatricopeptide repeat-containing protein At2g03880, mitochondrial
TrEMBLA0A1J6HVH91e-147A0A1J6HVH9_NICAT; Pentatricopeptide repeat-containing protein, mitochondrial
STRINGXP_009630538.11e-147(Nicotiana tomentosiformis)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G02320.21e-27myb domain protein 3r-5
Publications ? help Back to Top
  1. Aubourg S,Boudet N,Kreis M,Lecharny A
    In Arabidopsis thaliana, 1% of the genome codes for a novel protein family unique to plants.
    Plant Mol. Biol., 2000. 42(4): p. 603-13
    [PMID:10809006]
  2. Lurin C, et al.
    Genome-wide analysis of Arabidopsis pentatricopeptide repeat proteins reveals their essential role in organelle biogenesis.
    Plant Cell, 2004. 16(8): p. 2089-103
    [PMID:15269332]
  3. Bentolila S,Knight W,Hanson M
    Natural variation in Arabidopsis leads to the identification of REME1, a pentatricopeptide repeat-DYW protein controlling the editing of mitochondrial transcripts.
    Plant Physiol., 2010. 154(4): p. 1966-82
    [PMID:20974892]