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 Rsa1.0_00858.1_g00006.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family AP2
Protein Properties Length: 1275aa    MW: 141933 Da    PI: 8.7939
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00858.1_g00006.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP239.81.1e-12906962155
                      AP2   1 sgykGVrwdkkrgrWvAeIrd.pseng.krkrfslgkfgtaeeAakaaiaarkkleg 55 
                              s y+GV++++++gr++A+++d  ++n+ ++k+   g ++ +e Aa+a++ a++k++g
  Rsa1.0_00858.1_g00006.1 906 SIYRGVTRHRWTGRYEAHLWDkTTWNQnQNKKGKQGAYDDEEAAARAYDLAALKYWG 962
                              57*******************6666777775555599******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS513755.437108138IPR002885Pentatricopeptide repeat
PROSITE profilePS5137510.315144178IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007561.2E-7147180IPR002885Pentatricopeptide repeat
PfamPF130411.3E-11147190IPR002885Pentatricopeptide repeat
Gene3DG3DSA:1.25.40.102.4E-4176267IPR011990Tetratricopeptide-like helical domain
PROSITE profilePS5137511.082179213IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007561.2E-5182214IPR002885Pentatricopeptide repeat
PROSITE profilePS5137512.299214248IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007563.8E-8217249IPR002885Pentatricopeptide repeat
PfamPF130412.1E-9217260IPR002885Pentatricopeptide repeat
PROSITE profilePS513759.821249283IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007568.4E-6251285IPR002885Pentatricopeptide repeat
Gene3DG3DSA:1.25.40.102.3E-9268477IPR011990Tetratricopeptide-like helical domain
PROSITE profilePS5137510.008284318IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007562.2E-6287315IPR002885Pentatricopeptide repeat
PfamPF138122.5E-10314367IPR002885Pentatricopeptide repeat
PROSITE profilePS5137510.271321355IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007560.0019323357IPR002885Pentatricopeptide repeat
PROSITE profilePS5137512.025356390IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007565.2E-7358392IPR002885Pentatricopeptide repeat
PfamPF138126.2E-15378440IPR002885Pentatricopeptide repeat
PROSITE profilePS5137511.641391425IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007561.1E-7393427IPR002885Pentatricopeptide repeat
PROSITE profilePS5137513.691426460IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007562.3E-9428462IPR002885Pentatricopeptide repeat
PROSITE profilePS513756.96461495IPR002885Pentatricopeptide repeat
PROSITE profilePS513758.681496530IPR002885Pentatricopeptide repeat
PfamPF130414.4E-9496544IPR002885Pentatricopeptide repeat
PROSITE profilePS5137510.424531565IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007565.7E-4533565IPR002885Pentatricopeptide repeat
Gene3DG3DSA:1.25.40.102.3E-9548627IPR011990Tetratricopeptide-like helical domain
PROSITE profilePS5137510.589566602IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007565.6E-5569604IPR002885Pentatricopeptide repeat
PfamPF015350.2569600IPR002885Pentatricopeptide repeat
PfamPF130411.2E-11602650IPR002885Pentatricopeptide repeat
PROSITE profilePS5137512.386603637IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007561.0E-7606639IPR002885Pentatricopeptide repeat
PROSITE profilePS513757.815638672IPR002885Pentatricopeptide repeat
PROSITE profilePS513758.079708742IPR002885Pentatricopeptide repeat
TIGRFAMsTIGR007560.0013713743IPR002885Pentatricopeptide repeat
PfamPF138121.7E-4731787IPR002885Pentatricopeptide repeat
PROSITE profilePS513759.251743777IPR002885Pentatricopeptide repeat
PfamPF008472.4E-8906962IPR001471AP2/ERF domain
SuperFamilySSF541714.18E-14906971IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.103.9E-11907971IPR001471AP2/ERF domain
PROSITE profilePS5103218.479907970IPR001471AP2/ERF domain
SMARTSM003801.7E-19907976IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 1275 aa     Download sequence    Send to blast
MATTVTQLIT TPPESSRAYR PRAAAKTSSD ALQEKKSVYV NYDRGEHEVS VRVSGFRKAD  60
IARRYRVRVE NDRFQNDWSV TEVADRLVAL NRWEEVDGVL NSWVGRFARK NFPILISELS  120
RRGCIDLCVN VFNWMKNQKN YCARNDIYNM MIRLHARCNR VDQARGLFFE MQKWSCKPDA  180
ETYNALINAH GRAAQWRWAM NLMDDMLRAS IAPSRSTYNN LINACGSSGN WREALEVCKK  240
MTDNGVGPDL VTHNIVLSAY KSGRQYSKAL SYFELMKGAK VRPDTTTFNI IIYCLSKLGQ  300
SSQALDVFNS MREKRSECRP DVVTFTSIMH LYSVKGEIGN CRAVFEAMLA EGLRPNIVSY  360
NALMGAYAVH GMSENALSVF QEIKRNGMLP DVVSYTCLLN SYGRAGQPGK AKEVFLMMRK  420
ERRKPNVVTY NALIDAYGSN GLLAEAVGIF RQMEQDGFKP NVVSVCTLLA ACSRSGKKVN  480
VETVLSAAET RGIKLNTAAY NSAIGSFING AELEKATALY QTMRQKKVRA DSVTFTILIS  540
GSCRMSKYPE AVSYLKDMED LGVPLTKEVY SSVLCAYSKQ AGGQVTEAES IFNQMKMAGC  600
KPDVIAYTSM LHAYNASEKW EKACELFLEM ESNGVEPDSI ACSALMRAFN KGGEPSNVFI  660
MMDLMREKEV PFSGAVFFEI FSACNTLQEW KRATDLIQMM EPYLPSLSIG LTNQMLHLFG  720
KSGKVEAMMK LFYKMIADGA EINLKTYAVL LEHLLAVGNW RKYIEVLEWM SDGGIQPSTQ  780
MYRDIISFGE RSAGIEFEPL IRQKLESLRN KGGGDLSKPD GHEGTFAPFL ARVCVFWLEG  840
GIVASMSSSD QGPKTEAGGG ESSETVAASD EMLMYRGFKK AKKERGSTAK ERISKMPPCT  900
AGKRSSIYRG VTRHRWTGRY EAHLWDKTTW NQNQNKKGKQ GAYDDEEAAA RAYDLAALKY  960
WGPGTLINFP VTDYSRDLEE MQNLSREEYL ASLRRYPFGR KSSGFSRGIA KYRGLQSRWD  1020
ASASRMPGPE YFSNIHYGAG DDRGTEGDFL GNFCLERKID LTGYIKWWGV NKTRQPESSS  1080
SKASEDAKVE DAGTELKTLE HTSQATEPYK APNLGVLQRK EKQISSSPSS TQPSALSILS  1140
ASPAYKSLEE KVLKIQESTS TRENDENANR NIINMEKSHG KEIEKPVLSH GVALGGGGGG  1200
VPAAAAAALS LQKNSSMYPL TSLLTAPLLT NYNALDPLGD PILWTSFLPP GSSHTSEVTK  1260
TETSCSTYGY LPQEK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5i9f_A8e-741437875427pentatricopeptide repeat protein dPPR-U10
5i9h_A8e-741437875427pentatricopeptide repeat protein dPPR-U8G2
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00858.1_g00006.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0911350.0AY091135.1 Arabidopsis thaliana putative salt-inducible protein (At2g41720) mRNA, complete cds.
GenBankAY1172420.0AY117242.1 Arabidopsis thaliana putative salt-inducible protein (At2g41720) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018433309.10.0PREDICTED: pentatricopeptide repeat-containing protein At2g41720 isoform X1
SwissprotQ8RWS80.0PP199_ARATH; Pentatricopeptide repeat-containing protein At2g41720
TrEMBLM4CKA70.0M4CKA7_BRARP; Uncharacterized protein
STRINGBra004642.1-P0.0(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G41710.20.0AP2 family protein
Publications ? help Back to Top
  1. 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]
  2. Aryamanesh N, et al.
    The Pentatricopeptide Repeat Protein EMB2654 Is Essential for Trans-Splicing of a Chloroplast Small Ribosomal Subunit Transcript.
    Plant Physiol., 2017. 173(2): p. 1164-1176
    [PMID:28011633]