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_04342.1_g00002.1
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 LBD
Protein Properties Length: 2417aa    MW: 269532 Da    PI: 8.3528
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_04342.1_g00002.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF26089.93.1e-28287390199
                   DUF260   1 aCaaCkvlrrkCakdCvlapyf.....paeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvil 81 
                              +C++C+vlr++C++dC ++p++     p++q++++ +++k++G++ +++l++a p++ r+ +++sl+ eA+ r+ +P+yG+vg+++
  Rsa1.0_04342.1_g00002.1 287 SCNGCRVLRKGCSDDCSIRPCLawiksPEAQANATVFLAKFYGRAGLMNLINAGPDHLRPGIFRSLLHEACGRIVNPIYGSVGLLW 372
                              6************************************************************************************* PP

                   DUF260  82 klqqqleqlkaelallke 99 
                              ++++ql+q+++e+++ +e
  Rsa1.0_04342.1_g00002.1 373 SGNWQLCQAAVEAVMKGE 390
                              ***********9988766 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF077271.0E-13229277IPR013103Reverse transcriptase, RNA-dependent DNA polymerase
PROSITE profilePS5089116.275286392IPR004883Lateral organ boundaries, LOB
PfamPF031952.2E-22287387IPR004883Lateral organ boundaries, LOB
Gene3DG3DSA:1.10.10.5404.1E-29529595IPR015360XPC-binding domain
SuperFamilySSF1012383.01E-21529595IPR015360XPC-binding domain
SMARTSM007271.8E-5531574IPR006636Heat shock chaperonin-binding
PfamPF092807.4E-22533588IPR015360XPC-binding domain
PRINTSPR018392.1E-31559581IPR004806UV excision repair protein Rad23
SuperFamilySSF469342.71E-13599656IPR009060UBA-like
PRINTSPR018392.1E-31609625IPR004806UV excision repair protein Rad23
CDDcd143828.47E-23611653No hitNo description
Gene3DG3DSA:1.10.8.106.5E-24612656No hitNo description
PROSITE profilePS5003014.547612653IPR015940Ubiquitin-associated domain
SMARTSM001651.5E-7615652IPR015940Ubiquitin-associated domain
PfamPF006272.3E-10615650IPR015940Ubiquitin-associated domain
PRINTSPR018392.1E-31626640IPR004806UV excision repair protein Rad23
PRINTSPR018392.1E-31641656IPR004806UV excision repair protein Rad23
PfamPF141112.9E-319121054IPR025558Domain of unknown function DUF4283
SuperFamilySSF577561.8E-610871128IPR001878Zinc finger, CCHC-type
Gene3DG3DSA:4.10.60.102.1E-610881127IPR001878Zinc finger, CCHC-type
SMARTSM003430.3310901106IPR001878Zinc finger, CCHC-type
SMARTSM003430.2311101126IPR001878Zinc finger, CCHC-type
SuperFamilySSF562194.19E-1812741443IPR005135Endonuclease/exonuclease/phosphatase
Gene3DG3DSA:3.60.10.107.6E-1212961444IPR005135Endonuclease/exonuclease/phosphatase
PfamPF033724.8E-613221436IPR005135Endonuclease/exonuclease/phosphatase
SuperFamilySSF566721.1E-1716591944No hitNo description
PROSITE profilePS5087821.83116971974IPR000477Reverse transcriptase domain
CDDcd016502.34E-5517101974No hitNo description
PfamPF000781.1E-5117171974IPR000477Reverse transcriptase domain
PfamPF139663.5E-1722392321IPR026960Reverse transcriptase zinc-binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006289Biological Processnucleotide-excision repair
GO:0043161Biological Processproteasome-mediated ubiquitin-dependent protein catabolic process
GO:0005634Cellular Componentnucleus
GO:0003684Molecular Functiondamaged DNA binding
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 2417 aa     Download sequence    Send to blast
YVINRVPTRA LKNKTPYESL KGGKPNVCHL RVFGCVAHAK VDSVHLRKLD DRSQALVHLG  60
IEPATKAYRL YNPTFRRIVV SWDVIFDEKT CWNWKGATKE GQDDSGMFRM TWGLTVNEGN  120
GPFIASTQQE ETADAETEPQ DETGVTHAES DVTHNEEEEV DQSSTQEVRR STRQTSKPSY  180
LDDYILLAEI ECELMLHDIN DEPKNFQEAK GDKRWTKACE DEIHSININK TWTLTDKPAG  240
VKIIGLKWIF KIKRNADGSI NKFKARLVAK GYVQEHESSR QKKMRMSCNG CRVLRKGCSD  300
DCSIRPCLAW IKSPEAQANA TVFLAKFYGR AGLMNLINAG PDHLRPGIFR SLLHEACGRI  360
VNPIYGSVGL LWSGNWQLCQ AAVEAVMKGE PITEMATDAA TNGQGPPLKM YDIRHISKDE  420
SSAVAAAAAG LTDLKRPKAR RAKRLAAVAK AAESEGKSGG GEASHVSSLS HQSEIVAAQE  480
GDSNISEVMA FSPPAVQSSG EIKLDLSLGL EPVSHACNVG LPNVGANPGG GTLDFLRNSQ  540
QFQALRAMVQ ANPQVLQPML QELGKQNPNL MRLIQEHQAD FLRLINEPVE GGAEGANLLG  600
EGMPQPQAIQ VTPEERDAIE RLEAMGFERA LVLEVFFACN KNEELAANYL LDHMHEKGDP  660
TPTVPCLAAS HRRLIRRRIL NDLSAPSPSK QMKKKKPKKS PAKPSPKTSP PAKSNSSPAK  720
SIPPPSDSDT RSHDSLPEDS SEGSDAQINC SAAAVAHLSK DVSDLPHSTT LAETEKVIVT  780
TSTDPISDSD KATTQEVTEL SSVAPLASDL EPETLPNAIA VNAKVIQVAL MQEANSPGKA  840
HKEGVLNTNF EAKGSPAIKG ASETDLKQSN GSDPVDSWCA RAKGVGKRLS KKGEAFTLPS  900
GEACVKIPNS VIEKNRKSWE PFVLGQFYSD PPSQGTLHNI VNGIWSKHYR DIAVSKMEGF  960
AFLFCIPNAA TRQRVVTQGL WQIEGQTMFV DKWEPGVIPA KPELTSAPIW LELRNVPFQF  1020
FNEDGLERIA GLVGHPRFLH PTTANKTNLE VAKVFTIIDP RVPLPEAVNV QFDSGDISRV  1080
LVSSPWMPPV CGFCKEVGHI TKRCPRAPKS CSYCNSLAHV SSKCPQKPKQ EPPKKKTRRG  1140
RSKDKQQWRV VDPPTAVEKQ ANPFQVITDE KQMQIVPPHD SKLGTHADKE RGETSGSASY  1200
LNAERPRSGS GNSKSSHSDV QPDSSDIESS DSELEEGEFS HLEPDFEVVR NKKKFSDIFP  1260
GWLSEDNYGF SPLGKIWIIW HPSLVVSIIY KSLQMITVEV TWPSAPISTV ISVIYAANDA  1320
AVRSTLWSEL KALAASYSLD SKPWLVIGDF NQIRDPIEHS KLPTLNMNKK IRDFNQCLLD  1380
VSLEDLNYRG TTFTWWNKRK LSPLAKKLDR ALVNDEWYYM FPSSVAFFGS PDFSDHAVIT  1440
ISLDPAKERL KKPFRFYNFL IKNQDFLATV CISWFSFNIT GSAMYRVSKK LKLLKNVIRE  1500
LSRNNYSGIE KKTAQAHEKM LQAQTVMLSA PTTLNASIEI HAVQEWEELS AAEAGFFFQR  1560
SRINWISFGD GSTRLFHRYA ASRQALNHIH FLLSDTGVRI ESQAGIQDLC VNYFADLLGS  1620
TVSPPMFIQA DLDLLFNFKC SPDQVAGFEK EFSADEIKDA FFSLPKNKTG GPDGYSTEFF  1680
TATWSVIGPE VTEAILEFFK SGCLLKQWNT ANLVLVPKKP NASLTTDFRP ISCLNTVYKV  1740
IAKLLASRLK AILPQMVSKS QSAFLPGRLL AENVLLATDL VKGYNTQSLS PRGMLKVDLR  1800
KAFDSVRWDF ILASLRALAV PDSYIRLISE CLSTASFSIS VNGVTGGFFK STKGIRQGDP  1860
LSPYLFVLAM ECLSRLLLSR YDAGTIGYHP GTEQLKISHL MFADDVMVFF DGSANSLHGI  1920
AECLDDFASW SGLHMNTSKT ELFISGLDQS ESTAIANYGF TSGKLPIRYL GLPLMSRKLK  1980
ISEYSPLMAK ITMSFQSWSA KLLSFAGRVQ LLKTVIFGTV NFWCSTFILP KGCIKDIESL  2040
CSRFLWSGNI EKKVIAKVAW STVCLPKDEG GLGLSSFIIW NQVLCLKFIW LLLSKSPSLW  2100
VDWHWSVHLE DKSFWIIEAS SNDSWAWKKL LDLRPLALQF CKMQIGNGIS TSFWHDNWTP  2160
MGQLSTFLGP AGPRVLRIRE NATVADAITG SSWILPHPRS HQEVELHIYL TTLTLPLVPD  2220
TEDVFEWVAG DSPLRVFRSS LTWEVLRPRQ EKKDWADIIW FKGAVPKHSF TMWVTNYDRL  2280
PTRSRLAGWG MMVSPTCAFC SRYDETRDHL MLTCEYSQNV WMEVMRRCRS PSTLLINWSE  2340
LLSWIKSSHS MKLTLLRKLA VQTTIFHLWK QRNNLMHNQT SLSPGTVFHC IDKDMRNIIS  2400
ARRTRKHFNK LMVLWMC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1oqy_A2e-25524653232363UV excision repair protein RAD23 homolog A
1qze_A2e-25524653232363UV excision repair protein RAD23 homolog A
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1675695RRRILNDLSAPSPSKQMKKKK
211371145RRGRSKDKQ
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_04342.1_g00002.1
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY2088770.0AY208877.1 Brassica napus seed specific protein Bn15D17A mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013689051.10.0uncharacterized protein LOC106392819
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM229
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G02550.11e-111LOB domain-containing protein 41