PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Rsa1.0_02878.1_g00005.1

Organism

Raphanus sativus

Taxonomic ID

3726

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: 1617aa MW: 182942 Da PI: 8.0324

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_02878.1_g00005.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	124	7.6e-39	1401	1502	1	101
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilkl 83 +C aCk+lrrkCa++C++ap+f ++q +++fa+vhk+FGasnv+kll+++p ++r+da+ ++ yeA+ar++dPvyG+v++il+l Rsa1.0_02878.1_g00005.1 1401 PCGACKFLRRKCASGCIFAPHFGSDQgAARFAAVHKVFGASNVSKLLHHIPVNRRHDAVVTISYEAQARLSDPVYGCVSTILAL 1484 7*********************9989**************************************************** PP DUF260 84 qqqleqlkaelallkeel 101 qqq+++l+ael+l++++l Rsa1.0_02878.1_g00005.1 1485 QQQVASLQAELSLVQSQL 1502 ************9985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF13961	4.0E-8	24	50	IPR025314	Domain of unknown function DUF4219
Pfam	PF14223	1.0E-26	57	197	No hit	No description
SuperFamily	SSF57756	3.35E-8	235	272	IPR001878	Zinc finger, CCHC-type
Gene3D	G3DSA:4.10.60.10	5.3E-5	252	271	IPR001878	Zinc finger, CCHC-type
Pfam	PF00098	2.0E-5	254	269	IPR001878	Zinc finger, CCHC-type
SMART	SM00343	9.8E-4	254	270	IPR001878	Zinc finger, CCHC-type
PROSITE profile	PS50158	10.296	255	270	IPR001878	Zinc finger, CCHC-type
Pfam	PF13976	1.5E-10	430	496	IPR025724	GAG-pre-integrase domain
PROSITE profile	PS50994	25.29	498	674	IPR001584	Integrase, catalytic core
Gene3D	G3DSA:3.30.420.10	1.7E-35	506	667	IPR012337	Ribonuclease H-like domain
SuperFamily	SSF53098	2.15E-42	513	683	IPR012337	Ribonuclease H-like domain
Pfam	PF00665	2.6E-25	514	627	IPR001584	Integrase, catalytic core
Pfam	PF07727	8.6E-103	878	1119	IPR013103	Reverse transcriptase, RNA-dependent DNA polymerase
SuperFamily	SSF56672	8.89E-32	879	1098	No hit	No description
SuperFamily	SSF56672	8.89E-32	1128	1310	No hit	No description
CDD	cd09272	1.27E-68	1204	1342	No hit	No description
PROSITE profile	PS50891	23.376	1400	1502	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.5E-38	1401	1499	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0015074	Biological Process	DNA integration
GO:0003676	Molecular Function	nucleic acid binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 1617 aa Download sequence Send to blast
MTDIVAAKPI TKEGGSSSIK CPLLTATNYT VWAMRMRILL RVHKVWEIVE TEAENDERND 60 MAMALILQSI PESLTLQVGE LSTAKKVWDA IRTRYVGAER VKEARLQTLM ADFDRLRMKE 120 TETIDDFSGK LSEISSKSSA LGEDIEEAKL VKKFLKCLPR RKYIHIVAAL EQVLDLKTTT 180 FEDIVGRLKV YEERVEDEEE AQEDQSKLMY ATAESQSNRG FNGENRGRGR GGRYLNRGRG 240 RGRYNTPRDI SKVTCYRCDR VGHYASDCPD RLLKLQETQE QTENVDTQEA DELMLHEIVY 300 LNEEKVVPAT FEADNKEDNI WYLDNGASNH MSGDQRYFSA IDESVTGKVR FGDDSRIDIK 360 GKGTIEFIDR NGEPRKILDV YFIPDLRSNI ISLGQATESG CDVRMKGEYL TMHDKDGKLI 420 AKAVRSKNRL YKVRMKVKDV MTLLTTTTSE SSRWHARLGH INPETMRSMV LRGLVVGIPK 480 MSIEKSVCGS CLMGKQARKS FPQATSYRAS TLLELVHGDL CGPLTPSTSA GNKYIFVLID 540 DCSRYMWTVL MKEKGEAFEK FKAFKSRVEA EAKMKIQTFR TDRGGEFTSR AFNAFCESEG 600 IKRHLTAPYS PQQNGVVERR NRTLMEMTRS CLKHMSVPNY LWGEGVRHST YLLNRVATRT 660 LNDRTPYEAY RGKKPNISHL RTFGCICYAK IDSKMLKKLD DRSRMLVHLG TEPGSKAYRL 720 FDPQSQKIIV SRDVIFDEAK GWNWKQSITE KNQVGSFKVI YGETGNHGLQ ETEQGGTEQQ 780 EDNKVPKEEI VVKEEDDTDS EEESVSTDNG DHQMLRRSQR QSTKPSYLDD YVLLAEFEGE 840 QLLLSLNSEP RNFEEAKELK EWILACEEEI RSITKLDSWT LVDLPHGVKP IGLKWIFKIK 900 RNADGSINKY KARLVAKGYV QQYGIDFEEV FAPVARIETI RLLINLAASN DWEVHHLDVK 960 TAFLHGELKE TVYVTQPEGF VVKGSENKVY KLKKALYGLK QAPRAWNHKL NTCLMELGFV 1020 RCMKEPSVYR RAVRENLLVI AVYVDDLFIT GTSLKMIKEF KEEMALRFEM SDLGRLSYYL 1080 GIEVNQHAEG ITLCQNRYAL RILEEAGMEH CNSVQIPMDA GLKLSKSEAE RDIDATAYRK 1140 IIGCFRYLLH TRPDLSYCIG VLSRYMANPK ESHGVAIKQC LRYLQGTTSF GLTFERSKER 1200 TKLVGYSDSS YNTDLDDGRS VTGHIFYLGD SPITWSSQKQ DTVALSSCEA EFMAGTEAAR 1260 QAIWLRDLLG EIFGKSYDRT VIKIDNQSAI ALSKNPVFHG RSKHIHSRYH FIRECVEREI 1320 IEVVHVPGSK QKADILTKAL GRLKYKEMRD LIGVQDLKDM KFKLKEETVE RVLIIFGSYT 1380 SVETIGAMAA TATTGTGTAS PCGACKFLRR KCASGCIFAP HFGSDQGAAR FAAVHKVFGA 1440 SNVSKLLHHI PVNRRHDAVV TISYEAQARL SDPVYGCVST ILALQQQVAS LQAELSLVQS 1500 QLINSRVAMA NVMQQQQQQS HHQQQQLVVM QQTEYSNNSS ASTTLAGSTM NSFTATAAAA 1560 VSYDVMVPAN LKHSLQPMPR HQQVTINHHE DDEQENGTDF SVAVGSTTVA AEGFHRI

Sequence ? help Back to Top

Protein Sequence Length: 1617 aa Download sequence Send to blast

MTDIVAAKPI TKEGGSSSIK CPLLTATNYT VWAMRMRILL RVHKVWEIVE TEAENDERND  60
MAMALILQSI PESLTLQVGE LSTAKKVWDA IRTRYVGAER VKEARLQTLM ADFDRLRMKE  120
TETIDDFSGK LSEISSKSSA LGEDIEEAKL VKKFLKCLPR RKYIHIVAAL EQVLDLKTTT  180
FEDIVGRLKV YEERVEDEEE AQEDQSKLMY ATAESQSNRG FNGENRGRGR GGRYLNRGRG  240
RGRYNTPRDI SKVTCYRCDR VGHYASDCPD RLLKLQETQE QTENVDTQEA DELMLHEIVY  300
LNEEKVVPAT FEADNKEDNI WYLDNGASNH MSGDQRYFSA IDESVTGKVR FGDDSRIDIK  360
GKGTIEFIDR NGEPRKILDV YFIPDLRSNI ISLGQATESG CDVRMKGEYL TMHDKDGKLI  420
AKAVRSKNRL YKVRMKVKDV MTLLTTTTSE SSRWHARLGH INPETMRSMV LRGLVVGIPK  480
MSIEKSVCGS CLMGKQARKS FPQATSYRAS TLLELVHGDL CGPLTPSTSA GNKYIFVLID  540
DCSRYMWTVL MKEKGEAFEK FKAFKSRVEA EAKMKIQTFR TDRGGEFTSR AFNAFCESEG  600
IKRHLTAPYS PQQNGVVERR NRTLMEMTRS CLKHMSVPNY LWGEGVRHST YLLNRVATRT  660
LNDRTPYEAY RGKKPNISHL RTFGCICYAK IDSKMLKKLD DRSRMLVHLG TEPGSKAYRL  720
FDPQSQKIIV SRDVIFDEAK GWNWKQSITE KNQVGSFKVI YGETGNHGLQ ETEQGGTEQQ  780
EDNKVPKEEI VVKEEDDTDS EEESVSTDNG DHQMLRRSQR QSTKPSYLDD YVLLAEFEGE  840
QLLLSLNSEP RNFEEAKELK EWILACEEEI RSITKLDSWT LVDLPHGVKP IGLKWIFKIK  900
RNADGSINKY KARLVAKGYV QQYGIDFEEV FAPVARIETI RLLINLAASN DWEVHHLDVK  960
TAFLHGELKE TVYVTQPEGF VVKGSENKVY KLKKALYGLK QAPRAWNHKL NTCLMELGFV  1020
RCMKEPSVYR RAVRENLLVI AVYVDDLFIT GTSLKMIKEF KEEMALRFEM SDLGRLSYYL  1080
GIEVNQHAEG ITLCQNRYAL RILEEAGMEH CNSVQIPMDA GLKLSKSEAE RDIDATAYRK  1140
IIGCFRYLLH TRPDLSYCIG VLSRYMANPK ESHGVAIKQC LRYLQGTTSF GLTFERSKER  1200
TKLVGYSDSS YNTDLDDGRS VTGHIFYLGD SPITWSSQKQ DTVALSSCEA EFMAGTEAAR  1260
QAIWLRDLLG EIFGKSYDRT VIKIDNQSAI ALSKNPVFHG RSKHIHSRYH FIRECVEREI  1320
IEVVHVPGSK QKADILTKAL GRLKYKEMRD LIGVQDLKDM KFKLKEETVE RVLIIFGSYT  1380
SVETIGAMAA TATTGTGTAS PCGACKFLRR KCASGCIFAP HFGSDQGAAR FAAVHKVFGA  1440
SNVSKLLHHI PVNRRHDAVV TISYEAQARL SDPVYGCVST ILALQQQVAS LQAELSLVQS  1500
QLINSRVAMA NVMQQQQQQS HHQQQQLVVM QQTEYSNNSS ASTTLAGSTM NSFTATAAAA  1560
VSYDVMVPAN LKHSLQPMPR HQQVTINHHE DDEQENGTDF SVAVGSTTVA AEGFHRI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	7e-37	1392	1503	2	112	LOB family transfactor Ramosa2.1
5ly0_B	7e-37	1392	1503	2	112	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_02878.1_g00005.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB473854	0.0	AB473854.1 Arabidopsis thaliana ASL21 mRNA for ASYMMETRIC LEAVES2-like 21 protein, complete cds.
GenBank	AK118291	0.0	AK118291.1 Arabidopsis thaliana At3g03760 mRNA for unknown protein, complete cds, clone: RAFL19-58-F13.
GenBank	BT008589	0.0	BT008589.1 Arabidopsis thaliana clone U50874 unknown protein (At3g03760) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
TrEMBL	A0A0D3B353	0.0	A0A0D3B353_BRAOL; Uncharacterized protein
STRING	Bo3g019830.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1	2	6

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G03760.1	3e-94	LOB domain-containing protein 20