PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Protein Features |

3D Structure |

Gene Ontology |

Function |

Publication

Basic Information? help Back to Top

TF ID

Neem_9365_f_3

Organism

Azadirachta indica

Taxonomic ID

124943

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta

Family

BES1

Protein Properties

Length: 1435aa MW: 159332 Da PI: 8.781

Description

BES1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Neem_9365_f_3	genome	NGD	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF822	120.5	2.4e-37	1294	1379	3	88
DUF822 3 sgrkptwkErEnnkrRERrRRaiaakiyaGLRaqGnyklpkraDnneVlkALcreAGwvvedDGttyrkgskpleeaeaagssasa 88 + r p+++ErEnnk+RER+RRa++ i+ GLR++Gny lpk aDnn+ lkALc+eAGw ve+DGt y+k + + + + +s+s Neem_9365_f_3 1294 KYRFPSEQERENNKQRERKRRAVTKNIFVGLREHGNYMLPKYADNNDLLKALCEEAGWHVEEDGTIYKKKFMSELPSLISFHSESL 1379 6799****************************************************************988766444444444444 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00634	8.5E-5	74	101	IPR002093	BRCA2 repeat
Pfam	PF00634	1.3E-5	131	161	IPR002093	BRCA2 repeat
PROSITE profile	PS50138	9.044	233	267	IPR002093	BRCA2 repeat
Pfam	PF00634	2.5E-6	239	266	IPR002093	BRCA2 repeat
SuperFamily	SSF81872	2.35E-37	434	600	IPR015252	Breast cancer type 2 susceptibility protein, helical domain
Pfam	PF09169	2.9E-17	518	598	IPR015252	Breast cancer type 2 susceptibility protein, helical domain
Gene3D	G3DSA:2.40.50.140	3.5E-41	601	721	IPR012340	Nucleic acid-binding, OB-fold
SuperFamily	SSF50249	1.54E-36	601	721	IPR012340	Nucleic acid-binding, OB-fold
Pfam	PF09103	5.5E-38	602	721	IPR015187	BRCA2, oligonucleotide/oligosaccharide-binding 1
CDD	cd04493	1.28E-38	614	719	No hit	No description
SuperFamily	SSF50249	3.77E-24	726	755	IPR012340	Nucleic acid-binding, OB-fold
Gene3D	G3DSA:2.40.50.140	2.2E-14	727	754	IPR012340	Nucleic acid-binding, OB-fold
SMART	SM01341	6.2E-4	755	796	IPR015205	Tower domain
SuperFamily	SSF81878	2.16E-20	756	873	No hit	No description
Gene3D	G3DSA:2.40.50.140	2.2E-14	871	949	IPR012340	Nucleic acid-binding, OB-fold
SuperFamily	SSF50249	3.77E-24	873	954	IPR012340	Nucleic acid-binding, OB-fold
SuperFamily	SSF50249	1.42E-10	1001	1155	IPR012340	Nucleic acid-binding, OB-fold
Pfam	PF05687	1.2E-33	1294	1402	IPR008540	BES1/BZR1 plant transcription factor, N-terminal

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0000724	Biological Process	double-strand break repair via homologous recombination
GO:0005739	Cellular Component	mitochondrion

Sequence ? help Back to Top
Protein Sequence Length: 1435 aa Download sequence Send to blast
MASKDCARSK IDPIFSDAEN NLRWETSGRI ISPEAEAKDA PIQPHNSSSR LPSMSDLLLE 60 GYSKLRENGN EGSDNAPKFK TGSGKSVAVK QSSIAKALSV LNTDGNYDIS VTAFMHGTDE 120 EHPGENGCGF SNSLFQTGSG KIVNISSAGL VRAKTLLGLE EDDGQHNFQG LQHTRMPSTP 180 CLEVKEGVKV NVVENVTSVP RLSPIRKAGL AESRLKNERN SNTMQTEVLN LAPKQPWIKF 240 HTAGGRSLSV SSDALQYARN LLGDPELGTF FNEPETDTSD LSFFKHRNFD DSSSGKGNDV 300 FTSFCHQITE KNKTASKSFI SPLRSFSNPM RSRVNSENIN MSANLIKKFD AIDHDGLSGL 360 NGKMSSIQKL ISNTHGPKAI VDNSLEDGIG SRINSLGRSS GKPLADITNS TSRSCANVNQ 420 NTCEKKRLWR SSVSPFKRPR SSKFSTPLHK NPPFSNGLSA LASEQSGCQR KVFSRYPFQI 480 PRMYMKEYFG KPPLVEGMLD HLQDQVRWMK SHDADKYIFH DESGSNCIGA EALFDMLVQS 540 GLSTRYASQQ WVSNHYKWIV WKLACYERYY SAKSAGKFLT VLNVLEELKY RYEREVNNAH 600 RSAIKRILEG DASASSMMVL CISAIHSNCE AASNGTEMSG ASKLELTDGW YSVDAFLDVL 660 LSEHLAAGKL FVGQKLRIWG AGLCGWVGPV SPLEASGSVS LQLNINGTYR AHWADRLGFC 720 KVVGAPLAFR CIKSNGGPVP RTLVGITRIY PVLYKERLSD GRSIVRTERM EGKMMQLYQH 780 RQSVIVESIV SEFQRGNTDS HVLNDSESEG AKLFKLLETA AEPEVIMAEM SPEQLTSFTT 840 YQAKLEARRQ ANMEKSIEKA LEDAGLRGRD VTPFMRVRVV GLTGKDYHGK GSSKEGIITI 900 WNPTEKQRCK MVEGQAYTIT GLIPMNSDSN TIYLQARGSS TKWQPLSSQA IEHFKSGTIR 960 EGHFGNRSCW VLSTSSSFWS SGYSAPFQGR KRPFFSPRRS VLLSNLREVP LSSEFDIAAF 1020 VVHVGEVYMD SQQKRQWVFV TDGSMPQLQE EDLPKSLLAI SFSSPYIDDD SFLPINYNLV 1080 GSTVGFCNLI KRANDCINHL WVAEATENSA NFLNFDFPHC SHLKSAAASA QSWAKTSSLI 1140 FDKLKEKVLF IIGDHKENYK ALQFSNSIIV GNTVAALLSS SKVEVDLLEA GVLCTLKPTN 1200 VWDNMVSYSD SLQVEQVTKL VQEARMFRNP KNSDCLKLKA AANLSFFVFP RESKRRKGKM 1260 VEEKKKGVLG GCIRITRGPW KVHKTTKNGG VVSKYRFPSE QERENNKQRE RKRRAVTKNI 1320 FVGLREHGNY MLPKYADNND LLKALCEEAG WHVEEDGTIY KKKFMSELPS LISFHSESLE 1380 AIEDQFGDED YCTCKSHMAS DNAVSGSRIV SSLGDSQGGV NLTLSVSCPP PINLI

Sequence ? help Back to Top

Protein Sequence Length: 1435 aa Download sequence Send to blast

MASKDCARSK IDPIFSDAEN NLRWETSGRI ISPEAEAKDA PIQPHNSSSR LPSMSDLLLE  60
GYSKLRENGN EGSDNAPKFK TGSGKSVAVK QSSIAKALSV LNTDGNYDIS VTAFMHGTDE  120
EHPGENGCGF SNSLFQTGSG KIVNISSAGL VRAKTLLGLE EDDGQHNFQG LQHTRMPSTP  180
CLEVKEGVKV NVVENVTSVP RLSPIRKAGL AESRLKNERN SNTMQTEVLN LAPKQPWIKF  240
HTAGGRSLSV SSDALQYARN LLGDPELGTF FNEPETDTSD LSFFKHRNFD DSSSGKGNDV  300
FTSFCHQITE KNKTASKSFI SPLRSFSNPM RSRVNSENIN MSANLIKKFD AIDHDGLSGL  360
NGKMSSIQKL ISNTHGPKAI VDNSLEDGIG SRINSLGRSS GKPLADITNS TSRSCANVNQ  420
NTCEKKRLWR SSVSPFKRPR SSKFSTPLHK NPPFSNGLSA LASEQSGCQR KVFSRYPFQI  480
PRMYMKEYFG KPPLVEGMLD HLQDQVRWMK SHDADKYIFH DESGSNCIGA EALFDMLVQS  540
GLSTRYASQQ WVSNHYKWIV WKLACYERYY SAKSAGKFLT VLNVLEELKY RYEREVNNAH  600
RSAIKRILEG DASASSMMVL CISAIHSNCE AASNGTEMSG ASKLELTDGW YSVDAFLDVL  660
LSEHLAAGKL FVGQKLRIWG AGLCGWVGPV SPLEASGSVS LQLNINGTYR AHWADRLGFC  720
KVVGAPLAFR CIKSNGGPVP RTLVGITRIY PVLYKERLSD GRSIVRTERM EGKMMQLYQH  780
RQSVIVESIV SEFQRGNTDS HVLNDSESEG AKLFKLLETA AEPEVIMAEM SPEQLTSFTT  840
YQAKLEARRQ ANMEKSIEKA LEDAGLRGRD VTPFMRVRVV GLTGKDYHGK GSSKEGIITI  900
WNPTEKQRCK MVEGQAYTIT GLIPMNSDSN TIYLQARGSS TKWQPLSSQA IEHFKSGTIR  960
EGHFGNRSCW VLSTSSSFWS SGYSAPFQGR KRPFFSPRRS VLLSNLREVP LSSEFDIAAF  1020
VVHVGEVYMD SQQKRQWVFV TDGSMPQLQE EDLPKSLLAI SFSSPYIDDD SFLPINYNLV  1080
GSTVGFCNLI KRANDCINHL WVAEATENSA NFLNFDFPHC SHLKSAAASA QSWAKTSSLI  1140
FDKLKEKVLF IIGDHKENYK ALQFSNSIIV GNTVAALLSS SKVEVDLLEA GVLCTLKPTN  1200
VWDNMVSYSD SLQVEQVTKL VQEARMFRNP KNSDCLKLKA AANLSFFVFP RESKRRKGKM  1260
VEEKKKGVLG GCIRITRGPW KVHKTTKNGG VVSKYRFPSE QERENNKQRE RKRRAVTKNI  1320
FVGLREHGNY MLPKYADNND LLKALCEEAG WHVEEDGTIY KKKFMSELPS LISFHSESLE  1380
AIEDQFGDED YCTCKSHMAS DNAVSGSRIV SSLGDSQGGV NLTLSVSCPP PINLI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1miu_A	2e-59	485	951	108	587	Breast Cancer type 2 susceptibility protein
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in double-strand break repair and/or homologous recombination by mediating RAD51- and DMC1-facilitated DNA repair. Plays an essential role in both somatic and meiotic homologous recombination. Is crucial for the formation of RAD51 and DMC1 foci during male meiotic homologous recombination in prophase I. {ECO:0000269\|PubMed:15014444, ECO:0000269\|PubMed:22039535, ECO:0000269\|PubMed:22077663}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006429488.1	0.0	protein BREAST CANCER SUSCEPTIBILITY 2 homolog B
Swissprot	Q7Y1C4	0.0	BRC2B_ARATH; Protein BREAST CANCER SUSCEPTIBILITY 2 homolog B
TrEMBL	A0A067F7B4	0.0	A0A067F7B4_CITSI; Uncharacterized protein
STRING	XP_006429488.1	0.0	(Citrus clementina)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36780.1	3e-16	BES1/BZR1 homolog 2

Publications ? help Back to Top
Siaud N, et al. Brca2 is involved in meiosis in Arabidopsis thaliana as suggested by its interaction with Dmc1. EMBO J., 2004. 23(6): p. 1392-401 [PMID:15014444] Ohkama-Ohtsu N,Kasajima I,Fujiwara T,Naito S Isolation and characterization of an Arabidopsis mutant that overaccumulates O-Acetyl-L-Ser. Plant Physiol., 2004. 136(2): p. 3209-22 [PMID:15466229] Dray E,Siaud N,Dubois E,Doutriaux MP Interaction between Arabidopsis Brca2 and its partners Rad51, Dmc1, and Dss1. Plant Physiol., 2006. 140(3): p. 1059-69 [PMID:16415210] Abe K, et al. Inefficient double-strand DNA break repair is associated with increased fasciation in Arabidopsis BRCA2 mutants. J. Exp. Bot., 2009. 60(9): p. 2751-61 [PMID:19457980] Wang S,Durrant WE,Song J,Spivey NW,Dong X Arabidopsis BRCA2 and RAD51 proteins are specifically involved in defense gene transcription during plant immune responses. Proc. Natl. Acad. Sci. U.S.A., 2010. 107(52): p. 22716-21 [PMID:21149701] Dumont M,Massot S,Doutriaux MP,Gratias A Characterization of Brca2-deficient plants excludes the role of NHEJ and SSA in the meiotic chromosomal defect phenotype. PLoS ONE, 2011. 6(10): p. e26696 [PMID:22039535] Seeliger K,Dukowic-Schulze S,Wurz-Wildersinn R,Pacher M,Puchta H BRCA2 is a mediator of RAD51- and DMC1-facilitated homologous recombination in Arabidopsis thaliana. New Phytol., 2012. 193(2): p. 364-75 [PMID:22077663]