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

PSME_00021188-RA

Organism

Pseudotsuga menziesii

Taxonomic ID

3357

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga

Family

Trihelix

Protein Properties

Length: 272aa MW: 30708.1 Da PI: 7.9572

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00021188-RA	genome	PRS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	30.2	1.2e-09	1	30	38	67
trihelix 38 mrergferspkqCkekwenlnkrykkikeg 67 m+e+gf+rs+kqCk+kw+nl +ry++ + PSME_00021188-RA 1 MKEKGFRRSSKQCKCKWKNLVNRYRQQQIP 30 89**********************987644 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF13837	7.3E-7	1	33	No hit	No description
Gene3D	G3DSA:1.10.150.20	3.6E-19	30	90	No hit	No description
SuperFamily	SSF47794	1.29E-9	38	91	IPR010995	DNA repair Rad51/transcription factor NusA, alpha-helical
SuperFamily	SSF52540	2.53E-28	90	270	IPR027417	P-loop containing nucleoside triphosphate hydrolase
CDD	cd01123	5.16E-63	90	270	No hit	No description
Pfam	PF08423	2.4E-64	90	270	IPR013632	DNA recombination and repair protein Rad51, C-terminal
Gene3D	G3DSA:3.40.50.300	3.4E-46	91	270	IPR027417	P-loop containing nucleoside triphosphate hydrolase
PROSITE profile	PS50162	17.333	96	239	IPR020588	DNA recombination and repair protein RecA-like, ATP-binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006281	Biological Process	DNA repair
GO:0003677	Molecular Function	DNA binding
GO:0005524	Molecular Function	ATP binding
GO:0008094	Molecular Function	DNA-dependent ATPase activity

Sequence ? help Back to Top
Protein Sequence Length: 272 aa Download sequence Send to blast
MKEKGFRRSS KQCKCKWKNL VNRYRQQQIP QEEENEEELQ HGPYPVEQLQ ACGISVVDIK 60 KLEDAEHCTV EAVAYYPKKE LVQIKGLSDA KLPLDQGGGE GKALYIDAEG TFRPQRLLQI 120 AERYEELFTF GFERLNSQTF NILRSYRFGL NGADVLENVA YARAYNTDHQ SRLLMEAASM 180 MAETRFALMI VDSATSLYRI EFVGRGELSA RQMHLAKFLR SLQKMADEFG VVVVVTNQVV 240 AQVDGSAMFA GPQLKPIGGN IIAHASTTRF GK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1n0w_A	9e-79	91	270	49	204	DNA repair protein RAD51 homolog 1
5np7_C	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5np7_D	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5np7_E	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5np7_F	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5np7_G	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_A	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_B	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_C	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_D	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_E	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_F	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_G	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_H	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_I	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_J	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_K	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_L	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_M	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
5nwl_N	8e-78	37	270	16	300	DNA repair protein RAD51 homolog 1
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Functional Description ? help Back to Top
Source	Description
UniProt	Binds to single and double-stranded DNA and exhibits DNA-dependent ATPase activity. Unwinds duplex DNA (By similarity). Component of the meiotic recombination pathway. Seems to play a role in mediating chromosome homology search, chromosome pairing and synapsis at early stages and probably chromosome crossing-over at later stages in meiosis. Probably is involved in the repair of meiotic double strand breaks (DBSs) and in homologous recombination. {ECO:0000250, ECO:0000269\|PubMed:10330467, ECO:0000269\|PubMed:12897254}.

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	BT118588	1e-170	BT118588.1 Picea glauca clone GQ04008_A03 mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012447907.1	1e-112	PREDICTED: DNA repair protein RAD51 homolog isoform X4
Swissprot	Q9XED7	9e-95	R51A2_MAIZE; DNA repair protein RAD51 homolog B
TrEMBL	A0A1U8JN72	1e-109	A0A1U8JN72_GOSHI; DNA repair protein RAD51 homolog isoform X3
STRING	Lus10039928	1e-110	(Linum usitatissimum)

Publications ? help Back to Top
Franklin AE, et al. Three-dimensional microscopy of the Rad51 recombination protein during meiotic prophase. Plant Cell, 1999. 11(5): p. 809-24 [PMID:10330467] Franklin AE,Golubovskaya IN,Bass HW,Cande WZ Improper chromosome synapsis is associated with elongated RAD51 structures in the maize desynaptic2 mutant. Chromosoma, 2003. 112(1): p. 17-25 [PMID:12811575] Pawlowski WP,Golubovskaya IN,Cande WZ Altered nuclear distribution of recombination protein RAD51 in maize mutants suggests the involvement of RAD51 in meiotic homology recognition. Plant Cell, 2003. 15(8): p. 1807-16 [PMID:12897254]