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

Pavir.5KG097300.1.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

Protein Properties

Length: 211aa MW: 23677.3 Da PI: 10.7986

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.5KG097300.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	99.4	2.2e-31	37	137	1	92
EEEE-..-HHHHTT-EE--HHH.HTT........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 f+k+ tpsdv+k++rlv+pk++ae++ + + +++ l +ed +g++W+++++y+++s++yvltkGW++Fv+++gL++gD++vF Pavir.5KG097300.1.p 37 FEKAVTPSDVGKLNRLVVPKQHAEKNfplkrsppEAATGKGVLLNFEDGEGKVWRFRYSYWNSSQSYVLTKGWSRFVREKGLRAGDTIVF 126 89*************************988876666799*********************************************** PP EE-SS.SEE.. CS B3 83 kldgr.sefel 92 +++ e++l Pavir.5KG097300.1.p 127 SHSTYgPEKQL 137 *8765455544 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	8.6E-39	35	147	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	3.79E-30	35	143	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	8.15E-29	36	129	No hit	No description
Pfam	PF02362	3.3E-28	37	130	IPR003340	B3 DNA binding domain
SMART	SM01019	1.1E-22	37	144	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.987	37	145	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 211 aa Download sequence Send to blast
MLRKHTYADE LRQGLRRGRG MGARAQPTPA WARALLFEKA VTPSDVGKLN RLVVPKQHAE 60 KNFPLKRSPP EAATGKGVLL NFEDGEGKVW RFRYSYWNSS QSYVLTKGWS RFVREKGLRA 120 GDTIVFSHST YGPEKQLFID CKKTNKTAEK PKEAAARVVR LFGVDIAGDG CQKRARPPVE 180 MAFEQGHQEL FLKKQCVAHH RSPALGAFLL *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wid_A	3e-49	36	142	13	115	DNA-binding protein RAV1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.5KG097300.1.p

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	FP095812	1e-150	FP095812.1 Phyllostachys edulis cDNA clone: bphyem125h21, full insert sequence.
GenBank	FP096835	1e-150	FP096835.1 Phyllostachys edulis cDNA clone: bphyem207b07, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025814327.1	1e-129	AP2/ERF and B3 domain-containing protein Os01g0141000-like
Swissprot	Q9AWS0	1e-108	Y1410_ORYSJ; AP2/ERF and B3 domain-containing protein Os01g0141000
TrEMBL	A0A2S3HXM7	1e-128	A0A2S3HXM7_9POAL; Uncharacterized protein
STRING	Pavir.J23476.1.p	1e-155	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP456	38	203

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G68840.2	2e-59	related to ABI3/VP1 2

Link Out ? help Back to Top
Phytozome	Pavir.5KG097300.1.p

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]