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

Neem_29577_f_1

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

SBP

Protein Properties

Length: 335aa MW: 36920.5 Da PI: 9.2709

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Neem_29577_f_1	genome	NGD	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	134.6	3.2e-42	149	226	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +Cqve+C adls+ak+yhrrhkvCe+hska+ +lv +++qrfCqqCsrfh l+efDe+krsCrrrLa+hn+rrrk+++ Neem_29577_f_1 149 VCQVEDCGADLSNAKDYHRRHKVCEMHSKASRALVGNVMQRFCQQCSRFHVLQEFDEGKRSCRRRLAGHNKRRRKTNP 226 6**************************************************************************976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	3.9E-34	142	211	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.385	147	224	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.23E-39	148	229	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.8E-30	150	223	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 335 aa Download sequence Send to blast
METRFIGEAH HIYGMNSMDL RAVGKRTLEW DLNDWKWDGD LFIASPLNPV PNDNIGQKFF 60 PLGTGNSSNS SSSCSEEVNL GIEKGKKELE KKRRAIVVED HNSYEAAAGG LTLKLGGNGY 120 PLTEREMGNW AGTSGKKTKF GGGSSRRAVC QVEDCGADLS NAKDYHRRHK VCEMHSKASR 180 ALVGNVMQRF CQQCSRFHVL QEFDEGKRSC RRRLAGHNKR RRKTNPDAVG NGSSLNDDQT 240 SGYLLISILR ILSNMHSNRS DQRTDQDLLS HLLRSLANPA GENGGRGISG LLQEPQDMLT 300 DRTSVGNSEV VSAMLANGQG TPGPFRQPLT AMMKI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	7e-33	143	223	4	84	squamosa promoter binding protein-like 4
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000269\|PubMed:16554053}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AM473861	1e-50	AM473861.2 Vitis vinifera contig VV78X120549.12, whole genome shotgun sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024948833.1	0.0	LOW QUALITY PROTEIN: squamosa promoter-binding-like protein 1
Swissprot	Q9S7P5	2e-94	SPL12_ARATH; Squamosa promoter-binding-like protein 12
TrEMBL	A0A067H7A9	0.0	A0A067H7A9_CITSI; Uncharacterized protein
STRING	XP_006444595.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3030	27	64

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47070.1	1e-74	squamosa promoter binding protein-like 1

Publications ? help Back to Top
Jung S, et al. Synteny conservation between the Prunus genome and both the present and ancestral Arabidopsis genomes. BMC Genomics, 2006. 7: p. 81 [PMID:16615871] Jorgensen SA,Preston JC Differential SPL gene expression patterns reveal candidate genes underlying flowering time and architectural differences in Mimulus and Arabidopsis. Mol. Phylogenet. Evol., 2014. 73: p. 129-39 [PMID:24508602] Chao LM, et al. Arabidopsis Transcription Factors SPL1 and SPL12 Confer Plant Thermotolerance at Reproductive Stage. Mol Plant, 2017. 10(5): p. 735-748 [PMID:28400323]