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_4573_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: 373aa MW: 41521.2 Da PI: 9.4048

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Neem_4573_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	129.9	9.1e-41	164	241	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +CqvegC++ l +akeyhrrhkvCe+hskap+v+v gleqrfCqqCsrfh +sefD++krsCrrrLa+hnerrrk+++ Neem_4573_f_1 164 RCQVEGCHVALINAKEYHRRHKVCEMHSKAPKVVVLGLEQRFCQQCSRFHVVSEFDDSKRSCRRRLAGHNERRRKSSH 241 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	2.5E-34	159	226	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.368	162	239	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.44E-38	163	244	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	9.7E-32	165	238	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0048510	Biological Process	regulation of timing of transition from vegetative to reproductive phase
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 373 aa Download sequence Send to blast
MENGGNMFIS ILGNDDRGQS STNNNNHAWE NMWTFNHSRF DFGNSSSLYT TATTAEGETT 60 HITHSDANTS HALLFPHSLH HRHHHKHHSQ SLYAGDGSNL HPDPHLMCLK LGKRHYFEDA 120 TALADGQVAG FSIVKKGKHY YSFGDGVGPS SSPVLVSSTA AVPRCQVEGC HVALINAKEY 180 HRRHKVCEMH SKAPKVVVLG LEQRFCQQCS RFHVVSEFDD SKRSCRRRLA GHNERRRKSS 240 HDSLSRNSSQ GNKLMSGSFR SPTGRALSLL SSKAAADSWV SSPDLSSRCS AALRELIAEN 300 RAAILARHLI LDRDLHLHHV AEDPHQTAGP SSLTNNQQQT LHEQQRWGGY QETSTHFLSL 360 LQSKKYAKSS VIK

Sequence ? help Back to Top

Protein Sequence Length: 373 aa Download sequence Send to blast

MENGGNMFIS ILGNDDRGQS STNNNNHAWE NMWTFNHSRF DFGNSSSLYT TATTAEGETT  60
HITHSDANTS HALLFPHSLH HRHHHKHHSQ SLYAGDGSNL HPDPHLMCLK LGKRHYFEDA  120
TALADGQVAG FSIVKKGKHY YSFGDGVGPS SSPVLVSSTA AVPRCQVEGC HVALINAKEY  180
HRRHKVCEMH SKAPKVVVLG LEQRFCQQCS RFHVVSEFDD SKRSCRRRLA GHNERRRKSS  240
HDSLSRNSSQ GNKLMSGSFR SPTGRALSLL SSKAAADSWV SSPDLSSRCS AALRELIAEN  300
RAAILARHLI LDRDLHLHHV AEDPHQTAGP SSLTNNQQQT LHEQQRWGGY QETSTHFLSL  360
LQSKKYAKSS VIK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	4e-30	157	238	3	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' (By similarity). May be involved in panicle development. {ECO:0000250}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00161	DAP	Transfer from AT1G27360	Download

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KJ622332	2e-35	KJ622332.1 Gossypium hirsutum SQUAMOSA promoter binding-like transcription factor (SPL24) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006445345.1	1e-145	squamosa promoter-binding-like protein 7
Refseq	XP_006464841.1	1e-145	squamosa promoter-binding-like protein 7 isoform X1
Swissprot	Q7XT42	3e-57	SPL7_ORYSJ; Squamosa promoter-binding-like protein 7
TrEMBL	V4U3D1	1e-143	V4U3D1_9ROSI; Squamosa promoter-binding protein 6
STRING	XP_006464841.1	1e-144	(Citrus sinensis)
STRING	XP_006445345.1	1e-144	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM15613	9	14

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G27370.4	2e-37	squamosa promoter binding protein-like 10

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]