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

Ciclev10018697m

Common Name

CICLE_v10018697mg

Organism

Citrus clementina

Taxonomic ID

85681

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

SBP

Protein Properties

Length: 989aa MW: 109658 Da PI: 6.482

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10018697m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	132.4	1.6e-41	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+++ Ciclev10018697m 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	9.2E-34	142	211	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	32.385	147	224	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	6.67E-39	148	229	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	8.6E-30	150	223	IPR004333	Transcription factor, SBP-box
Gene3D	G3DSA:1.25.40.20	5.3E-5	304	333	IPR020683	Ankyrin repeat-containing domain
SuperFamily	SSF48403	8.24E-6	761	873	IPR020683	Ankyrin repeat-containing domain
Gene3D	G3DSA:1.25.40.20	5.3E-5	762	872	IPR020683	Ankyrin repeat-containing domain
CDD	cd00204	2.69E-6	762	873	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0016021	Cellular Component	integral component of membrane
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 989 aa Download sequence Send to blast
METRFRGEAH HFYGMNSMDL RAVGKKTLEW DLNDWKWDGD LFIASKLNPA PNENIGRQFF 60 PLAVGNSSNS SSSCSDEVNL GIENGKREVE KKRRAVVVED HNSYEVAAGG LSLKLGGNGH 120 PLSEREMGNW AGSSGKKTKF GGGSSSRAVC QVEDCGADLS NAKDYHRRHK VCEMHSKASR 180 ALVGNVMQRF CQQCSRFHVL QEFDEGKRSC RRRLAGHNKR RRKTNPDAVA NGSSPNNDQT 240 SGYLLISLLR ILSNMHSSRS DQRTDQDLLS HLLRGLASPA GENGGRGISG LLQEHQDMLN 300 ERTSAGNSEV VQAFLANGQG CPTPFRQQLN ATVSEMPQQV SLPHDARGAE DQDGNVAQIK 360 MNNFDLNDVY IDSDDGTEDV ERSPVPANLG TSSIDCPSWV RQDSQQSSPP QTSGNSDSAS 420 AQSPSSSSDA QSRTDRIVFK LFGKEPNDFP LVLRAQILDW LSHSPSDMES YIRPGCVILT 480 IYLRQAEAAW EELCCDLTFS LSRLLDLSND SFWTSGWVYA RVQHQIAFIY NGQVVLDTSL 540 PPRSNNYSKI LSVKPIAVPA SERAQFFVKG INLGRSATRL LCAVEGKYMV QEATHELLDD 600 VDGFKELDEL QCVNFSCSIP AVTGRGFIEI EDHGFSSTFF PFIVAEEDVC SEIRMLESAL 660 EFNRTDADVE RFGKIDTKNQ AMDFIHEIGW LFHRSQSKSR LGHLDPNTDL FPLRRFKWLI 720 EFSMDHEWCA VVKKLLHILL DGTVSLGEHP SLDLALTELG LLHRAVRKNS RPLVDLLLRF 780 VPLEVSDRLG SENKALVDGV HKGFLFRPDV IGPAGLTPIH IAAGKDGSED VLDALTDDPG 840 MVGIEAWKNA RDSSGSTPED YARLRGHYSY IHLVQKKINK RPNGGHVVVD ICGVVPDSNI 900 YQKQNNESTA SFEIGQTPVR PTQHNCKLCH QKLGYATASR SLVYKPAMLS MVAIAAVCVC 960 VALLFKSCPE VLYVFRPFRW EMLDYGTS*

Sequence ? help Back to Top

Protein Sequence Length: 989 aa Download sequence Send to blast

METRFRGEAH HFYGMNSMDL RAVGKKTLEW DLNDWKWDGD LFIASKLNPA PNENIGRQFF  60
PLAVGNSSNS SSSCSDEVNL GIENGKREVE KKRRAVVVED HNSYEVAAGG LSLKLGGNGH  120
PLSEREMGNW AGSSGKKTKF GGGSSSRAVC QVEDCGADLS NAKDYHRRHK VCEMHSKASR  180
ALVGNVMQRF CQQCSRFHVL QEFDEGKRSC RRRLAGHNKR RRKTNPDAVA NGSSPNNDQT  240
SGYLLISLLR ILSNMHSSRS DQRTDQDLLS HLLRGLASPA GENGGRGISG LLQEHQDMLN  300
ERTSAGNSEV VQAFLANGQG CPTPFRQQLN ATVSEMPQQV SLPHDARGAE DQDGNVAQIK  360
MNNFDLNDVY IDSDDGTEDV ERSPVPANLG TSSIDCPSWV RQDSQQSSPP QTSGNSDSAS  420
AQSPSSSSDA QSRTDRIVFK LFGKEPNDFP LVLRAQILDW LSHSPSDMES YIRPGCVILT  480
IYLRQAEAAW EELCCDLTFS LSRLLDLSND SFWTSGWVYA RVQHQIAFIY NGQVVLDTSL  540
PPRSNNYSKI LSVKPIAVPA SERAQFFVKG INLGRSATRL LCAVEGKYMV QEATHELLDD  600
VDGFKELDEL QCVNFSCSIP AVTGRGFIEI EDHGFSSTFF PFIVAEEDVC SEIRMLESAL  660
EFNRTDADVE RFGKIDTKNQ AMDFIHEIGW LFHRSQSKSR LGHLDPNTDL FPLRRFKWLI  720
EFSMDHEWCA VVKKLLHILL DGTVSLGEHP SLDLALTELG LLHRAVRKNS RPLVDLLLRF  780
VPLEVSDRLG SENKALVDGV HKGFLFRPDV IGPAGLTPIH IAAGKDGSED VLDALTDDPG  840
MVGIEAWKNA RDSSGSTPED YARLRGHYSY IHLVQKKINK RPNGGHVVVD ICGVVPDSNI  900
YQKQNNESTA SFEIGQTPVR PTQHNCKLCH QKLGYATASR SLVYKPAMLS MVAIAAVCVC  960
VALLFKSCPE VLYVFRPFRW EMLDYGTS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	2e-31	143	223	4	84	squamosa promoter binding protein-like 4
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during plant development. {ECO:0000269\|PubMed:10524240}.

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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00633	PBM	Transfer from PK06791.1	Download

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006444595.1	0.0	squamosa promoter-binding-like protein 1
Swissprot	Q9S7P5	0.0	SPL12_ARATH; Squamosa promoter-binding-like protein 12
TrEMBL	A0A067H4P9	0.0	A0A067H4P9_CITSI; Uncharacterized protein
TrEMBL	V4U1C3	0.0	V4U1C3_9ROSI; Squamosa promoter-binding protein 5
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	0.0	squamosa promoter binding protein-like 1

Link Out ? help Back to Top
Phytozome	Ciclev10018697m
Entrez Gene	18048503

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]