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

Cc02_g07490

Common Name

GSCOC_T00029932001

Organism

Coffea canephora

Taxonomic ID

49390

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea

Family

LBD

Protein Properties

Length: 220aa MW: 24500.6 Da PI: 4.0256

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cc02_g07490	genome	CGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	118.4	4.1e-37	7	107	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelall 97 +C aCk+lrr+C+ +Cv+apyf eq +++f++vh++FGasnv+kll +lp ++r +a+ ++ yeA ar++dP+yG+v++i++l+qq+++lk+e++++ Cc02_g07490 7 SCGACKFLRRRCTIECVFAPYFGYEQaASHFEAVHRVFGASNVSKLLLNLPVQNRAEAAITISYEALARMQDPIYGCVAHIFALEQQVACLKEEIEMI 104 6*********************9978*****************************************************************998 PP DUF260 98 kee 100 +++ Cc02_g07490 105 ETQ 107 876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	22.139	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.4E-35	7	105	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 220 aa Download sequence Send to blast
MTGMGSSCGA CKFLRRRCTI ECVFAPYFGY EQAASHFEAV HRVFGASNVS KLLLNLPVQN 60 RAEAAITISY EALARMQDPI YGCVAHIFAL EQQVACLKEE IEMIETQMAS LAVDVTSSCE 120 SYNVADYSNP EIAFGCDQYM NLANFINQQQ MELDPITYTE VKACDDSQMM VQFPPGNGWE 180 DAISQLSSSN SNLSEPLFQE FTQSIYEQCL WPEYCSTLN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-31	3	108	7	111	LOB family transfactor Ramosa2.1
5ly0_B	1e-31	3	108	7	111	LOB family transfactor Ramosa2.1
Search in ModeBase

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {ECO:0000269\|PubMed:17259263}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_027101347.1	1e-164	LOB domain-containing protein 33-like
Refseq	XP_027109622.1	1e-164	LOB domain-containing protein 33-like
Swissprot	Q9LHS8	5e-54	LBD33_ARATH; LOB domain-containing protein 33
TrEMBL	A0A068TXQ6	1e-163	A0A068TXQ6_COFCA; Uncharacterized protein
STRING	POPTR_0010s20800.1	2e-74	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA12769	15	21

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G06080.1	2e-56	LOB domain-containing protein 33

Publications ? help Back to Top
Bargmann BO,Birnbaum KD,Brenner ED An undergraduate study of two transcription factors that promote lateral root formation. Biochem Mol Biol Educ, 2014 May-Jun. 42(3): p. 237-45 [PMID:24615800]