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

Thecc1EG011145t5

Common Name

TCM_011145

Organism

Theobroma cacao

Taxonomic ID

3641

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma

Family

C2H2

Protein Properties

Length: 595aa MW: 63564.5 Da PI: 9.4425

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG011145t5	genome	CGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.2	3.1e-05	71	93	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Thecc1EG011145t5 71 FICEVCNKGFQREQNLQLHRRGH 93 89*******************88 PP
2	zf-C2H2	13.1	0.00029	147	169	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Thecc1EG011145t5 147 WKCEKCSKRYAVQSDWKAHSKTC 169 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	6.6E-6	70	93	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.84E-7	70	93	No hit	No description
PROSITE profile	PS50157	10.99	71	93	IPR007087	Zinc finger, C2H2
Pfam	PF12171	2.9E-5	71	93	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	71	93	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	73	93	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	112	142	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.2E-5	135	168	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.84E-7	142	167	No hit	No description
SMART	SM00355	130	147	167	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 595 aa Download sequence Send to blast
MAAASSSTPF FGTREENQTQ MIQQQSSSTP TSSTAPTTAP QKKKRNQPGT PNPDAEVIAL 60 SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLR QKTTKEVKRK VYLCPEPTCV 120 HHDPSRALGD LTGIKKHYSR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG TREYRCDCGT 180 LFSRRDSFIT HRAFCDALAQ ESARHPTNLS TMGSHLFGSN HMSLGLSQVG SQIPSLQDQN 240 QPPSNMLRLG SAGAAKFEHL IPPSNPSPLQ NMPTSAFFMP DANQGFHHQD HQSHHGHGPF 300 LNKPLHGLMQ LPDLQGNTNN TPASTNLFNL GFFPNNSAAS SISTSENASA STANLPNSGF 360 LSPNQFNSGN GGGGGQGTAM FSTNMGDQVG SGLSSLYSTS MQHENISPHM SATALLQKAA 420 QMGSTTSNNT SSLLRGLGSS SASGSKSDRP VLSANFGSNY GGGGGETLRS QMENDSNLQG 480 LMNSLANGNS SIFGAGHGQD SNFGGFSGSG MTLDQQSNNA NFCNVNEAKL HQNLAASIGG 540 TDKLTLDFLG VGGMVRNMGG GFSQREQHGI NISSLDPEVK SAQANQQFGS AKLL*

Sequence ? help Back to Top

Protein Sequence Length: 595 aa Download sequence Send to blast

MAAASSSTPF FGTREENQTQ MIQQQSSSTP TSSTAPTTAP QKKKRNQPGT PNPDAEVIAL  60
SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLR QKTTKEVKRK VYLCPEPTCV  120
HHDPSRALGD LTGIKKHYSR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG TREYRCDCGT  180
LFSRRDSFIT HRAFCDALAQ ESARHPTNLS TMGSHLFGSN HMSLGLSQVG SQIPSLQDQN  240
QPPSNMLRLG SAGAAKFEHL IPPSNPSPLQ NMPTSAFFMP DANQGFHHQD HQSHHGHGPF  300
LNKPLHGLMQ LPDLQGNTNN TPASTNLFNL GFFPNNSAAS SISTSENASA STANLPNSGF  360
LSPNQFNSGN GGGGGQGTAM FSTNMGDQVG SGLSSLYSTS MQHENISPHM SATALLQKAA  420
QMGSTTSNNT SSLLRGLGSS SASGSKSDRP VLSANFGSNY GGGGGETLRS QMENDSNLQG  480
LMNSLANGNS SIFGAGHGQD SNFGGFSGSG MTLDQQSNNA NFCNVNEAKL HQNLAASIGG  540
TDKLTLDFLG VGGMVRNMGG GFSQREQHGI NISSLDPEVK SAQANQQFGS AKLL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-34	143	204	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-34	143	204	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269\|PubMed:22898356, ECO:0000269\|PubMed:24821766}.

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	AC208494	1e-141	AC208494.1 Populus trichocarpa clone JGIACSB265-L05, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007045367.2	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic isoform X1
Refseq	XP_007045368.2	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic isoform X1
Refseq	XP_007045369.2	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic isoform X1
Refseq	XP_007045370.2	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic isoform X1
Swissprot	Q9ZUL3	1e-144	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A061EG08	0.0	A0A061EG08_THECC; Indeterminate(ID)-domain 5, putative isoform 2
STRING	EOY01198	0.0	(Theobroma cacao)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-134	indeterminate(ID)-domain 5

Link Out ? help Back to Top
Phytozome	Thecc1EG011145t5
Entrez Gene	18609936

Publications ? help Back to Top
Motamayor JC, et al. The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color. Genome Biol., 2013. 14(6): p. r53 [PMID:23731509] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]