PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Cynodonteae; Tripogoninae; Oropetium

Family

C2H2

Protein Properties

Length: 351aa MW: 38539.8 Da PI: 9.0406

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Oropetium_20150105_17748A	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	19.3	3e-06	27	49	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++Cgk F r nL+ H r H Oropetium_20150105_17748A 27 FVCEICGKGFQRDQNLQLHRRGH 49 89*******************88 PP
2	zf-C2H2	12.7	0.00038	103	125	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ Oropetium_20150105_17748A 103 WKCDKCSKKYAVQSDWKAHSKTC 125 58*****************9998 PP
3	zf-C2H2	11.9	0.00069	133	151	5	23
TTTEEESSHHHHHHHHHHT CS zf-C2H2 5 dCgksFsrksnLkrHirtH 23 dCg++Fsr++++ +H + Oropetium_20150105_17748A 133 DCGTVFSRRDSFITHRAFC 151 8**************8765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.23E-7	26	49	No hit	No description
Gene3D	G3DSA:3.30.160.60	9.1E-6	27	49	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.012	27	49	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.614	27	49	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	29	49	IPR007087	Zinc finger, C2H2
SMART	SM00355	260	68	98	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	3.2E-4	91	124	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.23E-7	98	123	No hit	No description
SMART	SM00355	150	103	123	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: 351 aa Download sequence Send to blast
MIQINQADPD AEVIALSPRT LLATNRFVCE ICGKGFQRDQ NLQLHRRGHN LPWKLRQRSG 60 KEPRKRVYVC PEKTCVHHNP TRALGDLTGI KKHFCRKHGE KKWKCDKCSK KYAVQSDWKA 120 HSKTCGTREY RCDCGTVFSR RDSFITHRAF CDALANETAR HNLSNNDNHH HPPPSSSSTT 180 SSPTPTPTPT PTHCTYXXXX XXXXXXXTGM GMGWLSKEAQ APSLLSSQHQ HANSAADMSA 240 TALLQKAAQI GAVASGGGIC FDEATAEKHQ SAAAGKLDGG LVFGGGSRLQ QNATACSGLA 300 NVPFDDVXXX XXXXXXXXXX XXXXXXXXXX XXXXXXXXXA LCSSSLHGWI *

Sequence ? help Back to Top

Protein Sequence Length: 351 aa Download sequence Send to blast

MIQINQADPD AEVIALSPRT LLATNRFVCE ICGKGFQRDQ NLQLHRRGHN LPWKLRQRSG  60
KEPRKRVYVC PEKTCVHHNP TRALGDLTGI KKHFCRKHGE KKWKCDKCSK KYAVQSDWKA  120
HSKTCGTREY RCDCGTVFSR RDSFITHRAF CDALANETAR HNLSNNDNHH HPPPSSSSTT  180
SSPTPTPTPT PTHCTYXXXX XXXXXXXTGM GMGWLSKEAQ APSLLSSQHQ HANSAADMSA  240
TALLQKAAQI GAVASGGGIC FDEATAEKHQ SAAAGKLDGG LVFGGGSRLQ QNATACSGLA  300
NVPFDDVXXX XXXXXXXXXX XXXXXXXXXX XXXXXXXXXA LCSSSLHGWI *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	5e-35	99	167	3	72	Zinc finger protein JACKDAW
5b3h_F	5e-35	99	167	3	72	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that binds to the DNA sequence 5'-CTTTTGTCC-3' (PubMed:21265895, PubMed:25929516). Regulates photoperiodic flowering by modulating sugar transport and metabolism (PubMed:21265895, PubMed:25929516). Regulates SUS1 and SUS4 (PubMed:21265895). Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:25829440). {ECO:0000269\|PubMed:21265895, ECO:0000269\|PubMed:25829440, ECO:0000269\|PubMed:25929516}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Oropetium_20150105_17748A

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by 'SHORT-ROOT' (SHR)(PubMed:16640459). Strongly down-regulated by sugar deprivation, but not regulated by day-length. {ECO:0000269\|PubMed:16640459}.

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	HG670306	1e-165	HG670306.1 Triticum aestivum chromosome 3B, genomic scaffold, cultivar Chinese Spring.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_008655812.1	1e-116	zinc finger protein NUTCRACKER
Swissprot	Q9FFH3	1e-105	IDD8_ARATH; Zinc finger protein NUTCRACKER
TrEMBL	A0A1D6FHC4	1e-114	A0A1D6FHC4_MAIZE; DNA binding protein, mRNA
TrEMBL	A0A3L6DLT5	1e-114	A0A3L6DLT5_MAIZE; Zinc finger protein NUTCRACKER
STRING	GRMZM2G151309_P01	1e-115	(Zea mays)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP202	38	320

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.1	1e-95	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Oropetium_20150105_17748A

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Long Y, et al. In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots. Nature, 2017. 548(7665): p. 97-102 [PMID:28746306]