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

MLOC_58346.2

Organism

Hordeum vulgare

Taxonomic ID

4513

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Hordeinae; Hordeum

Family

C2H2

Protein Properties

Length: 546aa MW: 56018.3 Da PI: 9.557

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MLOC_58346.2	genome	IBSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.8	4.3e-06	66	88	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ Cgk F r nL+ H r H MLOC_58346.2 66 FVCEVCGKGFQREQNLQLHRRGH 88 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.66E-7	65	88	No hit	No description
SMART	SM00355	0.0027	66	88	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.759	66	88	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	9.9E-6	66	88	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	68	88	IPR007087	Zinc finger, C2H2
SMART	SM00355	310	107	137	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.4E-4	130	163	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.66E-7	137	162	No hit	No description
SMART	SM00355	210	142	162	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: 546 aa Download sequence Send to blast
MAAASSAPFF GLSDTQMQPL MPAQQQPAPA AAAPAPKKKR NQPGNPNPDA EVIALSPRSL 60 MATNRFVCEV CGKGFQREQN LQLHRRGHNL PWKLKQKNPK ETRRRVYLCP EPTCVHHDPA 120 RALGDLTGIK KHYCRKHGEK KWKCDKCAKR YAVQSDWKAH SKTCGTREYR CDCGTLFSRR 180 DSFITHRAFC DALAQESARL PPIGAGMYGG PGNMGLGNLS GMAQMPGGFP DQSGHHSSAS 240 AIDVLNLGGG GANAGQFEHL MSSSSGSSMF RSQAATSSPF YMGGGAAQEF AEDDVHRSHG 300 NQGSLLQGKS PAAFHGLMQL PDQHQGGGGG NGNNNLLNLG FFSGNGNGGG QDSRLVFQNQ 360 YNGSAGNGNS SNGNGENGGM VASGSVLGGG GGGFPSMYSS SEPGAGLPQM SATALLQKAA 420 QMGATTSSHN AGAGSAGLLR GPGMRGGSGE GGSALAAAAA ANERQSFHDL IMNSLGSGSG 480 ASATTGGRAG PFGSGGGFPV DDGKLSTRDF LGVGPGGVVQ AGMGPPRRHS GGAGLHMGSL 540 DPAELK

Sequence ? help Back to Top

Protein Sequence Length: 546 aa Download sequence Send to blast

MAAASSAPFF GLSDTQMQPL MPAQQQPAPA AAAPAPKKKR NQPGNPNPDA EVIALSPRSL  60
MATNRFVCEV CGKGFQREQN LQLHRRGHNL PWKLKQKNPK ETRRRVYLCP EPTCVHHDPA  120
RALGDLTGIK KHYCRKHGEK KWKCDKCAKR YAVQSDWKAH SKTCGTREYR CDCGTLFSRR  180
DSFITHRAFC DALAQESARL PPIGAGMYGG PGNMGLGNLS GMAQMPGGFP DQSGHHSSAS  240
AIDVLNLGGG GANAGQFEHL MSSSSGSSMF RSQAATSSPF YMGGGAAQEF AEDDVHRSHG  300
NQGSLLQGKS PAAFHGLMQL PDQHQGGGGG NGNNNLLNLG FFSGNGNGGG QDSRLVFQNQ  360
YNGSAGNGNS SNGNGENGGM VASGSVLGGG GGGFPSMYSS SEPGAGLPQM SATALLQKAA  420
QMGATTSSHN AGAGSAGLLR GPGMRGGSGE GGSALAAAAA ANERQSFHDL IMNSLGSGSG  480
ASATTGGRAG PFGSGGGFPV DDGKLSTRDF LGVGPGGVVQ AGMGPPRRHS GGAGLHMGSL  540
DPAELK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-34	138	200	3	65	Zinc finger protein JACKDAW
5b3h_F	1e-34	138	200	3	65	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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:24821766, ECO:0000305\|PubMed:19726569}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	MLOC_58346.2

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000305\|PubMed:17933900}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK354562	0.0	AK354562.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv1008H21.
GenBank	AK357401	0.0	AK357401.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv1052H09.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020188927.1	0.0	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_020188928.1	0.0	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_020188929.1	0.0	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_020188931.1	0.0	protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q8GYC1	1e-118	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	F2CSG0	0.0	F2CSG0_HORVV; Predicted protein
STRING	MLOC_58346.3	0.0	(Hordeum vulgare)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14580.2	1e-111	C2H2-like zinc finger protein

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]