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

Pbr012193.2

Organism

Pyrus bretschneideri

Taxonomic ID

225117

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Pyrus

Family

C2H2

Protein Properties

Length: 568aa MW: 61705.3 Da PI: 8.8347

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pbr012193.2	genome	CPETR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.2	2.9e-05	45	67	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Pbr012193.2 45 FICEVCNKGFQREQNLQLHRRGH 67 89*******************88 PP
2	zf-C2H2	12.5	0.00043	121	143	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ Pbr012193.2 121 WKCDKCSKRYAVQSDWKAHSKTC 143 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	6.3E-6	44	67	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	9.83E-8	44	67	No hit	No description
Pfam	PF12171	2.8E-5	45	67	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	45	67	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.99	45	67	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	47	67	IPR007087	Zinc finger, C2H2
SMART	SM00355	140	86	116	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	3.0E-5	109	142	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	9.83E-8	116	141	No hit	No description
SMART	SM00355	140	121	141	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: 568 aa Download sequence Send to blast
MLPPQPQAQP HHLRRKGEIN LEIQANPDAE VIALSPKTLM ATNRFICEVC NKGFQREQNL 60 QLHRRGHNLP WKLKQKTNKE PRRKVYLCPE PSCVHHDPSR ALGDLTGIKK HYSRKHGEKK 120 WKCDKCSKRY AVQSDWKAHS KTCGTREYRC DCGTLFSRRD SFITHRAFCD ALAQESARHP 180 SSLSTMGGNL YGNNHMSLGL PQIPSLQNST HLPNNMLRLG SGGSAKFEHL IPPSNPSSFG 240 SQAMPNSPNF FMRDIANQQG FQDQHQFPSK ALHGLMQLPD LQSNPNNNSP SSNSAANLFN 300 LSFFSNNSTS NSIAPPDHQF SDGNGSGQGF SMGNDHQIGS GSVPSLYGNS MQHEGGVAPH 360 MSATALLQKA AQMGSTTSTE SSSLLRGLGN SSTRAAKSGR QLVSAPSSVG VSFIGDHHHS 420 TNGGEQHLRS SQQVENENHL QGLMNSLANG NSSIFGGGEQ DHNNNFGGFS SGSTANRVSA 480 MDQQHNNPNY DEAKMHQNLG VNFGGSDKLT LDFLGVGGMV RNMSGGHGYS QRDNLQQQHH 540 GINMISSLDP ELESAQASQP FGGTTLQ*

Sequence ? help Back to Top

Protein Sequence Length: 568 aa Download sequence Send to blast

MLPPQPQAQP HHLRRKGEIN LEIQANPDAE VIALSPKTLM ATNRFICEVC NKGFQREQNL  60
QLHRRGHNLP WKLKQKTNKE PRRKVYLCPE PSCVHHDPSR ALGDLTGIKK HYSRKHGEKK  120
WKCDKCSKRY AVQSDWKAHS KTCGTREYRC DCGTLFSRRD SFITHRAFCD ALAQESARHP  180
SSLSTMGGNL YGNNHMSLGL PQIPSLQNST HLPNNMLRLG SGGSAKFEHL IPPSNPSSFG  240
SQAMPNSPNF FMRDIANQQG FQDQHQFPSK ALHGLMQLPD LQSNPNNNSP SSNSAANLFN  300
LSFFSNNSTS NSIAPPDHQF SDGNGSGQGF SMGNDHQIGS GSVPSLYGNS MQHEGGVAPH  360
MSATALLQKA AQMGSTTSTE SSSLLRGLGN SSTRAAKSGR QLVSAPSSVG VSFIGDHHHS  420
TNGGEQHLRS SQQVENENHL QGLMNSLANG NSSIFGGGEQ DHNNNFGGFS SGSTANRVSA  480
MDQQHNNPNY DEAKMHQNLG VNFGGSDKLT LDFLGVGGMV RNMSGGHGYS QRDNLQQQHH  540
GINMISSLDP ELESAQASQP FGGTTLQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-35	117	184	3	69	Zinc finger protein JACKDAW
5b3h_F	4e-35	117	184	3	69	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pbr012193.2

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AM455095	1e-120	AM455095.1 Vitis vinifera contig VV78X055432.12, whole genome shotgun sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009351634.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like isoform X1
Refseq	XP_009351635.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like isoform X1
Refseq	XP_009351636.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like isoform X2
Swissprot	Q9ZUL3	1e-125	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A498HLL1	0.0	A0A498HLL1_MALDO; Uncharacterized protein
STRING	XP_009351634.1	0.0	(Pyrus x bretschneideri)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1536	33	97

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-111	indeterminate(ID)-domain 5

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]