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

Pbr032279.2

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

FAR1

Protein Properties

Length: 459aa MW: 51962.4 Da PI: 10.3296

Description

FAR1 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pbr032279.2	genome	CPETR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	FAR1	23.9	1.3e-07	37	89	16	69
FAR1 16 kskskkskrngeitkrtfvCskegkreeekkktekerrtraetrtgCkaklkvk 69 k++++++k+++++++r fvC+ +g++ ++k + + ++++++tr gC+a+l+++ Pbr032279.2 37 KKSNTHRKEDNTFKDRLFVCYAQGYHGPDKCD-ANVQHHHPKTRFGCQARLQIN 89 556677788999****************99.999999**********997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF54928	9.25E-5	92	132	IPR012677	Nucleotide-binding alpha-beta plait domain
Gene3D	G3DSA:3.30.70.330	2.6E-20	97	129	IPR012677	Nucleotide-binding alpha-beta plait domain
PROSITE profile	PS50102	11.708	106	233	IPR000504	RNA recognition motif domain
SMART	SM00360	1.1E-8	107	229	IPR000504	RNA recognition motif domain
Gene3D	G3DSA:3.30.70.330	2.6E-20	187	239	IPR012677	Nucleotide-binding alpha-beta plait domain
SuperFamily	SSF54928	4.21E-14	188	258	IPR012677	Nucleotide-binding alpha-beta plait domain
Pfam	PF00076	3.1E-6	191	226	IPR000504	RNA recognition motif domain
SuperFamily	SSF57756	2.56E-12	246	294	IPR001878	Zinc finger, CCHC-type
SMART	SM00343	1.3E-4	255	271	IPR001878	Zinc finger, CCHC-type
Gene3D	G3DSA:4.10.60.10	2.4E-12	255	293	IPR001878	Zinc finger, CCHC-type
PROSITE profile	PS50158	10.18	255	270	IPR001878	Zinc finger, CCHC-type
Pfam	PF00098	1.8E-5	255	270	IPR001878	Zinc finger, CCHC-type
Pfam	PF00098	1.1E-4	276	292	IPR001878	Zinc finger, CCHC-type
SMART	SM00343	0.001	277	293	IPR001878	Zinc finger, CCHC-type
PROSITE profile	PS50158	10.675	277	293	IPR001878	Zinc finger, CCHC-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0000166	Molecular Function	nucleotide binding
GO:0003676	Molecular Function	nucleic acid binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 459 aa Download sequence Send to blast
MDITKNFMEY QTEAHRKLDF EGDISMNIFV EGKCSDKKSN THRKEDNTFK DRLFVCYAQG 60 YHGPDKCDAN VQHHHPKTRF GCQARLQINS LIPGTMPRHD DRNGGSRLYV GRLSSRTRSR 120 ELEDVFSRYG RFLGDNEPFA KPLFVLESVH FFYVCENASP LHVSLWFNFN DLVEGSLAFA 180 KPGGLGERVR DVDMKRDFAF VEFSDPRDAD DARYSLNGRD VDGSRIIVEF ARGAPRGPGG 240 SREYLGRGPP PGSGRCFNCG LDGHWARDCK AGDWKNKCYR CGERGHIERN CQNSPKKTTK 300 HGRSLSRSPS PRRGRSRSRS YSRDHSYSRS RSPVRGERSL ERRSRSPHDS RSPKRRRASP 360 PPSKGRKHDR TPEGRSPQER GSLSPQDRRS DDSRSPRAKS RSPINDVEGD SNGDRKHRSP 420 VEENSRSRSP SPVRRSDRSP VEDDGDIPGS PRGSESPA*

Sequence ? help Back to Top

Protein Sequence Length: 459 aa Download sequence Send to blast

MDITKNFMEY QTEAHRKLDF EGDISMNIFV EGKCSDKKSN THRKEDNTFK DRLFVCYAQG  60
YHGPDKCDAN VQHHHPKTRF GCQARLQINS LIPGTMPRHD DRNGGSRLYV GRLSSRTRSR  120
ELEDVFSRYG RFLGDNEPFA KPLFVLESVH FFYVCENASP LHVSLWFNFN DLVEGSLAFA  180
KPGGLGERVR DVDMKRDFAF VEFSDPRDAD DARYSLNGRD VDGSRIIVEF ARGAPRGPGG  240
SREYLGRGPP PGSGRCFNCG LDGHWARDCK AGDWKNKCYR CGERGHIERN CQNSPKKTTK  300
HGRSLSRSPS PRRGRSRSRS YSRDHSYSRS RSPVRGERSL ERRSRSPHDS RSPKRRRASP  360
PPSKGRKHDR TPEGRSPQER GSLSPQDRRS DDSRSPRAKS RSPINDVEGD SNGDRKHRSP  420
VEENSRSRSP SPVRRSDRSP VEDDGDIPGS PRGSESPA*

Functional Description ? help Back to Top
Source	Description
UniProt	Probably involved in intron recognition and spliceosome assembly.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pbr032279.2

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009357626.1	0.0	PREDICTED: serine/arginine-rich splicing factor RS2Z32-like isoform X1
Refseq	XP_009357627.1	0.0	PREDICTED: serine/arginine-rich splicing factor RS2Z33-like isoform X3
Swissprot	Q9FYB7	2e-61	RSZ32_ARATH; Serine/arginine-rich splicing factor RS2Z32
TrEMBL	A0A498JK88	1e-161	A0A498JK88_MALDO; Uncharacterized protein
STRING	XP_009357625.1	0.0	(Pyrus x bretschneideri)

Publications ? help Back to Top
Lopato S, et al. Network of interactions of a novel plant-specific Arg/Ser-rich protein, atRSZ33, with atSC35-like splicing factors. J. Biol. Chem., 2002. 277(42): p. 39989-98 [PMID:12176998] Kalyna M,Barta A A plethora of plant serine/arginine-rich proteins: redundancy or evolution of novel gene functions? Biochem. Soc. Trans., 2004. 32(Pt 4): p. 561-4 [PMID:15270675] Iida K, et al. Genome-wide analysis of alternative pre-mRNA splicing in Arabidopsis thaliana based on full-length cDNA sequences. Nucleic Acids Res., 2004. 32(17): p. 5096-103 [PMID:15452276] Iida K,Go M Survey of conserved alternative splicing events of mRNAs encoding SR proteins in land plants. Mol. Biol. Evol., 2006. 23(5): p. 1085-94 [PMID:16520337] de la Fuente van Bentem S, et al. Phosphoproteomics reveals extensive in vivo phosphorylation of Arabidopsis proteins involved in RNA metabolism. Nucleic Acids Res., 2006. 34(11): p. 3267-78 [PMID:16807317] Kalyna M,Lopato S,Voronin V,Barta A Evolutionary conservation and regulation of particular alternative splicing events in plant SR proteins. Nucleic Acids Res., 2006. 34(16): p. 4395-405 [PMID:16936312] Palusa SG,Ali GS,Reddy AS Alternative splicing of pre-mRNAs of Arabidopsis serine/arginine-rich proteins: regulation by hormones and stresses. Plant J., 2007. 49(6): p. 1091-107 [PMID:17319848] Tanabe N,Yoshimura K,Kimura A,Yabuta Y,Shigeoka S Differential expression of alternatively spliced mRNAs of Arabidopsis SR protein homologs, atSR30 and atSR45a, in response to environmental stress. Plant Cell Physiol., 2007. 48(7): p. 1036-49 [PMID:17556373] Barta A,Kalyna M,Reddy AS Implementing a rational and consistent nomenclature for serine/arginine-rich protein splicing factors (SR proteins) in plants. Plant Cell, 2010. 22(9): p. 2926-9 [PMID:20884799] Richardson DN, et al. Comparative analysis of serine/arginine-rich proteins across 27 eukaryotes: insights into sub-family classification and extent of alternative splicing. PLoS ONE, 2011. 6(9): p. e24542 [PMID:21935421]