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

Pbr042019.2

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

C3H

Protein Properties

Length: 716aa MW: 82785.8 Da PI: 7.8638

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pbr042019.2	genome	CPETR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	19.5	1.7e-06	237	256	6	25
-SGGGGTS--TTTTT-SS-S CS zf-CCCH 6 CrffartGtCkyGdrCkFaH 25 C+f+++tG C++G rC++ H Pbr042019.2 237 CPFHLKTGACRFGQRCSRVH 256 ******************99 PP
2	zf-CCCH	26.1	1.4e-08	335	362	1	26
--S---SGGGGTS..--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartG..tCkyGdrCkFaHg 26 +k ++C ++++ tC++G C+F+H+ Pbr042019.2 335 WKVAICGEYMKSRykTCSRGTACNFIHC 362 899************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	11.732	231	259	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	31	232	258	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.8E-4	236	256	IPR000571	Zinc finger, CCCH-type
PRINTS	PR01848	3.4E-12	237	256	IPR009145	U2 auxiliary factor small subunit
PRINTS	PR01848	3.4E-12	256	276	IPR009145	U2 auxiliary factor small subunit
Gene3D	G3DSA:3.30.70.330	1.9E-11	284	330	IPR012677	Nucleotide-binding alpha-beta plait domain
SuperFamily	SSF54928	6.15E-9	284	333	IPR012677	Nucleotide-binding alpha-beta plait domain
SMART	SM00356	0.03	334	363	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	10.878	334	364	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.3E-6	335	362	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0000398	Biological Process	mRNA splicing, via spliceosome
GO:0089701	Cellular Component	U2AF
GO:0000166	Molecular Function	nucleotide binding
GO:0003723	Molecular Function	RNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 716 aa Download sequence Send to blast
MESALAEAAA KEGEAVGGGV EPRTEPLGAE KGMTNRKEKR KAMKKMKRKQ TRKEMALKER 60 EEHDAILNDP LELAKITVIE QEEAERSERE GKIFEERETA WIEAMEVNRK TQIEEEDEEE 120 RTRIKAREEE DELSRNQQVE NENDGNEVDE WDYEEGPAEI IWQGNEIILK KKRVKIPKKT 180 TDQESRKDPD RPTSNPLPPQ SEAFSDYKSS SMSARQLIES VAQQVPHFGT EQDKAHCPFH 240 LKTGACRFGQ RCSRVHFCPD KSSTLLIKNM YNGPGLAWEQ DEGLDVCRNG AFHLRGNVYI 300 HYKSTDSAVV AYQSVNGRYF AGKQISCELI NVTRWKVAIC GEYMKSRYKT CSRGTACNFI 360 HCFRNPGGDY EWADSDRPPP KFWARKMVAL FGYSDADDKP MVEENFGQRR NSSKKSLGDS 420 ESDSGRRYDN ENYVLEGTCR QKCTGDEHLC EESKNLRDYN PRRSRKWDTE SDGELLEREI 480 DRDGHRGHTR RRSRQQNRDH KNKTYETESD GDLLQRNRIA QHGTRKSSSQ QRKVESPDEY 540 RDRENKNHEM NWDWSDRDRD KVAAHYDNGR HSGQKRKVRC RGDHKDIKNR ARDTDAERSD 600 SNMKGDEHHS RRKSMGPSSH SSKACPSKGR DESSDCDSEL YYYRVTHSEH GKSRDKDGKL 660 DSDNRPQQGS SQSSQRRHSR GLHDATDSSD GDKESGRKHK RHHAGHRSHD HKRHH*

Sequence ? help Back to Top

Protein Sequence Length: 716 aa Download sequence Send to blast

MESALAEAAA KEGEAVGGGV EPRTEPLGAE KGMTNRKEKR KAMKKMKRKQ TRKEMALKER  60
EEHDAILNDP LELAKITVIE QEEAERSERE GKIFEERETA WIEAMEVNRK TQIEEEDEEE  120
RTRIKAREEE DELSRNQQVE NENDGNEVDE WDYEEGPAEI IWQGNEIILK KKRVKIPKKT  180
TDQESRKDPD RPTSNPLPPQ SEAFSDYKSS SMSARQLIES VAQQVPHFGT EQDKAHCPFH  240
LKTGACRFGQ RCSRVHFCPD KSSTLLIKNM YNGPGLAWEQ DEGLDVCRNG AFHLRGNVYI  300
HYKSTDSAVV AYQSVNGRYF AGKQISCELI NVTRWKVAIC GEYMKSRYKT CSRGTACNFI  360
HCFRNPGGDY EWADSDRPPP KFWARKMVAL FGYSDADDKP MVEENFGQRR NSSKKSLGDS  420
ESDSGRRYDN ENYVLEGTCR QKCTGDEHLC EESKNLRDYN PRRSRKWDTE SDGELLEREI  480
DRDGHRGHTR RRSRQQNRDH KNKTYETESD GDLLQRNRIA QHGTRKSSSQ QRKVESPDEY  540
RDRENKNHEM NWDWSDRDRD KVAAHYDNGR HSGQKRKVRC RGDHKDIKNR ARDTDAERSD  600
SNMKGDEHHS RRKSMGPSSH SSKACPSKGR DESSDCDSEL YYYRVTHSEH GKSRDKDGKL  660
DSDNRPQQGS SQSSQRRHSR GLHDATDSSD GDKESGRKHK RHHAGHRSHD HKRHH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4yh8_A	3e-22	228	361	9	167	Splicing factor U2AF 23 kDa subunit
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pbr042019.2

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_028950772.1	0.0	zinc finger CCCH domain-containing protein 5
Swissprot	Q9SY74	1e-161	C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBL	A0A498HRR4	0.0	A0A498HRR4_MALDO; Uncharacterized protein
STRING	XP_008363366.1	0.0	(Malus domestica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4713	24	33

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G10320.1	1e-133	C3H family protein

Publications ? help Back to Top
Lorković ZJ,Wieczorek Kirk DA,Lambermon MH,Filipowicz W Pre-mRNA splicing in higher plants. Trends Plant Sci., 2000. 5(4): p. 160-7 [PMID:10740297] Domon C,Lorković ZJ,Valcárcel J,Filipowicz W Multiple forms of the U2 small nuclear ribonucleoprotein auxiliary factor U2AF subunits expressed in higher plants. J. Biol. Chem., 1998. 273(51): p. 34603-10 [PMID:9852132]