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

Kalax.1307s0002.1.p

Organism

Kalanchoe marnieriana

Taxonomic ID

80907

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Saxifragales; Crassulaceae; Kalanchoe

Family

C3H

Protein Properties

Length: 724aa MW: 85195.4 Da PI: 6.7791

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Kalax.1307s0002.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	18.4	3.9e-06	208	227	6	25
-SGGGGTS--TTTTT-SS-S CS zf-CCCH 6 CrffartGtCkyGdrCkFaH 25 C+f+ +tG C++G+rC++ H Kalax.1307s0002.1.p 208 CPFHIKTGVCRFGSRCNRTH 227 ****************9866 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	11.939	202	230	IPR000571	Zinc finger, CCCH-type
PRINTS	PR01848	2.5E-33	208	227	IPR009145	U2 auxiliary factor small subunit
PRINTS	PR01848	2.5E-33	227	247	IPR009145	U2 auxiliary factor small subunit
Gene3D	G3DSA:3.30.70.330	2.8E-24	233	332	IPR012677	Nucleotide-binding alpha-beta plait domain
PROSITE profile	PS50102	9.61	234	334	IPR000504	RNA recognition motif domain
CDD	cd12540	3.20E-47	235	332	No hit	No description
SMART	SM00361	1.7E-5	254	330	IPR003954	RNA recognition motif domain, eukaryote
PRINTS	PR01848	2.5E-33	263	278	IPR009145	U2 auxiliary factor small subunit
SuperFamily	SSF54928	3.57E-15	265	334	IPR012677	Nucleotide-binding alpha-beta plait domain
PRINTS	PR01848	2.5E-33	291	313	IPR009145	U2 auxiliary factor small subunit
PRINTS	PR01848	2.5E-33	318	342	IPR009145	U2 auxiliary factor small subunit
PROSITE profile	PS50103	9.404	323	353	IPR000571	Zinc finger, CCCH-type
PRINTS	PR01848	2.5E-33	343	355	IPR009145	U2 auxiliary factor small subunit

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: 724 aa Download sequence Send to blast
MMMGSAMTES GGGGENTEGR LSRKEKRKMF KKMKRKEKRK EEAVKEKEEE EMRMNDPEEV 60 RRMEELEREE RERAERERRN FEERERLWME EMNRREEERM HEMQELENDQ AQDENHDSDF 120 EYVEDGPAEI IWEGNEIIVK KKKVKVPKKK EEGTWKEEAE RPTSNPLPPQ SEAYADSLSA 180 PVLSAQQAYD NLAQQVPSFG TEQDKAHCPF HIKTGVCRFG SRCNRTHFYP DKSCTLLLKN 240 MYSGPGLAWE QDEGLEFTDE EVERSYEEFY EDVHTEFLKF GEIINFKVCR NGSAHLRGNV 300 YVHYKSLDAA LLAYCSISGR YFAGKQVKCE FVGVTRWKTC SRGTACNFIH CFRNPGGDYE 360 WADWDKPPPN YWVKKMSALF GYADEYEGRR SPSQPRDTNS QKQTTPDADR HHHSRRSRSR 420 DRDSSNFKSH RDRYELNDSQ DATRRQRHTN EGRRHIGRKK SKDTLDRDCL DTGKLKIHNR 480 GHSRSRRSSE GQTRDEEFTG SSDNEVDTNR DRSSEEPHGN WASNRSKHDE VRLVRHFRGK 540 VSRMGDSEVE SDENGGSALD QAKDYDRYNS DSWCWSKNKD RIHCTIWNKG REETEDVVED 600 IDDQQHGHEV GERHKHQKQN RDGCKRGDKD RIAHQHRDRD RDVNKHREGE ENGDKHQKKR 660 RRSLEHVKES YRFSDVHADK KKKTRFFEIN GDISDSNEQH QPNSPSNLKE ETVGIIDDRW 720 VPE*

Sequence ? help Back to Top

Protein Sequence Length: 724 aa Download sequence Send to blast

MMMGSAMTES GGGGENTEGR LSRKEKRKMF KKMKRKEKRK EEAVKEKEEE EMRMNDPEEV  60
RRMEELEREE RERAERERRN FEERERLWME EMNRREEERM HEMQELENDQ AQDENHDSDF  120
EYVEDGPAEI IWEGNEIIVK KKKVKVPKKK EEGTWKEEAE RPTSNPLPPQ SEAYADSLSA  180
PVLSAQQAYD NLAQQVPSFG TEQDKAHCPF HIKTGVCRFG SRCNRTHFYP DKSCTLLLKN  240
MYSGPGLAWE QDEGLEFTDE EVERSYEEFY EDVHTEFLKF GEIINFKVCR NGSAHLRGNV  300
YVHYKSLDAA LLAYCSISGR YFAGKQVKCE FVGVTRWKTC SRGTACNFIH CFRNPGGDYE  360
WADWDKPPPN YWVKKMSALF GYADEYEGRR SPSQPRDTNS QKQTTPDADR HHHSRRSRSR  420
DRDSSNFKSH RDRYELNDSQ DATRRQRHTN EGRRHIGRKK SKDTLDRDCL DTGKLKIHNR  480
GHSRSRRSSE GQTRDEEFTG SSDNEVDTNR DRSSEEPHGN WASNRSKHDE VRLVRHFRGK  540
VSRMGDSEVE SDENGGSALD QAKDYDRYNS DSWCWSKNKD RIHCTIWNKG REETEDVVED  600
IDDQQHGHEV GERHKHQKQN RDGCKRGDKD RIAHQHRDRD RDVNKHREGE ENGDKHQKKR  660
RRSLEHVKES YRFSDVHADK KKKTRFFEIN GDISDSNEQH QPNSPSNLKE ETVGIIDDRW  720
VPE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4yh8_A	2e-28	199	350	9	167	Splicing factor U2AF 23 kDa subunit
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	30	38	KKMKRKEKR
2	653	660	DKHQKKRR

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010252404.1	1e-175	PREDICTED: zinc finger CCCH domain-containing protein 5
Refseq	XP_019052712.1	1e-175	PREDICTED: zinc finger CCCH domain-containing protein 5
Swissprot	Q9SY74	1e-165	C3H5_ARATH; Zinc finger CCCH domain-containing protein 5
TrEMBL	A0A1U8Q270	1e-174	A0A1U8Q270_NELNU; zinc finger CCCH domain-containing protein 5
STRING	XP_010252404.1	1e-175	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G10320.1	1e-127	C3H family protein

Link Out ? help Back to Top
Phytozome	Kalax.1307s0002.1.p

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]