PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma

Family

C3H

Protein Properties

Length: 627aa MW: 72209.2 Da PI: 9.7042

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG027104t1	genome	CGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	26.8	8.9e-09	122	149	1	26
--S---SGGGGTS..--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartG..tCkyGdrCkFaHg 26 +k ++C f+++ tC++G C+F+H+ Thecc1EG027104t1 122 WKVAICGEFMKSRlkTCSHGTACNFIHC 149 899************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50102	9.473	18	119	IPR000504	RNA recognition motif domain
SMART	SM00361	1.0E-5	39	115	IPR003954	RNA recognition motif domain, eukaryote
Gene3D	G3DSA:3.30.70.330	4.4E-22	40	117	IPR012677	Nucleotide-binding alpha-beta plait domain
PRINTS	PR01848	2.1E-19	48	63	IPR009145	U2 auxiliary factor small subunit
SuperFamily	SSF54928	3.29E-16	51	119	IPR012677	Nucleotide-binding alpha-beta plait domain
PRINTS	PR01848	2.1E-19	76	98	IPR009145	U2 auxiliary factor small subunit
PRINTS	PR01848	2.1E-19	103	127	IPR009145	U2 auxiliary factor small subunit
PROSITE profile	PS50103	10.559	121	151	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.8E-6	122	149	IPR000571	Zinc finger, CCCH-type
PRINTS	PR01848	2.1E-19	141	153	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: 627 aa Download sequence Send to blast
MHGVTSVEVL GIGIGWLTLK LLANLPIITP IILDSYCISY QYTDEEVERC YEEFYEDVHT 60 EFLKFGEIVN FKVCKNGAFH LRGNVYVHYK MLESAVLAYH SINGRYFAGK QVKCEFVNLT 120 RWKVAICGEF MKSRLKTCSH GTACNFIHCF RNPGGDYEWA DWDKPPPRYW VKKMGALFGY 180 SDEAGFEKQI EQEHSGQSRN RSRVIKSDAD RHRSRRSKSR EMNRLIGGAD RSPCIEDDVE 240 ESSHSQRGKN NDRKQTKGLD GRSYRESKSL KWDQNREKNH DTSSDGGYSD SKRGKKIDRK 300 RAKTLDGRSD RQRSLTWDQN SEEIHDTSSD GGYSDSKRGK KNDRKQAKTL DGRSDRQRGL 360 KWDENSEKIH TTSSDGGYSD SKRGKENDRK QAKVLDGGRS DRQRSLTWDQ NSEEIHDTSS 420 YGGYSDSKRG KKNDRKQAKT LDGRSDRQRS LKCDENSEKI HDTSSDGSYS DSKRGKKNDR 480 KRAKTLDGRS GRQRSLKWDE NSEQIHYTSS DGGYSHSKRG KKNERKKAKL LDGRSDRHRS 540 LKWDQNRERT LDTSSDEGYS ERDIDAARDA DEVTHHCHAK EHSKHQSESL EYLADNRSFK 600 NRDYEDTENS PAQTKKRTRH RSSKGG*

Sequence ? help Back to Top

Protein Sequence Length: 627 aa Download sequence Send to blast

MHGVTSVEVL GIGIGWLTLK LLANLPIITP IILDSYCISY QYTDEEVERC YEEFYEDVHT  60
EFLKFGEIVN FKVCKNGAFH LRGNVYVHYK MLESAVLAYH SINGRYFAGK QVKCEFVNLT  120
RWKVAICGEF MKSRLKTCSH GTACNFIHCF RNPGGDYEWA DWDKPPPRYW VKKMGALFGY  180
SDEAGFEKQI EQEHSGQSRN RSRVIKSDAD RHRSRRSKSR EMNRLIGGAD RSPCIEDDVE  240
ESSHSQRGKN NDRKQTKGLD GRSYRESKSL KWDQNREKNH DTSSDGGYSD SKRGKKIDRK  300
RAKTLDGRSD RQRSLTWDQN SEEIHDTSSD GGYSDSKRGK KNDRKQAKTL DGRSDRQRGL  360
KWDENSEKIH TTSSDGGYSD SKRGKENDRK QAKVLDGGRS DRQRSLTWDQ NSEEIHDTSS  420
YGGYSDSKRG KKNDRKQAKT LDGRSDRQRS LKCDENSEKI HDTSSDGSYS DSKRGKKNDR  480
KRAKTLDGRS GRQRSLKWDE NSEQIHYTSS DGGYSHSKRG KKNERKKAKL LDGRSDRHRS  540
LKWDQNRERT LDTSSDEGYS ERDIDAARDA DEVTHHCHAK EHSKHQSESL EYLADNRSFK  600
NRDYEDTENS PAQTKKRTRH RSSKGG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4yh8_A	2e-13	41	148	63	167	Splicing factor U2AF 23 kDa subunit
Search in ModeBase

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_021298174.1	0.0	LOW QUALITY PROTEIN: zinc finger CCCH domain-containing protein 5
TrEMBL	A0A061GFD0	0.0	A0A061GFD0_THECC; Zinc finger C-x8-C-x5-C-x3-H type family protein isoform 1
STRING	EOY25725	0.0	(Theobroma cacao)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G10320.1	5e-81	C3H family protein

Link Out ? help Back to Top
Phytozome	Thecc1EG027104t1
Entrez Gene	18595201

Publications ? help Back to Top
Motamayor JC, et al. The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color. Genome Biol., 2013. 14(6): p. r53 [PMID:23731509]