PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja

Family

C3H

Protein Properties

Length: 889aa MW: 96516.3 Da PI: 5.0162

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Glyma.12G068100.1.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	22.1	2.6e-07	65	92	1	27
--S---SGGGGTS.--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartG.tCkyGdrCkFaHgp 27 +kt+lC++f+ C++G+ C++aHg+ Glyma.12G068100.1.p 65 WKTSLCSYFRSHNgSCSHGGACRYAHGE 92 8****7776658**********96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	1.1E-12	61	98	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.04E-6	62	97	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	6.7E-5	64	92	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.324	64	93	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.6E-5	65	92	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF54928	2.29E-7	146	227	IPR012677	Nucleotide-binding alpha-beta plait domain
CDD	cd00590	1.35E-6	150	216	No hit	No description
Gene3D	G3DSA:3.30.70.330	9.4E-7	150	216	IPR012677	Nucleotide-binding alpha-beta plait domain
PROSITE profile	PS51687	42.021	271	888	IPR010280	(Uracil-5)-methyltransferase family
SuperFamily	SSF53335	2.61E-46	273	299	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
SuperFamily	SSF53335	2.61E-46	331	465	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
SuperFamily	SSF53335	2.61E-46	501	625	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
Gene3D	G3DSA:3.40.50.150	2.4E-63	524	625	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
Pfam	PF13847	1.3E-9	569	627	IPR025714	Methyltransferase domain
CDD	cd02440	2.05E-6	571	625	No hit	No description
Pfam	PF05958	1.1E-8	771	823	IPR010280	(Uracil-5)-methyltransferase family
Gene3D	G3DSA:3.40.50.150	2.4E-63	772	827	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
SuperFamily	SSF53335	2.61E-46	775	837	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
PROSITE pattern	PS01230	0	783	815	IPR030390	RNA methyltransferase TrmA, active site
Gene3D	G3DSA:3.40.50.150	2.4E-63	863	888	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
SuperFamily	SSF53335	2.61E-46	872	888	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0001510	Biological Process	RNA methylation
GO:0006396	Biological Process	RNA processing
GO:0000166	Molecular Function	nucleotide binding
GO:0008173	Molecular Function	RNA methyltransferase activity
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 889 aa Download sequence Send to blast
MAEPLSNTEL SSSKTLDPTN GHDSTSEPHQ TAPEDSQLNR EDDVVPTAKR KRDDDVEDRS 60 LHPLWKTSLC SYFRSHNGSC SHGGACRYAH GEEELRPRPD NTWDPTSERA KKALKTESDE 120 KRAVSEEVMM TEAVVDDGDD GCGANHALNI CLVHLPRKWS SENLRTFLSE QGIPFKHAKK 180 KKGMMIGFVT FEDEEQLKSS TMELEGKSIG NKTVKVANVL PRSFEKKSNA IVASRQELDE 240 ENAGVDVASS GTLDGETNND NLAKTRNVRD AVTPLAHMAY ADQLEQKTSS LMQILKKLTR 300 NARKACPNGV SLPEWILKSR EIGGLPCKLE GIIASPIVNG YRNKCEFSVG YSLEGKVTVG 360 FMLGNFREGV TAVEEAVDCP NVSTVACKYA TIFQEFLQDS DLPVWNRFKN TGFWRQLTVR 420 EGRTNGNVVD AETFSGVAEV MLIVQVSTAS FDDAKVAAEF KRLAQAFVAG ATSHCPILPL 480 TALVVQDHQG ISNVAPADAP LHSLPIPEAA GDPEVDENNN AKDVRIHDHI NNLQFSISPT 540 AFFQVNTLAA EKLYSLAGDW SCLGPDTLLF DICCGTGTIG LTLAHRVGMV IGIEMNASAV 600 SDAHRNAEIN GIKNVKFICS KAEDVMGSLL REYLNVTKEQ VDDPNISGSG NDIPKDSACP 660 EPENCEIASR CPENNIAEVG SEVQKGCTCE QADGISEQAE DVMGSLLRGD ANVAKEQSDD 720 PNVSGSSNDI PVDGTCPEPE NGEITSHSEN NNAEVGGEVQ KGISSENGKT SLQQFKNVVA 780 IVDPPRAGLH PTVIKALRTH PGLRRLVYIS CNPETLVANA IELCTPSPVK IEKGNKDNRG 840 WRNMSSAGLA RHRAKSMPIS EAFHPVKAMA VDLFPHTPHC ELVMLLER*

Sequence ? help Back to Top

Protein Sequence Length: 889 aa Download sequence Send to blast

MAEPLSNTEL SSSKTLDPTN GHDSTSEPHQ TAPEDSQLNR EDDVVPTAKR KRDDDVEDRS  60
LHPLWKTSLC SYFRSHNGSC SHGGACRYAH GEEELRPRPD NTWDPTSERA KKALKTESDE  120
KRAVSEEVMM TEAVVDDGDD GCGANHALNI CLVHLPRKWS SENLRTFLSE QGIPFKHAKK  180
KKGMMIGFVT FEDEEQLKSS TMELEGKSIG NKTVKVANVL PRSFEKKSNA IVASRQELDE  240
ENAGVDVASS GTLDGETNND NLAKTRNVRD AVTPLAHMAY ADQLEQKTSS LMQILKKLTR  300
NARKACPNGV SLPEWILKSR EIGGLPCKLE GIIASPIVNG YRNKCEFSVG YSLEGKVTVG  360
FMLGNFREGV TAVEEAVDCP NVSTVACKYA TIFQEFLQDS DLPVWNRFKN TGFWRQLTVR  420
EGRTNGNVVD AETFSGVAEV MLIVQVSTAS FDDAKVAAEF KRLAQAFVAG ATSHCPILPL  480
TALVVQDHQG ISNVAPADAP LHSLPIPEAA GDPEVDENNN AKDVRIHDHI NNLQFSISPT  540
AFFQVNTLAA EKLYSLAGDW SCLGPDTLLF DICCGTGTIG LTLAHRVGMV IGIEMNASAV  600
SDAHRNAEIN GIKNVKFICS KAEDVMGSLL REYLNVTKEQ VDDPNISGSG NDIPKDSACP  660
EPENCEIASR CPENNIAEVG SEVQKGCTCE QADGISEQAE DVMGSLLRGD ANVAKEQSDD  720
PNVSGSSNDI PVDGTCPEPE NGEITSHSEN NNAEVGGEVQ KGISSENGKT SLQQFKNVVA  780
IVDPPRAGLH PTVIKALRTH PGLRRLVYIS CNPETLVANA IELCTPSPVK IEKGNKDNRG  840
WRNMSSAGLA RHRAKSMPIS EAFHPVKAMA VDLFPHTPHC ELVMLLER*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5xj1_A	9e-19	268	685	76	429	Uncharacterized RNA methyltransferase SP_1029
5xj2_A	1e-18	268	685	76	429	Uncharacterized RNA methyltransferase SP_1029
5xj2_B	1e-18	268	685	76	429	Uncharacterized RNA methyltransferase SP_1029
5xj2_C	1e-18	268	685	76	429	Uncharacterized RNA methyltransferase SP_1029
5xj2_D	1e-18	268	685	76	429	Uncharacterized RNA methyltransferase SP_1029
5zq1_A	1e-18	268	685	76	429	Uncharacterized RNA methyltransferase SP_1029
5zq8_A	1e-18	268	685	76	429	Uncharacterized RNA methyltransferase SP_1029
5zq8_B	1e-18	268	685	76	429	Uncharacterized RNA methyltransferase SP_1029
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Gma.60834	0.0	leaf

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Glyma.12G068100.1.p

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT138500	0.0	BT138500.1 Medicago truncatula clone JCVI-FLMt-22E6 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003540739.1	0.0	zinc finger CCCH domain-containing protein 24
Swissprot	Q8L7S3	0.0	C3H24_ARATH; Zinc finger CCCH domain-containing protein 24
TrEMBL	K7LTE4	0.0	K7LTE4_SOYBN; Uncharacterized protein
STRING	GLYMA12G07300.3	0.0	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF8854	17	20
Representative plant	OGRP6088	11	12

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G28450.2	0.0	C3H family protein

Link Out ? help Back to Top
Phytozome	Glyma.12G068100.1.p
Entrez Gene	100777601

Publications ? help Back to Top
Wang Y, et al. Identification of tRNA nucleoside modification genes critical for stress response and development in rice and Arabidopsis. BMC Plant Biol., 2017. 17(1): p. 261 [PMID:29268705]