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

Bostr.27991s0078.1.p

Organism

Boechera stricta

Taxonomic ID

72658

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Boechereae; Boechera

Family

C3H

Protein Properties

Length: 851aa MW: 93455 Da PI: 5.5195

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Bostr.27991s0078.1.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	31.2	3.7e-10	123	149	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +kt+lC++f+r C++G+ Ck+aHg+ Bostr.27991s0078.1.p 123 WKTSLCSYFRREASCSHGSECKYAHGE 149 8************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	4.4E-13	117	154	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.75E-8	119	154	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.033	122	150	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	3.1E-4	122	149	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.2E-8	123	149	IPR000571	Zinc finger, CCCH-type
CDD	cd00590	1.00E-4	214	279	No hit	No description
Gene3D	G3DSA:3.30.70.330	2.4E-7	217	279	IPR012677	Nucleotide-binding alpha-beta plait domain
SuperFamily	SSF54928	1.29E-6	217	284	IPR012677	Nucleotide-binding alpha-beta plait domain
PROSITE profile	PS51687	49.209	302	850	IPR010280	(Uracil-5)-methyltransferase family
SuperFamily	SSF53335	3.54E-46	305	330	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
SuperFamily	SSF53335	3.54E-46	362	501	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
SuperFamily	SSF53335	3.54E-46	537	658	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
Gene3D	G3DSA:3.40.50.150	7.4E-67	547	658	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
Pfam	PF13847	1.2E-9	602	669	IPR025714	Methyltransferase domain
CDD	cd02440	3.83E-6	604	656	No hit	No description
Pfam	PF05958	1.8E-8	727	785	IPR010280	(Uracil-5)-methyltransferase family
Gene3D	G3DSA:3.40.50.150	7.4E-67	730	789	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
SuperFamily	SSF53335	3.54E-46	737	790	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
PROSITE pattern	PS01230	0	745	777	IPR030390	RNA methyltransferase TrmA, active site
Gene3D	G3DSA:3.40.50.150	7.4E-67	825	850	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
SuperFamily	SSF53335	3.54E-46	834	850	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
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: 851 aa Download sequence Send to blast
MASSSIDELP STAAETLTSQ PPSTITPVPT EPLPRETSSI EINELPLATK TLTPPAPVEP 60 IPMETLSIED LPPALVEPIP SSDSNPTDNI EAVGEKRKRA DDENNEKTNL DSSDTKVIPS 120 PWWKTSLCSY FRREASCSHG SECKYAHGEQ ELRMKPDNTW DPTSERGKKA KAMKMSEQEE 180 KEDDEVLFTE QMMDSIDDDE GCGGSVVDLS LSKCLVHLPR KWQSDELKNF LGEQGVQYKF 240 AKKRRGMLVG FVTFENAKQL QSGVKILDGK TVNSKNLKIA DVLPRTFDKN ETKKSAKTAR 300 DAVTPLADLS YADQLEQKKA SIAQMLKKLA RSARKACPNG SSLPEWVLTS RDRGGLSCKL 360 EGIIESPITN GYRNKCEFSV GLSVQGKPTV GFSLGNFCAG VTAVEEPVNC PNVSKIALQY 420 ASIFQKVIEK SKLQVWNRFQ HSGFWRQFTV REGRKPGVFS NDEDAITRIA EVMLIVQVCL 480 TGSDEAEVAT EFEEMAKAFA EGARASSPTL PLTVLVVQNH TGISNVAPPD APLQVLPIPM 540 SDNGTNQEQI TNVLTEARIH DHINNLRFSI SPTAFFQVNT VTAEKLYSVA GDWADLGPDT 600 LLFDVCCGTG TIGLTLAHRV GMVIGIEMNA SAVADAERNA TINGISNCKF ICSKAESVMS 660 SLLKQYLDVT QMEEAKPLSN AHDDHDKQVP STEEMSNSEH VADQNLPPPN TRVEELQDNE 720 QKDSSSLEPV KSTKPQFKNV VAIVDPPRSG LHPAVIKALR THPRLRRLVY ISCNPETLVA 780 NAIELCTPSF DEADRGNKSF RGHKKMGIAG LARHRAKSMP TSEPFRPVKA MAVDLFPHTD 840 HCEMVMLLER *

Sequence ? help Back to Top

Protein Sequence Length: 851 aa Download sequence Send to blast

MASSSIDELP STAAETLTSQ PPSTITPVPT EPLPRETSSI EINELPLATK TLTPPAPVEP  60
IPMETLSIED LPPALVEPIP SSDSNPTDNI EAVGEKRKRA DDENNEKTNL DSSDTKVIPS  120
PWWKTSLCSY FRREASCSHG SECKYAHGEQ ELRMKPDNTW DPTSERGKKA KAMKMSEQEE  180
KEDDEVLFTE QMMDSIDDDE GCGGSVVDLS LSKCLVHLPR KWQSDELKNF LGEQGVQYKF  240
AKKRRGMLVG FVTFENAKQL QSGVKILDGK TVNSKNLKIA DVLPRTFDKN ETKKSAKTAR  300
DAVTPLADLS YADQLEQKKA SIAQMLKKLA RSARKACPNG SSLPEWVLTS RDRGGLSCKL  360
EGIIESPITN GYRNKCEFSV GLSVQGKPTV GFSLGNFCAG VTAVEEPVNC PNVSKIALQY  420
ASIFQKVIEK SKLQVWNRFQ HSGFWRQFTV REGRKPGVFS NDEDAITRIA EVMLIVQVCL  480
TGSDEAEVAT EFEEMAKAFA EGARASSPTL PLTVLVVQNH TGISNVAPPD APLQVLPIPM  540
SDNGTNQEQI TNVLTEARIH DHINNLRFSI SPTAFFQVNT VTAEKLYSVA GDWADLGPDT  600
LLFDVCCGTG TIGLTLAHRV GMVIGIEMNA SAVADAERNA TINGISNCKF ICSKAESVMS  660
SLLKQYLDVT QMEEAKPLSN AHDDHDKQVP STEEMSNSEH VADQNLPPPN TRVEELQDNE  720
QKDSSSLEPV KSTKPQFKNV VAIVDPPRSG LHPAVIKALR THPRLRRLVY ISCNPETLVA  780
NAIELCTPSF DEADRGNKSF RGHKKMGIAG LARHRAKSMP TSEPFRPVKA MAVDLFPHTD  840
HCEMVMLLER *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5xj1_A	1e-19	300	665	77	371	Uncharacterized RNA methyltransferase SP_1029
5xj2_A	1e-19	300	665	77	371	Uncharacterized RNA methyltransferase SP_1029
5xj2_B	1e-19	300	665	77	371	Uncharacterized RNA methyltransferase SP_1029
5xj2_C	1e-19	300	665	77	371	Uncharacterized RNA methyltransferase SP_1029
5xj2_D	1e-19	300	665	77	371	Uncharacterized RNA methyltransferase SP_1029
5zq0_A	1e-19	300	665	78	372	Uncharacterized RNA methyltransferase SP_1029
5zq1_A	1e-19	300	665	77	371	Uncharacterized RNA methyltransferase SP_1029
5zq8_A	1e-19	300	665	77	371	Uncharacterized RNA methyltransferase SP_1029
5zq8_B	1e-19	300	665	77	371	Uncharacterized RNA methyltransferase SP_1029
5zth_A	1e-19	300	665	78	372	Uncharacterized RNA methyltransferase SP_1029
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Bostr.27991s0078.1.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	AY128289	0.0	AY128289.1 Arabidopsis thaliana At2g28450/T1B3.3 mRNA, complete cds.
GenBank	BT002293	0.0	BT002293.1 Arabidopsis thaliana At2g28450/T1B3.3 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010414523.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 24-like isoform X1
Refseq	XP_010414524.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 24-like isoform X2
Swissprot	Q8L7S3	0.0	C3H24_ARATH; Zinc finger CCCH domain-containing protein 24
TrEMBL	R0HM81	0.0	R0HM81_9BRAS; Uncharacterized protein
STRING	Bostr.27991s0078.1.p	0.0	(Boechera stricta)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM12003	15	16

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G28450.1	0.0	C3H family protein

Link Out ? help Back to Top
Phytozome	Bostr.27991s0078.1.p

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]