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

XP_009149674.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 987aa MW: 107660 Da PI: 10.267

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009149674.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.1	9.8e-06	867	888	6	27
-SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 6 CrffartGtCkyGdrCkFaHgp 27 C++f +tG C+ G++Ck +H++ XP_009149674.1 867 CPDFEATGSCPQGSKCKLHHPK 888 *****************99985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00027	2.2E-12	3	97	IPR000261	EH domain
PROSITE profile	PS50222	9.966	8	43	IPR002048	EF-hand domain
PROSITE profile	PS50031	15.521	9	99	IPR000261	EH domain
SuperFamily	SSF47473	4.08E-18	10	85	IPR011992	EF-hand domain pair
Gene3D	G3DSA:1.10.238.10	1.6E-30	11	96	IPR011992	EF-hand domain pair
CDD	cd00052	3.68E-23	13	79	No hit	No description
PROSITE profile	PS50222	6.591	44	77	IPR002048	EF-hand domain
SMART	SM00356	0.049	757	785	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.723	757	786	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.3	786	810	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	6.493	790	811	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	9.2E-4	812	837	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.089	812	838	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.029	839	865	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	7.761	839	860	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.014	861	889	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.65	866	888	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005509	Molecular Function	calcium ion binding
GO:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 987 aa Download sequence Send to blast
MAAPKPTGGQ DLFDTYFRRA DLDGDGRISG AEAVGFFQGS NLPKPVLAQV WSYADAKKAG 60 YLGRAEFYNA LKLVTVAQSR RELTPEIVKA AIYSPASANI PAPKINLAAT PSPQPRGPVA 120 QTPGVTSVAA AMRGSQMGGN VSTSNQQVVP GQQNQLTGPP PSQPPQNFQS QGMPPGGTIA 180 PRTANQPVPS NWISGRSVGP SGQVNSQIPS SQSGYGLTAP NSIANNIPQP HMTPAVISST 240 TTRPQVPVPA SGNGFPSDSI FGDVFSVAST QPKQHTTGTT LTMGISSVST GTVVAPEVAQ 300 FVARQSSIPH RGSLNRIENK STGSASKVAV GNASFLVKAG KIPTLEKQSK PPSDSSTSKV 360 SNAIDAPSGK CALSYSMDHP TTGLPESIMD SATSGEASVP HSGGDTSKTS DIPIQTDYAS 420 DCQQKKIPPN LDSSDLKRTV YVKRKANQLV ADSDIHSKSR SQIPTSDGYF KRNKNQLVRT 480 SESRVNHSPD DALDSRASAT MVSERSSCSA FSDAAVTRPY KRSKFSLVWT QNDQQSDLPS 540 SHMRYRRILP QLVPWKRVTY WRRLMNSVSA LRNGSFSNIS QKLSTMRKRH TVYTRSTNGY 600 SLRKSKVLSI GGSHLKWSKS IERDSRKANE EATLAVAAFS KKENEKHSGQ SSTRKTSRNH 660 LARERIFRFG SLRYKMDPSR RTLQRISDVD SPCSGPTENG KGAKRPFIPK RLVIGHEEYV 720 RVGNGNQLVR DPKKRTRALA NEKVRWSLHN VRLRLAKKKK KYCQFFTRFG KCNKDDGKCP 780 YVHDPSKIAV CTKFLNGLCA NDNCKLTHKV IPERMPDCSY FLQGLCNNEA CPYRHVHVNP 840 SAAICDGFLK GYCSDGNECR KKHSYTCPDF EATGSCPQGS KCKLHHPKNQ GKGIKRKRPS 900 EPSEKNPRGR YFGSLQKLFS ESEPMVVDRH PTESEDFGKE GFEFISLGAT EEEAGDNNDQ 960 ATEQSISSES EEPASIYELI KPVALMR

Sequence ? help Back to Top

Protein Sequence Length: 987 aa Download sequence Send to blast

MAAPKPTGGQ DLFDTYFRRA DLDGDGRISG AEAVGFFQGS NLPKPVLAQV WSYADAKKAG  60
YLGRAEFYNA LKLVTVAQSR RELTPEIVKA AIYSPASANI PAPKINLAAT PSPQPRGPVA  120
QTPGVTSVAA AMRGSQMGGN VSTSNQQVVP GQQNQLTGPP PSQPPQNFQS QGMPPGGTIA  180
PRTANQPVPS NWISGRSVGP SGQVNSQIPS SQSGYGLTAP NSIANNIPQP HMTPAVISST  240
TTRPQVPVPA SGNGFPSDSI FGDVFSVAST QPKQHTTGTT LTMGISSVST GTVVAPEVAQ  300
FVARQSSIPH RGSLNRIENK STGSASKVAV GNASFLVKAG KIPTLEKQSK PPSDSSTSKV  360
SNAIDAPSGK CALSYSMDHP TTGLPESIMD SATSGEASVP HSGGDTSKTS DIPIQTDYAS  420
DCQQKKIPPN LDSSDLKRTV YVKRKANQLV ADSDIHSKSR SQIPTSDGYF KRNKNQLVRT  480
SESRVNHSPD DALDSRASAT MVSERSSCSA FSDAAVTRPY KRSKFSLVWT QNDQQSDLPS  540
SHMRYRRILP QLVPWKRVTY WRRLMNSVSA LRNGSFSNIS QKLSTMRKRH TVYTRSTNGY  600
SLRKSKVLSI GGSHLKWSKS IERDSRKANE EATLAVAAFS KKENEKHSGQ SSTRKTSRNH  660
LARERIFRFG SLRYKMDPSR RTLQRISDVD SPCSGPTENG KGAKRPFIPK RLVIGHEEYV  720
RVGNGNQLVR DPKKRTRALA NEKVRWSLHN VRLRLAKKKK KYCQFFTRFG KCNKDDGKCP  780
YVHDPSKIAV CTKFLNGLCA NDNCKLTHKV IPERMPDCSY FLQGLCNNEA CPYRHVHVNP  840
SAAICDGFLK GYCSDGNECR KKHSYTCPDF EATGSCPQGS KCKLHHPKNQ GKGIKRKRPS  900
EPSEKNPRGR YFGSLQKLFS ESEPMVVDRH PTESEDFGKE GFEFISLGAT EEEAGDNNDQ  960
ATEQSISSES EEPASIYELI KPVALMR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6fbs_C	5e-19	755	888	33	168	Cleavage and polyadenylation specificity factor subunit 4
6fuw_C	5e-19	755	888	33	168	Cleavage and polyadenylation specificity factor subunit 4
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.4149	5e-47	leaf

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009149674.1

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_009149674.1	0.0	PREDICTED: uncharacterized protein LOC103872998 isoform X2
TrEMBL	M4DN42	0.0	M4DN42_BRARP; Uncharacterized protein
STRING	Bra017929.1-P	0.0	(Brassica rapa)