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

RrC7901_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

GeBP

Protein Properties

Length: 1007aa MW: 108136 Da PI: 7.702

Description

GeBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC7901_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF573	116.4	1.7e-36	60	159	2	98
DUF573 2 lfqrlwseeDeivlLqGlidf.kaktgkspsd..didafyefvkksisfkvsksqlveKirrLKkKfkkkvkkaksgkepsfskehdqkifelskkiWg 97 lfqrlw++eDei lL+G++d+ ++++g+++s+ d+ fye +k++++++++k+qlveK+rrLKkK+++ ++k++sgke+ f+++hdq++fe+s+kiW+ RrC7901_p1 60 LFQRLWTDEDEIELLRGFLDYvTSHRGSNSSHppDTAPFYELIKSKLQLEFNKNQLVEKLRRLKKKYRNVMSKISSGKEVFFKSPHDQSTFEISRKIWN 158 79*****************8899999665558**************************************************************8 PP DUF573 98 s 98 + RrC7901_p1 159 Q 159 5 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04504	8.9E-33	61	158	IPR007592	Protein of unknown function DUF573
SuperFamily	SSF53686	2.1E-95	369	670	IPR001926	Tryptophan synthase beta subunit-like PLP-dependent enzyme
Pfam	PF00291	3.4E-63	370	654	IPR001926	Tryptophan synthase beta subunit-like PLP-dependent enzyme
TIGRFAMs	TIGR01136	4.5E-122	371	667	IPR005856	Cysteine synthase
TIGRFAMs	TIGR01139	3.9E-127	371	667	IPR005859	Cysteine synthase CysK
CDD	cd01561	6.20E-146	373	663	No hit	No description
PROSITE pattern	PS00901	0	394	412	IPR001216	Cysteine synthase/cystathionine beta-synthase, pyridoxal-phosphate attachment site
Gene3D	G3DSA:3.40.50.1100	3.7E-35	399	497	No hit	No description
Gene3D	G3DSA:3.40.50.1100	1.9E-78	498	669	No hit	No description
TIGRFAMs	TIGR01136	7.4E-120	696	994	IPR005856	Cysteine synthase
SuperFamily	SSF53686	1.44E-91	696	997	IPR001926	Tryptophan synthase beta subunit-like PLP-dependent enzyme
TIGRFAMs	TIGR01139	6.9E-125	696	994	IPR005859	Cysteine synthase CysK
Pfam	PF00291	4.0E-59	697	981	IPR001926	Tryptophan synthase beta subunit-like PLP-dependent enzyme
CDD	cd01561	1.94E-119	700	990	No hit	No description
PROSITE pattern	PS00901	0	721	739	IPR001216	Cysteine synthase/cystathionine beta-synthase, pyridoxal-phosphate attachment site
Gene3D	G3DSA:3.40.50.1100	5.6E-35	727	824	No hit	No description
Gene3D	G3DSA:3.40.50.1100	6.7E-74	825	996	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006535	Biological Process	cysteine biosynthetic process from serine
GO:0004124	Molecular Function	cysteine synthase activity

Sequence ? help Back to Top
Protein Sequence Length: 1007 aa Download sequence Send to blast
VASSSTDAVT VALPAGSAVP VSVIPVDSDP KWHRTTEIVH HHHHNSQRML PPPIDDSRRL 60 FQRLWTDEDE IELLRGFLDY VTSHRGSNSS HPPDTAPFYE LIKSKLQLEF NKNQLVEKLR 120 RLKKKYRNVM SKISSGKEVF FKSPHDQSTF EISRKIWNQT GKIIGFEDNN VMDFEETNAN 180 TTNGNYFNSP GGSNPIEVDS ENGVERRLTM SSGSRKRSRS RIGKIEEDSK PVIDGNIPNT 240 AAASNVNLNE PATAVIGGNI GVLIEETVKS CVSPLIKEMM NGTTSMMMAA MGGGGGIGGG 300 GGGHGFGSLS PMFTRPLGYG VEGGGGNKAV NDERWRKQQI LELEVYSRRL ELVQEQIRAT 360 LHELKTMPSG LIGNTPMVYL NSIVDGCVAR IAAKLEMMQP CSSVKDRIAY GMIKDAEDKG 420 LITPGKSILI EPTSGNTGIG IAMVGAARGY KVVITLPASV SIERRIILLA LGAEVHLTDP 480 KKGVMGVIVK AEELLSKTPD GHILEQFRNP SNPQSHYEAT GPEIWRDSAE KVDILVVGVG 540 TGGTISGVGK FLKEKNQEVK VYGVEPAESA VLSGGQPGPH GIQGIGAGLI PDNLDFSVLD 600 EVIQVTSVEA IETAKLLALK EGLLVGISSG AAAAAAIKVA KRPENAGKLI VVVFPSGGER 660 YLSTPMFDSI RRIIAYLAWS ARSKMTSMVF LLCVMQQLIG NTPMVYLNNV VDGCVARIAA 720 KLEMMEPCSS VKERIAYGMI KDAEDKGLIT PGKSTLIEPT SGNTGIGLAF VGAARGYKVV 780 LTLPQTMSLE RKTVLLALGA EVHLTDPRRG VKGLYEKANE ILSKTPDGII LHQFKNPANP 840 QTHYRTTGPE IWRDSAGEVD ILVGGVGTGG TISGAGKFLK EKKKDLKVYA VEPKESAVLS 900 GCKPRLHLIQ GIGAGIIPDN LDFSIVDEII QVPGVEAIET ARLIALKEGL LVGISSGAAA 960 SAAIKVAKRP ENAGKLIVVV FPSGGERYIS TELFDSVRHE AESMTFE

Sequence ? help Back to Top

Protein Sequence Length: 1007 aa Download sequence Send to blast

VASSSTDAVT VALPAGSAVP VSVIPVDSDP KWHRTTEIVH HHHHNSQRML PPPIDDSRRL  60
FQRLWTDEDE IELLRGFLDY VTSHRGSNSS HPPDTAPFYE LIKSKLQLEF NKNQLVEKLR  120
RLKKKYRNVM SKISSGKEVF FKSPHDQSTF EISRKIWNQT GKIIGFEDNN VMDFEETNAN  180
TTNGNYFNSP GGSNPIEVDS ENGVERRLTM SSGSRKRSRS RIGKIEEDSK PVIDGNIPNT  240
AAASNVNLNE PATAVIGGNI GVLIEETVKS CVSPLIKEMM NGTTSMMMAA MGGGGGIGGG  300
GGGHGFGSLS PMFTRPLGYG VEGGGGNKAV NDERWRKQQI LELEVYSRRL ELVQEQIRAT  360
LHELKTMPSG LIGNTPMVYL NSIVDGCVAR IAAKLEMMQP CSSVKDRIAY GMIKDAEDKG  420
LITPGKSILI EPTSGNTGIG IAMVGAARGY KVVITLPASV SIERRIILLA LGAEVHLTDP  480
KKGVMGVIVK AEELLSKTPD GHILEQFRNP SNPQSHYEAT GPEIWRDSAE KVDILVVGVG  540
TGGTISGVGK FLKEKNQEVK VYGVEPAESA VLSGGQPGPH GIQGIGAGLI PDNLDFSVLD  600
EVIQVTSVEA IETAKLLALK EGLLVGISSG AAAAAAIKVA KRPENAGKLI VVVFPSGGER  660
YLSTPMFDSI RRIIAYLAWS ARSKMTSMVF LLCVMQQLIG NTPMVYLNNV VDGCVARIAA  720
KLEMMEPCSS VKERIAYGMI KDAEDKGLIT PGKSTLIEPT SGNTGIGLAF VGAARGYKVV  780
LTLPQTMSLE RKTVLLALGA EVHLTDPRRG VKGLYEKANE ILSKTPDGII LHQFKNPANP  840
QTHYRTTGPE IWRDSAGEVD ILVGGVGTGG TISGAGKFLK EKKKDLKVYA VEPKESAVLS  900
GCKPRLHLIQ GIGAGIIPDN LDFSIVDEII QVPGVEAIET ARLIALKEGL LVGISSGAAA  960
SAAIKVAKRP ENAGKLIVVV FPSGGERYIS TELFDSVRHE AESMTFE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4aec_A	1e-136	369	1007	117	429	CYSTEINE SYNTHASE, MITOCHONDRIAL
4aec_B	1e-136	369	1007	117	429	CYSTEINE SYNTHASE, MITOCHONDRIAL
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	215	220	KRSRSR

Functional Description ? help Back to Top
Source	Description
UniProt	Acts as a cysteine synthase. The cysteine synthesis reaction is more efficient than the cyanoalanine synthase activity. {ECO:0000269\|PubMed:18223034}.

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
Swissprot	Q9S6Z7	1e-172	CYSD1_ARATH; Bifunctional L-3-cyanoalanine synthase/cysteine synthase D1
TrEMBL	A0A0D3CMQ7	0.0	A0A0D3CMQ7_BRAOL; Uncharacterized protein
STRING	Bo5g146880.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3098	27	64

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G04930.1	1e-156	DNA-binding storekeeper protein-related transcriptional regulator

Publications ? help Back to Top
Yamaguchi Y,Nakamura T,Kusano T,Sano H Three Arabidopsis genes encoding proteins with differential activities for cysteine synthase and beta-cyanoalanine synthase. Plant Cell Physiol., 2000. 41(4): p. 465-76 [PMID:10845460] Hatzfeld Y, et al. beta-Cyanoalanine synthase is a mitochondrial cysteine synthase-like protein in spinach and Arabidopsis. Plant Physiol., 2000. 123(3): p. 1163-71 [PMID:10889265] Wirtz M,Droux M Synthesis of the sulfur amino acids: cysteine and methionine. Photosyn. Res., 2005. 86(3): p. 345-62 [PMID:16307301] Kempema LA,Cui X,Holzer FM,Walling LL Arabidopsis transcriptome changes in response to phloem-feeding silverleaf whitefly nymphs. Similarities and distinctions in responses to aphids. Plant Physiol., 2007. 143(2): p. 849-65 [PMID:17189325] Watanabe M, et al. Physiological roles of the beta-substituted alanine synthase gene family in Arabidopsis. Plant Physiol., 2008. 146(1): p. 310-20 [PMID:18024555] Heeg C, et al. Analysis of the Arabidopsis O-acetylserine(thiol)lyase gene family demonstrates compartment-specific differences in the regulation of cysteine synthesis. Plant Cell, 2008. 20(1): p. 168-85 [PMID:18223034] Wirtz M,Heeg C,Samami AA,Ruppert T,Hell R Enzymes of cysteine synthesis show extensive and conserved modifications patterns that include N(α)-terminal acetylation. Amino Acids, 2010. 39(4): p. 1077-86 [PMID:20658158] García I, et al. Mitochondrial beta-cyanoalanine synthase is essential for root hair formation in Arabidopsis thaliana. Plant Cell, 2010. 22(10): p. 3268-79 [PMID:20935247] Guelette BS,Benning UF,Hoffmann-Benning S Identification of lipids and lipid-binding proteins in phloem exudates from Arabidopsis thaliana. J. Exp. Bot., 2012. 63(10): p. 3603-16 [PMID:22442409] Gotor C, et al. Signaling in the plant cytosol: cysteine or sulfide? Amino Acids, 2015. 47(10): p. 2155-64 [PMID:24990521]