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

CA06g18030

Organism

Capsicum annuum

Taxonomic ID

4072

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Capsiceae; Capsicum

Family

MYB_related

Protein Properties

Length: 1041aa MW: 117341 Da PI: 6.3856

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
CA06g18030	genome	PEP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	34.9	3.6e-11	986	1030	3	47
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 +WT+eE+ l++ + + +G+g+W++I+r + Rt+ q+ + qky CA06g18030 986 PWTKEEHRLFLLGLETYGKGDWRSISRNIVISRTPSQVATHAQKY 1030 8***************************99**********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PIRSF	PIRSF005813	0	6	938	IPR011184	DNA mismatch repair MutS
Pfam	PF01624	5.3E-13	23	128	IPR007695	DNA mismatch repair protein MutS-like, N-terminal
SuperFamily	SSF53150	2.88E-5	144	309	IPR007860	DNA mismatch repair protein MutS, connector domain
Pfam	PF05188	1.3E-17	144	283	IPR007860	DNA mismatch repair protein MutS, connector domain
Gene3D	G3DSA:3.30.420.110	3.3E-4	145	272	IPR007860	DNA mismatch repair protein MutS, connector domain
Gene3D	G3DSA:1.10.1420.10	8.8E-47	293	491	No hit	No description
SuperFamily	SSF48334	1.83E-65	297	611	IPR007696	DNA mismatch repair protein MutS, core
Pfam	PF05192	1.2E-33	299	606	IPR007696	DNA mismatch repair protein MutS, core
SMART	SM00533	7.0E-102	314	642	IPR007696	DNA mismatch repair protein MutS, core
Pfam	PF05190	2.8E-19	469	565	IPR007861	DNA mismatch repair protein MutS, clamp
Gene3D	G3DSA:3.40.50.300	2.2E-71	616	859	IPR027417	P-loop containing nucleoside triphosphate hydrolase
SuperFamily	SSF52540	1.97E-49	616	860	IPR027417	P-loop containing nucleoside triphosphate hydrolase
CDD	cd03285	4.40E-145	630	859	No hit	No description
SMART	SM00534	6.5E-119	659	856	IPR000432	DNA mismatch repair protein MutS, C-terminal
Pfam	PF00488	1.0E-80	662	859	IPR000432	DNA mismatch repair protein MutS, C-terminal
PROSITE pattern	PS00486	0	740	756	IPR000432	DNA mismatch repair protein MutS, C-terminal
PROSITE profile	PS51294	17.38	979	1035	IPR017930	Myb domain
SuperFamily	SSF46689	1.72E-14	981	1036	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	6.2E-14	983	1033	IPR006447	Myb domain, plants
Gene3D	G3DSA:1.10.10.60	3.3E-10	983	1032	IPR009057	Homeodomain-like
SMART	SM00717	2.8E-12	983	1033	IPR001005	SANT/Myb domain
CDD	cd00167	3.64E-9	986	1031	No hit	No description
Pfam	PF00249	1.1E-9	986	1030	IPR001005	SANT/Myb domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006290	Biological Process	pyrimidine dimer repair
GO:0006298	Biological Process	mismatch repair
GO:0045128	Biological Process	negative regulation of reciprocal meiotic recombination
GO:0005886	Cellular Component	plasma membrane
GO:0003684	Molecular Function	damaged DNA binding
GO:0005524	Molecular Function	ATP binding
GO:0030983	Molecular Function	mismatched DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1041 aa Download sequence Send to blast
MDEKLEEQSK LPELKLDARQ AQGFLTFFKT LPKDLRAVRL FDRRDYYTAH GDDATFIAKT 60 YYHTTAALRQ LGNGVDALSS VSVSRNMFET ISRDILLERM DRTLELYEGS GSNWRLVKSG 120 TPGNFGSFED ILFANNEMQD SPAIVALAPN FDQNGCTVGL GYVDITKRVL GLAEFLDDSH 180 FTNLESALVA LGCRECLVPT ETGKSSEYRP LYDAISRCGV MVTERKKTEF KGRDLVQDLG 240 RLVKGSVEPV RDLVSGFECA AGALGCILSY AELLADDSNY GNYTVKQYNL NSYMRLDSAA 300 MRALNVMESK SDANKNFSLF GLMNRTCTAG MGKRLLHMWL KQPLLDVDEI NCRLDLVQAF 360 VEDAALRQDL RQHLKRISDI ERLTRNLERK RAGLLHVVKL YQSSIRIPYI KSVLERYDGQ 420 FATLIRERYI ESLEKWSDDH HLNKFTALVE TAVDLDQLEN GEYMISSAYD PSLSALKDEQ 480 ETLEQQIHYL HKQTANDLDL PMDKSLKLDK GTQFGHVFRI TKKEEPKVRR QLNSHYIVLE 540 TRKDGVKFTN TKLKKLGDRY QKIVDEYKSC QKELVARVVQ TVASFSEVFE GIAGSLSELD 600 VLLSFADLAS SCPTAYTRPN ISPPDVGDIV LEGCRHPCVE AQDWVNFIPN DCRLVRGESW 660 FQIITGPNMG GKSTYIRQVG VNVLMAQVGS FIPCDNATIS IRDCIFARVG AGDCQLRGVS 720 TFMQEMLETA SILKGATNRS LIIIDELGRG TSTYDGFGLA WAICEHIVEE IKAPTLFATH 780 FHELTALANE NGNNGHKQIA GVANFHVSAH IDSSSRKLTM LYKVQPGACD QSFGIHVAEF 840 ANFPQSVVAL ARAKASELED FSPNTIMPND CKEAASKRKR EFDPHDVSRG TARARQFLQD 900 FTQFPLDKMD LDEALQQLRK MRTNLERDAV DMDDVTAIEY GYVPIPNYTV EENSYGYSRV 960 SRDDWQSNGN EFAETAQCPE RRKGTPWTKE EHRLFLLGLE TYGKGDWRSI SRNIVISRTP 1020 SQVATHAQKY FNRLKKNQHP *

Sequence ? help Back to Top

Protein Sequence Length: 1041 aa Download sequence Send to blast

MDEKLEEQSK LPELKLDARQ AQGFLTFFKT LPKDLRAVRL FDRRDYYTAH GDDATFIAKT  60
YYHTTAALRQ LGNGVDALSS VSVSRNMFET ISRDILLERM DRTLELYEGS GSNWRLVKSG  120
TPGNFGSFED ILFANNEMQD SPAIVALAPN FDQNGCTVGL GYVDITKRVL GLAEFLDDSH  180
FTNLESALVA LGCRECLVPT ETGKSSEYRP LYDAISRCGV MVTERKKTEF KGRDLVQDLG  240
RLVKGSVEPV RDLVSGFECA AGALGCILSY AELLADDSNY GNYTVKQYNL NSYMRLDSAA  300
MRALNVMESK SDANKNFSLF GLMNRTCTAG MGKRLLHMWL KQPLLDVDEI NCRLDLVQAF  360
VEDAALRQDL RQHLKRISDI ERLTRNLERK RAGLLHVVKL YQSSIRIPYI KSVLERYDGQ  420
FATLIRERYI ESLEKWSDDH HLNKFTALVE TAVDLDQLEN GEYMISSAYD PSLSALKDEQ  480
ETLEQQIHYL HKQTANDLDL PMDKSLKLDK GTQFGHVFRI TKKEEPKVRR QLNSHYIVLE  540
TRKDGVKFTN TKLKKLGDRY QKIVDEYKSC QKELVARVVQ TVASFSEVFE GIAGSLSELD  600
VLLSFADLAS SCPTAYTRPN ISPPDVGDIV LEGCRHPCVE AQDWVNFIPN DCRLVRGESW  660
FQIITGPNMG GKSTYIRQVG VNVLMAQVGS FIPCDNATIS IRDCIFARVG AGDCQLRGVS  720
TFMQEMLETA SILKGATNRS LIIIDELGRG TSTYDGFGLA WAICEHIVEE IKAPTLFATH  780
FHELTALANE NGNNGHKQIA GVANFHVSAH IDSSSRKLTM LYKVQPGACD QSFGIHVAEF  840
ANFPQSVVAL ARAKASELED FSPNTIMPND CKEAASKRKR EFDPHDVSRG TARARQFLQD  900
FTQFPLDKMD LDEALQQLRK MRTNLERDAV DMDDVTAIEY GYVPIPNYTV EENSYGYSRV  960
SRDDWQSNGN EFAETAQCPE RRKGTPWTKE EHRLFLLGLE TYGKGDWRSI SRNIVISRTP  1020
SQVATHAQKY FNRLKKNQHP *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2o8b_A	0.0	14	925	9	915	DNA mismatch repair protein Msh2
2o8c_A	0.0	14	925	9	915	DNA mismatch repair protein Msh2
2o8d_A	0.0	14	925	9	915	DNA mismatch repair protein Msh2
2o8f_A	0.0	14	925	9	915	DNA mismatch repair protein Msh2
3thw_A	0.0	14	925	9	915	DNA mismatch repair protein Msh2
3thx_A	0.0	14	925	9	915	DNA mismatch repair protein Msh2
3thy_A	0.0	14	925	9	915	DNA mismatch repair protein Msh2
3thz_A	0.0	14	925	9	915	DNA mismatch repair protein Msh2
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Functional Description ? help Back to Top
Source	Description
UniProt	Component of the post-replicative DNA mismatch repair system (MMR). Forms three different heterodimers: MutS alpha (MSH2-MSH6 heterodimer), MutS beta (MSH2-MSH3 heterodimer) and MutS gamma (MSH2-MSH7 heterodimer) which binds to DNA mismatches thereby initiating DNA repair. MutS alpha and MutS beta recognize single base mismatches and trinucleotide insertion-deletion loops (IDL) in the DNA. MutS gamma recognizes specifically the T/G single base mismatch. Plays a role in DNA homologous recombination repair and has a broad range of anti-recombination effects. Can suppress recombination between divergent direct repeats in somatic cells and possesses an anti-recombination meiotic effect. Is involved in a UV-B-induced DNA damage response pathway. {ECO:0000269\|PubMed:10852942, ECO:0000269\|PubMed:11550901, ECO:0000269\|PubMed:12970498, ECO:0000269\|PubMed:14530450, ECO:0000269\|PubMed:16311517, ECO:0000269\|PubMed:16507082, ECO:0000269\|PubMed:17294256, ECO:0000269\|PubMed:21307385}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By UV-B. {ECO:0000269\|PubMed:21307385}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HM015771	0.0	HM015771.1 Solanum lycopersicum mismatch repair protein (MSH2) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016555933.1	0.0	PREDICTED: DNA mismatch repair protein MSH2
Swissprot	O24617	0.0	MSH2_ARATH; DNA mismatch repair protein MSH2
TrEMBL	A0A2G2ZC30	0.0	A0A2G2ZC30_CAPAN; DNA mismatch repair protein MSH2
STRING	Solyc06g069230.2.1	0.0	(Solanum lycopersicum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G08520.1	8e-31	MYB family protein

Publications ? help Back to Top
Adé J,Belzile F,Philippe H,Doutriaux MP Four mismatch repair paralogues coexist in Arabidopsis thaliana: AtMSH2, AtMSH3, AtMSH6-1 and AtMSH6-2. Mol. Gen. Genet., 1999. 262(2): p. 239-49 [PMID:10517319] Culligan KM,Hays JB Arabidopsis MutS homologs-AtMSH2, AtMSH3, AtMSH6, and a novel AtMSH7-form three distinct protein heterodimers with different specificities for mismatched DNA. Plant Cell, 2000. 12(6): p. 991-1002 [PMID:10852942] Adé J,Haffani Y,Beizile FJ Functional analysis of the Arabidopsis thaliana mismatch repair gene MSH2. Genome, 2001. 44(4): p. 651-7 [PMID:11550901] Brun F,Gonneau M,Doutriaux MP,Laloue M,Nogué F Cloning of the PpMSH-2 cDNA of Physcomitrella patens, a moss in which gene targeting by homologous recombination occurs at high frequency. Biochimie, 2001 Nov-Dec. 83(11-12): p. 1003-8 [PMID:11879728] Horwath M,Kramer W,Kunze R Structure and expression of the Zea mays mutS-homologs Mus1 and Mus2. Theor. Appl. Genet., 2002. 105(2-3): p. 423-430 [PMID:12582547] Leonard JM,Bollmann SR,Hays JB Reduction of stability of arabidopsis genomic and transgenic DNA-repeat sequences (microsatellites) by inactivation of AtMSH2 mismatch-repair function. Plant Physiol., 2003. 133(1): p. 328-38 [PMID:12970498] Wu SY,Culligan K,Lamers M,Hays J Dissimilar mispair-recognition spectra of Arabidopsis DNA-mismatch-repair proteins MSH2MSH6 (MutSalpha) and MSH2MSH7 (MutSgamma). Nucleic Acids Res., 2003. 31(20): p. 6027-34 [PMID:14530450] Emmanuel E,Yehuda E,Melamed-Bessudo C,Avivi-Ragolsky N,Levy AA The role of AtMSH2 in homologous recombination in Arabidopsis thaliana. EMBO Rep., 2006. 7(1): p. 100-5 [PMID:16311517] Lafleuriel J,Degroote F,Depeiges A,Picard G Impact of the loss of AtMSH2 on double-strand break-induced recombination between highly diverged homeologous sequences in Arabidopsis thaliana germinal tissues. Plant Mol. Biol., 2007. 63(6): p. 833-46 [PMID:17294256] Gomez RL,Galles C,Spampinato CP High-level production of MSH2 from Arabidopsis thaliana: a DNA mismatch repair system key subunit. Mol. Biotechnol., 2011. 47(2): p. 120-9 [PMID:20686871] Golubov A, et al. Microsatellite instability in Arabidopsis increases with plant development. Plant Physiol., 2010. 154(3): p. 1415-27 [PMID:20817752] Lario LD,Ramirez-Parra E,Gutierrez C,Casati P,Spampinato CP Regulation of plant MSH2 and MSH6 genes in the UV-B-induced DNA damage response. J. Exp. Bot., 2011. 62(8): p. 2925-37 [PMID:21307385] Gómez R,Spampinato CP Mismatch recognition function of Arabidopsis thaliana MutSγ. DNA Repair (Amst.), 2013. 12(4): p. 257-64 [PMID:23380521] Zmienko A,Samelak-Czajka A,Kozlowski P,Szymanska M,Figlerowicz M Arabidopsis thaliana population analysis reveals high plasticity of the genomic region spanning MSH2, AT3G18530 and AT3G18535 genes and provides evidence for NAHR-driven recurrent CNV events occurring in this location. BMC Genomics, 2016. 17(1): p. 893 [PMID:27825302] Cui W, et al. Cell cycle arrest mediated by Cd-induced DNA damage in Arabidopsis root tips. Ecotoxicol. Environ. Saf., 2017. 145: p. 569-574 [PMID:28800532] Cao X, et al. Roles of MSH2 and MSH6 in cadmium-induced G2/M checkpoint arrest in Arabidopsis roots. Chemosphere, 2018. 201: p. 586-594 [PMID:29533809] Culligan KM,Hays JB DNA mismatch repair in plants. An Arabidopsis thaliana gene that predicts a protein belonging to the MSH2 subfamily of eukaryotic MutS homologs. Plant Physiol., 1997. 115(2): p. 833-9 [PMID:9342879]