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

Rsa1.0_00285.1_g00007.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

MYB_related

Protein Properties

Length: 500aa MW: 55535.7 Da PI: 10.0499

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00285.1_g00007.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	25	4.5e-08	434	482	2	47
SSS-HHHHHHHHHHHHHTTTT....-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 2 grWTteEdellvdavkqlGgg....tWktIartmgkgRtlkqcksrwqky 47 ++WT+ E++++ +vk+ + Wk ++ ++ +R++k+++s+++++ Rsa1.0_00285.1_g00007.1 434 KSWTAKEEQKFRSLVKKNPLSnrdgFWKYASKAFP-RRSEKDVISYYYNV 482 58**************98899********.**********96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00433	2.4E-5	1	343	IPR001241	DNA topoisomerase, type IIA
PRINTS	PR01159	2.7E-13	38	60	IPR000565	DNA topoisomerase, type IIA, subunit B
SuperFamily	SSF54211	7.59E-37	38	202	IPR020568	Ribosomal protein S5 domain 2-type fold
CDD	cd00822	2.04E-52	38	206	No hit	No description
Gene3D	G3DSA:3.30.230.10	1.8E-45	38	206	IPR014721	Ribosomal protein S5 domain 2-type fold, subgroup
Pfam	PF00204	4.8E-43	39	206	IPR013506	DNA topoisomerase, type IIA, subunit B, domain 2
PRINTS	PR01159	2.7E-13	129	145	IPR000565	DNA topoisomerase, type IIA, subunit B
PRINTS	PR01159	2.7E-13	177	191	IPR000565	DNA topoisomerase, type IIA, subunit B
PRINTS	PR01159	2.7E-13	191	211	IPR000565	DNA topoisomerase, type IIA, subunit B
PRINTS	PR01159	2.7E-13	359	368	IPR000565	DNA topoisomerase, type IIA, subunit B
SMART	SM00717	1.1E-4	432	485	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	5.69E-7	433	490	IPR009057	Homeodomain-like
Pfam	PF00249	2.1E-6	434	482	IPR001005	SANT/Myb domain
PROSITE profile	PS50090	6.226	435	483	IPR017877	Myb-like domain
Gene3D	G3DSA:1.10.10.60	3.6E-5	435	482	IPR009057	Homeodomain-like
CDD	cd00167	4.90E-6	435	483	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006265	Biological Process	DNA topological change
GO:0003677	Molecular Function	DNA binding
GO:0003918	Molecular Function	DNA topoisomerase type II (ATP-hydrolyzing) activity
GO:0005524	Molecular Function	ATP binding

Sequence ? help Back to Top
Protein Sequence Length: 500 aa Download sequence Send to blast
MNCGTVRKVS RQDIKLVKGH MEKEDNDDLY KQCVNAGGGS SQYISWLSGD KRPLHDDVLG 60 FRKEINDITI DIALQWYADV YSDTVLGYAN GVYTVDGGAH IDGVKASITR TFNILAKKKK 120 LVKDINLSGE HIREGLTCIV SVVVPNPKSG GQTKTRLGNS KIRETVDKSV QEYLTEYFEL 180 HPNVFECIYS KSFTAYKNAL AMRERKVISR PKSVSASRTI PQNPTNSSSG KFGESSGGAA 240 KNGDDRRIQS KRTLEQPRSS GTVSTAPPER SLGNTSDSSF DKKRQKVVPS SHPRSSSRQT 300 VAAAASNRPN RKDVGVKIPG SNKTKPVIPV GPGFQAEIPV WIAPTKKGKF YGSPGDSDTL 360 RWLGAGVWPT YSLKKKVYYK KIGEGRPDSC PCPTPGSTDC VKLHIKEARE LLEKETGGAF 420 YTWKFDEMGE VGSKSWTAKE EQKFRSLVKK NPLSNRDGFW KYASKAFPRR SEKDVISYYY 480 NVFLNHRNTD DDHYGDFLAG

Sequence ? help Back to Top

Protein Sequence Length: 500 aa Download sequence Send to blast

MNCGTVRKVS RQDIKLVKGH MEKEDNDDLY KQCVNAGGGS SQYISWLSGD KRPLHDDVLG  60
FRKEINDITI DIALQWYADV YSDTVLGYAN GVYTVDGGAH IDGVKASITR TFNILAKKKK  120
LVKDINLSGE HIREGLTCIV SVVVPNPKSG GQTKTRLGNS KIRETVDKSV QEYLTEYFEL  180
HPNVFECIYS KSFTAYKNAL AMRERKVISR PKSVSASRTI PQNPTNSSSG KFGESSGGAA  240
KNGDDRRIQS KRTLEQPRSS GTVSTAPPER SLGNTSDSSF DKKRQKVVPS SHPRSSSRQT  300
VAAAASNRPN RKDVGVKIPG SNKTKPVIPV GPGFQAEIPV WIAPTKKGKF YGSPGDSDTL  360
RWLGAGVWPT YSLKKKVYYK KIGEGRPDSC PCPTPGSTDC VKLHIKEARE LLEKETGGAF  420
YTWKFDEMGE VGSKSWTAKE EQKFRSLVKK NPLSNRDGFW KYASKAFPRR SEKDVISYYY  480
NVFLNHRNTD DDHYGDFLAG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6gau_A	4e-28	38	250	256	478	DNA gyrase subunit B,DNA gyrase subunit A
6gau_B	4e-28	38	250	256	478	DNA gyrase subunit B,DNA gyrase subunit A
6gav_A	4e-28	38	250	256	478	DNA gyrase subunit B,DNA gyrase subunit A
6gav_B	4e-28	38	250	256	478	DNA gyrase subunit B,DNA gyrase subunit A
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Functional Description ? help Back to Top
Source	Description
UniProt	A type II topoisomerase that negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner. {ECO:0000269\|PubMed:15136745}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00285.1_g00007.1

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_018476289.1	0.0	PREDICTED: uncharacterized protein LOC108847527
Refseq	XP_018476290.1	0.0	PREDICTED: uncharacterized protein LOC108847527
Swissprot	Q9SS38	5e-73	GYRBP_ARATH; DNA gyrase subunit B, chloroplastic
TrEMBL	A0A3P6AJ00	0.0	A0A3P6AJ00_BRAOL; DNA topoisomerase 2
STRING	Bo3g002620.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM11639	4	5

Publications ? help Back to Top
Wall MK,Mitchenall LA,Maxwell A Arabidopsis thaliana DNA gyrase is targeted to chloroplasts and mitochondria. Proc. Natl. Acad. Sci. U.S.A., 2004. 101(20): p. 7821-6 [PMID:15136745]