PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID 676737644
Organism
Sisymbrium irio
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium
Family MYB_related
Protein Properties Length: 869aa    MW: 98962.2 Da    PI: 5.0273
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
676737644genomeVEGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding41.14.2e-13390441147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT.....TTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmg.....kgRtlkqcksrwqky 47 
                      +++WT+eE+e l+ +++++G+g+WktI          kgR+  ++k++w+++
        676737644 390 KNKWTKEEEEALLAGIAKHGSGSWKTIVDDPDfsaqlKGRSNINLKDKWRNL 441
                      689***********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005260.025202267IPR005818Linker histone H1/H5, domain H15
SuperFamilySSF467857.71E-5204279IPR011991Winged helix-turn-helix DNA-binding domain
Gene3DG3DSA:1.10.10.102.4E-4208266IPR011991Winged helix-turn-helix DNA-binding domain
PROSITE profilePS5129413.573385446IPR017930Myb domain
SMARTSM007172.0E-8389444IPR001005SANT/Myb domain
SuperFamilySSF466895.89E-15389452IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.2E-13389441IPR009057Homeodomain-like
PfamPF002499.9E-9390441IPR001005SANT/Myb domain
CDDcd116607.95E-17392442No hitNo description
SMARTSM005267.9E-6475545IPR005818Linker histone H1/H5, domain H15
PROSITE profilePS5150417.471481550IPR005818Linker histone H1/H5, domain H15
SuperFamilySSF467856.53E-8488552IPR011991Winged helix-turn-helix DNA-binding domain
Gene3DG3DSA:1.10.10.107.4E-7488552IPR011991Winged helix-turn-helix DNA-binding domain
SMARTSM006581.8E-82727868IPR005570RNA polymerase, Rpb8
Gene3DG3DSA:2.40.50.1403.2E-50728868IPR012340Nucleic acid-binding, OB-fold
SuperFamilySSF502491.88E-42729868IPR012340Nucleic acid-binding, OB-fold
PfamPF038701.1E-49732868IPR005570RNA polymerase, Rpb8
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006334Biological Processnucleosome assembly
GO:0006351Biological Processtranscription, DNA-templated
GO:0000418Cellular ComponentDNA-directed RNA polymerase IV complex
GO:0000419Cellular ComponentDNA-directed RNA polymerase V complex
GO:0000786Cellular Componentnucleosome
GO:0005665Cellular ComponentDNA-directed RNA polymerase II, core complex
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 869 aa     Download sequence    Send to blast
MGQTKRWEVR RSGKQRESVS SSSSTTAIGF SEAPSIFLQE SIVSRNAKED LIISAISTIN  60
DENGVDIDRI YNFLEQSSFG ESYLYSKVMD RILVERYDLP EDYMKVLEED LTNLVSQNKL  120
EKSSFGESYL DPRVMDRILV EGYDLPEDYM KVLEEELTNL VSQNKLEKVE TRYRIIDGTV  180
TQPQVSSEEP LEKTEAAADD SSVPGYTNED LIISAISTIN DENGVDIDRL YSFFEEGYDL  240
PEDYMKVLEE ELTNLVSQNK LEKVETRYRI IDGAVTQPQE VVGPPVLSEE LVERTEVAAK  300
ALAVSVNKEF EAKEASELAD TAQKLLEENA LVLKANFRRK ALPFGSGSMK MSSRTSSLID  360
LRYLELRAKE ESKASERETK KALEMNGGRK NKWTKEEEEA LLAGIAKHGS GSWKTIVDDP  420
DFSAQLKGRS NINLKDKWRN LNYRAMTMKE KSNRGSLNKS AYVSVSPAKT SSQLVSKDMS  480
YNESWCNAIV FEALSTINDE NGSDLSEILR FIEERQEVPQ NFRELLSNSL SLLVSQDKLE  540
KLRNRYKIST RKAMNDSMIL KTSQESAVEV AANKEPNRIK EAVEEISFQE WREKPQNCRE  600
FVNEILTVLI SRGKLDKNLN RHKISEIEKK VFEVAPEIVA AKLAESDYKS LVAAEAVKEA  660
QLMQKLAEES QLMLELCLEI HEECNLKNPN CISIHHHYLH HPHLPHHPHL PHHRHYLSLC  720
CLQMASNITL FEDIFVVDKL DPDGKKFDKV TRIEARSHNL EMYMQLDVNT EVYPMAVGDK  780
FTLAMAATLN LDGTPDTGYF TPGAKKTLAD KYEYIMHGKL YKITERDGKT PKAELYVSFG  840
GLLMLLQGDP AHISHFELDQ RLFLLMRKL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2f3i_A4e-377308695148DNA-directed RNA polymerases I, II, and III 17.1 kDa polypeptide
5flm_H4e-377308695148DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC3
5iy6_H4e-377308695148DNA-directed RNA polymerase II subunit RPB8
5iy7_H4e-377308695148DNA-directed RNA polymerase II subunit RPB8
5iy8_H4e-377308695148DNA-directed RNA polymerase II subunit RPB8
5iy9_H4e-377308695148DNA-directed RNA polymerase II subunit RPB8
5iya_H4e-377308695148DNA-directed RNA polymerase II subunit RPB8
5iyb_H4e-377308695148DNA-directed RNA polymerase II subunit RPB8
5iyc_H4e-377308695148DNA-directed RNA polymerase II subunit RPB8
5iyd_H4e-377308695148DNA-directed RNA polymerase II subunit RPB8
5oik_H4e-377308695148Uncharacterized protein
6drd_H4e-377308695148DNA-directed RNA polymerases I, II, and III subunit RPABC3
6exv_H4e-377308695148DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC3
6gmh_H4e-377308695148DNA-directed RNA polymerases I, II, and III subunit RPABC3
6gml_H4e-377308695148DNA-directed RNA polymerases I, II, and III subunit RPABC3
6o9l_H4e-377308695148DNA-directed RNA polymerases I, II, and III subunit RPABC3
Cis-element ? help Back to Top
SourceLink
PlantRegMap676737644
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1190160.0AK119016.1 Arabidopsis thaliana At3g59600 mRNA for unknown protein, complete cds, clone: RAFL21-34-F06.
GenBankAY0860020.0AY086002.1 Arabidopsis thaliana clone 20583 mRNA, complete sequence.
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM1668455
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72740.24e-38MYB_related family protein