PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Lus10038823 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum
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Family | bHLH | ||||||||
Protein Properties | Length: 982aa MW: 108858 Da PI: 9.9682 | ||||||||
Description | bHLH family protein | ||||||||
Gene Model |
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Signature Domain? help Back to Top | |||||||
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No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | HLH | 38.5 | 2e-12 | 74 | 124 | 2 | 55 |
HHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 2 rrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 r++h +Er+RR+++N+ + Lr+l+P+ + k+ + a+i +v+YI++Lq Lus10038823 74 RMSHITVERNRREQMNEHLGVLRSLMPSF---YVKRGDQASIIGGVVDYINELQ 124 89**************************9...9********************9 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50888 | 14.335 | 72 | 123 | IPR011598 | Myc-type, basic helix-loop-helix (bHLH) domain |
SuperFamily | SSF47459 | 1.19E-15 | 73 | 146 | IPR011598 | Myc-type, basic helix-loop-helix (bHLH) domain |
CDD | cd00083 | 1.07E-10 | 74 | 127 | No hit | No description |
Pfam | PF00010 | 1.5E-9 | 74 | 124 | IPR011598 | Myc-type, basic helix-loop-helix (bHLH) domain |
Gene3D | G3DSA:4.10.280.10 | 1.2E-11 | 74 | 125 | IPR011598 | Myc-type, basic helix-loop-helix (bHLH) domain |
SMART | SM00353 | 3.8E-9 | 78 | 129 | IPR011598 | Myc-type, basic helix-loop-helix (bHLH) domain |
SuperFamily | SSF88946 | 8.79E-30 | 669 | 816 | IPR013325 | RNA polymerase sigma factor, region 2 |
Gene3D | G3DSA:1.10.601.10 | 5.9E-24 | 687 | 703 | No hit | No description |
Gene3D | G3DSA:1.10.601.10 | 5.9E-24 | 741 | 816 | No hit | No description |
TIGRFAMs | TIGR02937 | 2.1E-24 | 745 | 969 | IPR014284 | RNA polymerase sigma-70 like domain |
Pfam | PF04542 | 1.5E-9 | 749 | 815 | IPR007627 | RNA polymerase sigma-70 region 2 |
PRINTS | PR00046 | 1.8E-11 | 776 | 789 | IPR000943 | RNA polymerase sigma-70 |
PRINTS | PR00046 | 1.8E-11 | 800 | 808 | IPR000943 | RNA polymerase sigma-70 |
SuperFamily | SSF88659 | 1.48E-8 | 820 | 872 | IPR013324 | RNA polymerase sigma factor, region 3/4 |
Gene3D | G3DSA:1.10.10.10 | 1.9E-11 | 822 | 874 | IPR011991 | Winged helix-turn-helix DNA-binding domain |
Pfam | PF04539 | 3.0E-11 | 835 | 895 | IPR007624 | RNA polymerase sigma-70 region 3 |
SuperFamily | SSF88659 | 2.8E-17 | 908 | 979 | IPR013324 | RNA polymerase sigma factor, region 3/4 |
CDD | cd06171 | 2.41E-7 | 910 | 968 | No hit | No description |
Gene3D | G3DSA:1.10.10.10 | 7.3E-21 | 913 | 980 | IPR011991 | Winged helix-turn-helix DNA-binding domain |
Pfam | PF04545 | 3.9E-14 | 916 | 969 | IPR007630 | RNA polymerase sigma-70 region 4 |
PRINTS | PR00046 | 1.8E-11 | 920 | 932 | IPR000943 | RNA polymerase sigma-70 |
PRINTS | PR00046 | 1.8E-11 | 941 | 956 | IPR000943 | RNA polymerase sigma-70 |
PRINTS | PR00046 | 1.8E-11 | 956 | 967 | IPR000943 | RNA polymerase sigma-70 |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0006352 | Biological Process | DNA-templated transcription, initiation | ||||
GO:0009658 | Biological Process | chloroplast organization | ||||
GO:0010114 | Biological Process | response to red light | ||||
GO:0010207 | Biological Process | photosystem II assembly | ||||
GO:0010218 | Biological Process | response to far red light | ||||
GO:0045893 | Biological Process | positive regulation of transcription, DNA-templated | ||||
GO:0071483 | Biological Process | cellular response to blue light | ||||
GO:0005739 | Cellular Component | mitochondrion | ||||
GO:0009507 | Cellular Component | chloroplast | ||||
GO:0001053 | Molecular Function | plastid sigma factor activity | ||||
GO:0003677 | Molecular Function | DNA binding | ||||
GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding | ||||
GO:0003899 | Molecular Function | DNA-directed RNA polymerase activity | ||||
GO:0046983 | Molecular Function | protein dimerization activity |
Sequence ? help Back to Top |
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Protein Sequence Length: 982 aa Download sequence Send to blast |
MSEYFLEGCS EFGGSGADDL FAIFESLDRA NNTHTAGKEE EEGQQQPKSK KRKIAAAAAG 60 SGGCDDDVEV GGDRMSHITV ERNRREQMNE HLGVLRSLMP SFYVKRGDQA SIIGGVVDYI 120 NELQQILGSL ETKKQRKLYS TDVSSPQLPV VANNPRPSQL ISPRKSPLSP KPPSTIINLP 180 PISPRTPQPT SPYIDIVPTT TKRTSFLPSP TGSSNSSSNV MMINGGMGII SCNNNNNNND 240 VVANCKSAIA DVEVKFSGPH LILKTVSPRI PGQAVKIIAA LKDLSLEILH VNVDTVEESL 300 LVNFFTIKIG IECQLSAEEL AQQIQQTFFL PRHPPPKRHR MTTVKVCLMN LYPSAAVSTL 360 FFFDCRFEIV GCCNGLFCIA NSVRWRATQL ILWNPSTLET KVLPKSINGF EFDSEHRFFF 420 LSIPTTSAAG NSPEFESPVN LRAKISTGFL PVGRIGEFVR GTSLCQSVYE MALSVMGVVT 480 VSSSASRTPV GITARISSNG SSSSSSSSLS SSSSLPSRRS VIVAFKIDKL DHIASSLVSP 540 DSKAKKGRPR KVKGTPVVPT LDNLDYYNEA AAKLETLYKL SPPSSDVEEE EEVGTRERKR 600 KARDGLKAGR VVVRNWEKKP KRLSLDGRVA LKKINHGNVG CGKRRSVVNK DDDEEVGKIE 660 ELVRQYTGST SMASLDWKKM KIPPVLTSSE HTWLFNLMQP MKAVMQLKDE LQKTMGKVPT 720 DVQLADAANS TVFEIRRQLE TGQAARNKLI KHNLRLVLFV INKYFSDFAN SSRFQDLCQA 780 GAQGLITAID RFEPKRKLKL STYGLFWIRH SIIRSMTVSS FIHVPFGLES IRADIQKKKL 840 QLLVELQREP NDEEIAERVG ISMERYREVI RAGRPVLSLH SRNPVTQVEL INEIADMNGG 900 ENRRRPALLR LALDDVLDSL KPKESLVIRQ RYGLDGKGDR SLSEIAANLN ISREMVRKHE 960 VKALMKLKHP ARVDHLRQYV V* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4ljz_F | 1e-31 | 732 | 980 | 267 | 520 | RNA polymerase sigma factor RpoD |
4ljz_L | 1e-31 | 732 | 980 | 267 | 520 | RNA polymerase sigma factor RpoD |
4lk0_F | 1e-31 | 732 | 980 | 267 | 520 | RNA polymerase sigma factor RpoD |
4lk0_L | 1e-31 | 732 | 980 | 267 | 520 | RNA polymerase sigma factor RpoD |
4xsx_F | 1e-31 | 732 | 980 | 267 | 520 | RNA polymerase sigma factor RpoD |
4xsx_L | 1e-31 | 732 | 980 | 267 | 520 | RNA polymerase sigma factor RpoD |
4xsy_F | 1e-31 | 732 | 980 | 267 | 520 | RNA polymerase sigma factor RpoD |
4xsy_L | 1e-31 | 732 | 980 | 267 | 520 | RNA polymerase sigma factor RpoD |
4xsz_F | 1e-31 | 732 | 980 | 267 | 520 | RNA polymerase sigma factor RpoD |
4xsz_L | 1e-31 | 732 | 980 | 267 | 520 | RNA polymerase sigma factor RpoD |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 73 | 84 | RMSHITVERNRR |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Essential protein. Sigma factors are initiation factors that promote the attachment of plastid-encoded RNA polymerase (PEP) to specific initiation sites (e.g. psbA and psbD) and are then released. Essential for blue light-mediated transcription of psbD, which encodes the photosystem II reaction center protein D2. Plays a role in reproduction. Required during female gametophyte development (PubMed:21123745). {ECO:0000269|PubMed:12805603, ECO:0000269|PubMed:14976253, ECO:0000269|PubMed:18532976, ECO:0000269|PubMed:21123745}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Lus10038823 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Induced by blue light illumination (470 nm), especially after dark adaptation. Induction is mediated through both cryptochrome 1 and cryptochrome 2 at lower light intensities and mainly through cryptochrome 1 at higher light intensities. {ECO:0000269|PubMed:10946105, ECO:0000269|PubMed:11959137, ECO:0000269|PubMed:14976253, ECO:0000269|PubMed:18532976}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_002513587.1 | 0.0 | RNA polymerase sigma factor sigE, chloroplastic/mitochondrial | ||||
Swissprot | Q9ZNX9 | 0.0 | SIGE_ARATH; RNA polymerase sigma factor sigE, chloroplastic/mitochondrial | ||||
TrEMBL | B9RIL8 | 0.0 | B9RIL8_RICCO; RNA polymerase sigma factor rpoD, putative | ||||
STRING | Lus10038823 | 0.0 | (Linum usitatissimum) |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT5G53210.1 | 2e-35 | bHLH family protein |
Link Out ? help Back to Top | |
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Phytozome | Lus10038823 |