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PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | XP_009150395.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
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Family | Trihelix | ||||||||
Protein Properties | Length: 907aa MW: 100034 Da PI: 8.5061 | ||||||||
Description | Trihelix 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 | trihelix | 62.1 | 1.3e-19 | 815 | 895 | 1 | 86 |
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 +W+ +ev++ i++r e+++r++ k +++lWee+s++++++g++rsp qCk+ w +l ++y+++k+ e+++ ++++++++++ XP_009150395.1 815 KWKPEEVKKVIRMRGELHSRFQVVKGRMALWEEISSNLSAEGINRSPGQCKSLWASLIQKYEECKADERSK-----TSWSHYEDMN 895 7********************************************************************95.....35999*9996 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:3.60.15.10 | 1.0E-67 | 112 | 362 | IPR001279 | Metallo-beta-lactamase |
SuperFamily | SSF56281 | 2.97E-72 | 113 | 527 | IPR001279 | Metallo-beta-lactamase |
SMART | SM00849 | 5.1E-25 | 125 | 322 | IPR001279 | Metallo-beta-lactamase |
Pfam | PF12706 | 8.7E-11 | 137 | 272 | IPR001279 | Metallo-beta-lactamase |
Pfam | PF07521 | 5.0E-7 | 467 | 499 | IPR011108 | Zn-dependent metallo-hydrolase, RNA specificity domain |
PROSITE profile | PS50090 | 8.107 | 808 | 872 | IPR017877 | Myb-like domain |
Gene3D | G3DSA:1.10.10.60 | 2.6E-5 | 809 | 874 | IPR009057 | Homeodomain-like |
Pfam | PF13837 | 4.6E-17 | 813 | 897 | No hit | No description |
CDD | cd12203 | 3.54E-22 | 814 | 879 | No hit | No description |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0009658 | Biological Process | chloroplast organization | ||||
GO:0009942 | Biological Process | longitudinal axis specification | ||||
GO:0060918 | Biological Process | auxin transport | ||||
GO:0009507 | Cellular Component | chloroplast | ||||
GO:0003677 | Molecular Function | DNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 907 aa Download sequence Send to blast |
MKPAASLHGY PSSPIYFDAR RPVPTPPSKM AAFSALSLSP YSFTFRQSSP VRSTVSCSVT 60 SPPASSGTSS SSSSSNKTPR RRSGRLEGAG KSMEDSVKRK MEQFYEGTDG PPLRVLPIGG 120 LGEIGMNCML VGNYDRYILI DAGIMFPDYD DPGVQKIMPD TGFIRRWKHK IEAVVITHGH 180 EDHIGALPWV IPALDSNTPI FASSFTMELI KKRLKEHGIF VQSRLKTFNT RRRFMAGPFE 240 IEPITVTHSI PDCSGLVLRC ADGNILHTGD WKIDEAPLDG KVFDREALEE LSKEGVTLMM 300 SDSTNVLSPG RTTSEKVVAD ALVRNVMAAK GRVITTQFAS NIHRLGSIKA AADLTGRKLV 360 FVGMSLRTYL EAAWKDGKAP IDPSSLVKVE DIEAYSPKDL LIVTTGSQAE PRAALNLASY 420 GSSHAFKLTK EDIILYSAKV IPGNESRVMK MMNRLADIGP KIVMGKNEML HTSGHAYRGE 480 LEEVLKIVKP QHFLPIHGEL LFLKEHELLG KSTGIRHTTV IKNGEMLGVS HLRNRRVLSN 540 GFSSLGRENL QLMYSDGDKA FGTASELCID ERLRISSDGI IVLSMEIMRP GASENTLKGK 600 IRITTRCMWL DKGRLLDALH KAAHAALSSC PVNCPLSHME RTVSEVLRKI VRKYSGKRPE 660 VIAIAMENPM AVRADEVSAR MSGDPNLGSG VAALRKVVEG NHKRNRTKKA PSQEEAGEII 720 DSAGLLAEEG TASSTYTEGA EDVPVRSSSE ESDDFWKSFI NPSSPPSPDE TKNVDKSPDA 780 ETKTEDSESS REEEDDDNTS DSQTKSSTKR VRRNKWKPEE VKKVIRMRGE LHSRFQVVKG 840 RMALWEEISS NLSAEGINRS PGQCKSLWAS LIQKYEECKA DERSKTSWSH YEDMNSILSE 900 LDTPAPK |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5a0t_A | 8e-87 | 113 | 667 | 19 | 560 | RIBONUCLEASE J |
5a0t_B | 8e-87 | 113 | 667 | 19 | 560 | RIBONUCLEASE J |
5a0v_A | 8e-87 | 113 | 667 | 19 | 560 | RIBONUCLEASE J |
5a0v_B | 8e-87 | 113 | 667 | 19 | 560 | RIBONUCLEASE J |
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Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Bra.4977 | 0.0 | flower| leaf| root |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: During the early stages of embryo development, first observed at the transition stage. In the heart and torpedo stages, predominantly present in the upper part of embryos. In seedlings, strongly expressed in shoot meristems, hypocotyls, in the vascular bundles of cotyledons, and in the veins of mature leaves. In reproductive organs, detected in inflorescences, especially in sepals, filaments, and stigmas, as well as in mature siliques and seeds. {ECO:0000269|PubMed:25871650}. | |||||
Uniprot | TISSUE SPECIFICITY: Moslty expressed in inflorescences, seedlings, leaves, flowers and flower buds, and, to a lower extent, in stems, siliques and roots. {ECO:0000269|PubMed:25871650}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Essential protein required during embryogenesis, especially in initiating and maintaining the organization of shoot apical meristems (SAMs), cotyledons, and hypocotyls (PubMed:15266054, PubMed:25871650). Involved in auxin-mediated pathways during embryogenesis (PubMed:25871650). RNase that has both endonuclease and 5'-3' exonuclease activities. Involved in RNA surveillance to prevent overaccumulation of antisense RNA (PubMed:22033332). Probably involved in maturation of rRNA and in some organisms also mRNA maturation and/or decay (By similarity). {ECO:0000250|UniProtKB:Q72JJ7, ECO:0000269|PubMed:15266054, ECO:0000269|PubMed:22033332, ECO:0000269|PubMed:25871650}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | XP_009150395.1 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: By light. {ECO:0000269|PubMed:25871650}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AK221272 | 0.0 | AK221272.1 Arabidopsis thaliana mRNA for putative protein, complete cds, clone: RAFL24-15-P14. | |||
GenBank | BT004210 | 0.0 | BT004210.1 Arabidopsis thaliana clone RAFL16-01-C03 (R50172) unknown protein (At5g63420) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_009150395.1 | 0.0 | PREDICTED: uncharacterized protein LOC103873754 | ||||
Refseq | XP_013642983.1 | 0.0 | uncharacterized protein LOC106347909 | ||||
Swissprot | Q84W56 | 0.0 | RNJ_ARATH; Ribonuclease J | ||||
TrEMBL | M4FC13 | 0.0 | M4FC13_BRARP; Uncharacterized protein | ||||
STRING | Bra038629.1-P | 0.0 | (Brassica rapa) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM9539 | 26 | 34 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT5G63420.1 | 0.0 | Trihelix family protein |
Publications ? help Back to Top | |||
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