![]() |
PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
|
Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
---|---|---|---|---|---|---|---|---|---|
TF ID | GSBRNA2T00073135001 | ||||||||
Common Name | GSBRNA2T00073135001 | ||||||||
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
|
||||||||
Family | Trihelix | ||||||||
Protein Properties | Length: 1150aa MW: 126907 Da PI: 9.2364 | ||||||||
Description | Trihelix family protein | ||||||||
Gene Model |
|
Signature Domain? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | trihelix | 61.8 | 1.6e-19 | 811 | 891 | 1 | 86 |
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 +W+ +ev++ i++r e+++r++ k +++lWee+s++++++g++rsp qCk+ w +l ++y+++k+ e+++ ++++++++++ GSBRNA2T00073135001 811 KWKPEEVKKVIRMRGELHSRFQVVKGRMALWEEISSNLSAEGINRSPGQCKSLWASLIQKYEECKADERSK-----TSWSHYEDMN 891 7********************************************************************95.....35999**997 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:3.60.15.10 | 1.6E-67 | 111 | 361 | IPR001279 | Metallo-beta-lactamase |
SuperFamily | SSF56281 | 5.05E-72 | 112 | 526 | IPR001279 | Metallo-beta-lactamase |
SMART | SM00849 | 5.1E-25 | 124 | 321 | IPR001279 | Metallo-beta-lactamase |
Pfam | PF12706 | 1.2E-10 | 136 | 271 | IPR001279 | Metallo-beta-lactamase |
Pfam | PF07521 | 6.5E-7 | 466 | 498 | IPR011108 | Zn-dependent metallo-hydrolase, RNA specificity domain |
PROSITE profile | PS50090 | 8.107 | 804 | 868 | IPR017877 | Myb-like domain |
Gene3D | G3DSA:1.10.10.60 | 3.5E-5 | 805 | 870 | IPR009057 | Homeodomain-like |
Pfam | PF13837 | 9.5E-17 | 809 | 892 | No hit | No description |
CDD | cd12203 | 3.56E-22 | 810 | 875 | No hit | No description |
Gene3D | G3DSA:3.30.1200.10 | 2.6E-25 | 1049 | 1145 | IPR003746 | Protein of unknown function DUF167 |
SuperFamily | SSF69786 | 1.57E-17 | 1050 | 1136 | IPR003746 | Protein of unknown function DUF167 |
Hamap | MF_00634 | 14.538 | 1057 | 1145 | IPR003746 | Protein of unknown function DUF167 |
SMART | SM01152 | 8.3E-17 | 1057 | 1133 | IPR003746 | Protein of unknown function DUF167 |
Pfam | PF02594 | 1.4E-16 | 1061 | 1131 | IPR003746 | Protein of unknown function DUF167 |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
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 |
---|
Protein Sequence Length: 1150 aa Download sequence Send to blast |
MKPAASLHGY PSSPIYFDAR RPVPTPPSKM AAFSALSLSP YSFTFRQSSP VRSTVSCSVT 60 SPPASSGTSS SSSSNKTPRR RSGRLEGAGK SMEDSVKRKM EQFYEGTDGP PLRVLPIGGL 120 GEIGMNCMLV GNYDRYILID AGIMFPDYDD PGVQKIMPDT GFIRRWKHKI EAVVITHGHE 180 DHIGALPWVI PALDSNTPIF ASSFTMELIK KRLKEHGIFV QSRLKTFNTR RRFMAGPFEI 240 EPITVTHSIP DCSGLVLRCA DGNILHTGDW KIDEAPLDGK VFDREALEEL SKEGVTLMMS 300 DSTNVLSPGR TTSEKVVADA LVRNVMAAKG RVITTQFASN IHRLGSIKAA ADLTGRKLVF 360 VGMSLRTYLE AAWKDGKAPI DPSSLVKVED IEAYSPKDLL IVTTGSQAEP RAALNLASYG 420 SSHAFKLTKE DIILYSAKVI PGNESRVMKM MNRLADIGPK IVMGKNEMLH TSGHAYRGEL 480 EEVLKIVKPQ HFLPIHGELL FLKEHELLGK STGIRHTTVI KNGEMLGVSH LRNRRVLSNG 540 FSSLGRENLQ LMYNDGDKAF GTASELCIDE RLRISSDGII VLSMEIMRPG ASENTLKGKI 600 RITTRCMWLD KGRLLDALHK AAHAALSSCP VNCPLSHMER TVSEVLRKIV RKYSGKRPEV 660 IAIAMENPMA VRADEVSARM SGDPNLGSGV AALRKVVEGN NKRNRTKKAP SQEEAGEIID 720 SSAGLLGEVE TASSSYTEGA EDVPVRSSSE ESDDFWKSFI NPSSPPSPDE TKNVDKSPDA 780 EDSESSSEEE DDDNTSDSQT KSSTKRVRRN KWKPEEVKKV IRMRGELHSR FQVVKGRMAL 840 WEEISSNLSA EGINRSPGQC KSLWASLIQK YEECKADERS KTSWSHYEDM NNILSELDTP 900 APKKKKALSQ IGGEFGKIEE ERCRRERRIR TRARTRRRKD PTLISSFTTA STVVLMSSSL 960 KMPKRKTDRS SVLDKKKHLA RLNVSEGGKV LLKRGEGKLE RQFRMNCIGC ELFVCYRADE 1020 SLETAAFVYI VDGALSAVAA ETNPQDAPVP PCISQLDGGL VQVAIEVEDR AQRSAITRVN 1080 ADDVRVTIAA PAARGEANNE LLEFMGRVLG LRLSQMTLQR GWNSKSKLLV VEDLSARQVY 1140 EKLLEAVVS* |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5a0t_A | 4e-85 | 112 | 666 | 19 | 560 | RIBONUCLEASE J |
5a0t_B | 4e-85 | 112 | 666 | 19 | 560 | RIBONUCLEASE J |
5a0v_A | 4e-85 | 112 | 666 | 19 | 560 | RIBONUCLEASE J |
5a0v_B | 4e-85 | 112 | 666 | 19 | 560 | RIBONUCLEASE J |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
---|---|---|---|
No. | Start | End | Sequence |
1 | 927 | 937 | RIRTRARTRRR |
Expression -- UniGene ? help Back to Top | ||||||
---|---|---|---|---|---|---|
UniGene ID | E-value | Expressed in | ||||
Bna.8628 | 0.0 | microspore-derived embryo| seed |
Expression -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
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 | ||||||
---|---|---|---|---|---|---|
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 | |
---|---|
Source | Link |
PlantRegMap | GSBRNA2T00073135001 |
Regulation -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | INDUCTION: By light. {ECO:0000269|PubMed:25871650}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
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 | |||||||
---|---|---|---|---|---|---|---|
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 | A0A078HV12 | 0.0 | A0A078HV12_BRANA; BnaA06g22690D protein | ||||
STRING | Bo3g103450.1 | 0.0 | (Brassica oleracea) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM9539 | 26 | 34 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT5G63420.1 | 0.0 | Trihelix family protein |
Publications ? help Back to Top | |||
---|---|---|---|
|