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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 | GSBRNA2T00141598001 | ||||||||
Common Name | GSBRNA2T00141598001 | ||||||||
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: 894aa MW: 98725.6 Da PI: 8.734 | ||||||||
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 | 62.2 | 1.2e-19 | 801 | 881 | 1 | 86 |
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 +W+ +ev++ i++r e+++r++ k +++lWee+s++++++g++rsp qCk+ w +l ++y+++k+ e+++ ++++++++++ GSBRNA2T00141598001 801 KWKPEEVKKVIRMRGELHSRFQVVKGRMALWEEISSNLSAEGINRSPGQCKSLWASLIQKYEECKADERSK-----TSWSHYEDMN 881 7********************************************************************95.....35999**997 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 | 9.9E-68 | 107 | 357 | IPR001279 | Metallo-beta-lactamase |
SuperFamily | SSF56281 | 2.75E-72 | 108 | 522 | IPR001279 | Metallo-beta-lactamase |
SMART | SM00849 | 5.1E-25 | 120 | 317 | IPR001279 | Metallo-beta-lactamase |
Pfam | PF12706 | 8.5E-11 | 132 | 267 | IPR001279 | Metallo-beta-lactamase |
Pfam | PF07521 | 4.9E-7 | 462 | 494 | IPR011108 | Zn-dependent metallo-hydrolase, RNA specificity domain |
PROSITE profile | PS50090 | 8.107 | 794 | 858 | IPR017877 | Myb-like domain |
Gene3D | G3DSA:1.10.10.60 | 2.6E-5 | 795 | 860 | IPR009057 | Homeodomain-like |
Pfam | PF13837 | 6.9E-17 | 799 | 882 | No hit | No description |
CDD | cd12203 | 4.38E-22 | 800 | 865 | No hit | No description |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0003677 | Molecular Function | DNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 894 aa Download sequence Send to blast |
MKPATSLYGS FSSSIYFDAR RPVPTPSKMA AFSALSLSPY TFTFRQSSRV RSTISCSVTS 60 PPASSGTSSS SKAPRRRSGR LEGAGKSMED SVKRKMEQFY EGTDGPPLRV LPIGGLGEIG 120 MNCMLVGNYD RYILIDAGIM FPDYDDPGVQ KIMPDTGFIR RWKHKIEAVV ITHGHEDHIG 180 ALPWVIPALD SNTPIFASSF TMELIKKRLK EHGIFVQSRL KTFNTRRRFM AGPFEIEPIT 240 VTHSIPDCSG LVLRCADGNI LHTGDWKIDE APLDGKVFDR EALEELSKEG VTLMMSDSTN 300 VLSPGRTTSE KVVADALVRN VMAAKGRVIT TQFASNIHRL GSIKAAADLT GRKLVFVGMS 360 LRTYLEAAWK DGKAPIDPST LVKVEDIEAY SPKDLLIVTT GSQAEPRAAL NLASYGSSHA 420 FKLTKEDIIL YSAKVIPGNE SRVMKMMNRL ADIGPKIVMG KNEMLHTSGH AYRGELEEVL 480 KIVKPQHFLP IHGELLFLKE HELLGKSTGI RHTTVIKNGE MLGVSHLRNR RVLSNGFSSL 540 GRENLQLMYS DGDKAFGTAS ELCIDERLRI SSDGIIVLSM EIMRPGASEN ALKGKIRITT 600 RCMWLDKGRL LDALHKAAHA ALSSCPVNCP LSHMERTVSE VLRKIVRKYS GKRPEVIAIA 660 MENPMAVRAD EVSARMSGDP NLGSGVAALR KVVEGNNKRN RTKKTQSQED EIVDSSAGIL 720 AEEGTASSTY TEGAEDVPVR SSSEESDDFW KSFINPPSPP SPGVTENAKT EDSENSREEE 780 EEDDTSDSQT KSSTKRVRRN KWKPEEVKKV IRMRGELHSR FQVVKGRMAL WEEISSNLSA 840 EGINRSPGQC KSLWASLIQK YEECKADERS KTSWSHYEDM NNILSELDTP APK* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5a0t_A | 4e-87 | 108 | 662 | 19 | 560 | RIBONUCLEASE J |
5a0t_B | 4e-87 | 108 | 662 | 19 | 560 | RIBONUCLEASE J |
5a0v_A | 4e-87 | 108 | 662 | 19 | 560 | RIBONUCLEASE J |
5a0v_B | 4e-87 | 108 | 662 | 19 | 560 | RIBONUCLEASE J |
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Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Bna.624 | 0.0 | flower |
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 | GSBRNA2T00141598001 |
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_013629533.1 | 0.0 | PREDICTED: ribonuclease J | ||||
Swissprot | Q84W56 | 0.0 | RNJ_ARATH; Ribonuclease J | ||||
TrEMBL | A0A0D3BFF6 | 0.0 | A0A0D3BFF6_BRAOL; Uncharacterized protein | ||||
STRING | Bo3g103450.1 | 0.0 | (Brassica oleracea) |
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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