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 | Cagra.0248s0020.1.p | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
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Family | Trihelix | ||||||||
Protein Properties | Length: 909aa MW: 100385 Da PI: 8.3399 | ||||||||
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 | 66.6 | 5.1e-21 | 817 | 897 | 1 | 86 |
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 +W+ +e+++ i++r e+++r++ k +++lWee+s++++++g++rsp qCk+ w +l ++y+++k+ e+++ +++p+f++++ Cagra.0248s0020.1.p 817 KWKPEEIKKVIRMRGELHSRFQVVKGRMALWEEISSNLSAEGINRSPGQCKSLWASLVQKYEECKADERSK-----TSWPHFEDMN 897 7********************************************************************95.....36******97 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 | 1.1E-66 | 106 | 356 | IPR001279 | Metallo-beta-lactamase |
SuperFamily | SSF56281 | 2.25E-72 | 107 | 521 | IPR001279 | Metallo-beta-lactamase |
SMART | SM00849 | 2.6E-25 | 119 | 316 | IPR001279 | Metallo-beta-lactamase |
Pfam | PF12706 | 4.0E-10 | 131 | 266 | IPR001279 | Metallo-beta-lactamase |
Pfam | PF07521 | 5.5E-7 | 461 | 493 | IPR011108 | Zn-dependent metallo-hydrolase, RNA specificity domain |
PROSITE profile | PS50090 | 7.956 | 810 | 874 | IPR017877 | Myb-like domain |
Gene3D | G3DSA:1.10.10.60 | 3.5E-5 | 811 | 876 | IPR009057 | Homeodomain-like |
Pfam | PF13837 | 1.5E-17 | 816 | 898 | No hit | No description |
CDD | cd12203 | 1.19E-22 | 816 | 881 | 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: 909 aa Download sequence Send to blast |
MMKPASLQGF SSHVSSTIYS DVRRPATTPS KMAAFSALSL CPYTFTFRQS SRIKSTVSCS 60 VTSAPASGTS SSSKTPRRRR EGVGKSMEDS VKRKMEQFYE GTDGPPLRVL PIGGLGEIGM 120 NCMLVGNYDR YILIDAGIMF PDYDEPGVQK IMPDTGFIRR WKHKIEAVVI THGHEDHIGA 180 LPWVIPALDP NTPIFASSFT MELIKKRLKE HGIFVQSRLK TFSTRRRFMA GPFEIEPITV 240 THSIPDCSGL FLRCADGNIL HTGDWKIDEA PLDGKVFDRE ALEELSKEGV TLMMSDSTNV 300 LSPGRTISEK VVADALVRNV MAAKGRVITT QFASNIHRLG SIKAAADITG RKLVFVGMSL 360 RTYLEAAWRD GKAPIDPSSL VKVEDIEAYA PKELLIVTTG SQAEPRAALN LASYGSSHAF 420 KLTKEDIILY SAKVIPGNES RVMKMMNRLA DIGPNIIMGK NEMLHTSGHA YRGELEEVLK 480 IVKPQHFLPI HGELLFLKEH ELLGKSTGIR HTTVIKNGEM LGVSHLRNRR VLSNGFSSLG 540 RENLQLMYSD GDKAFGTSSE LCIDERLRIS SDGIIVLSME IMRPGVSENT LKGKIRITTR 600 CMWLDKGRLL DALHKAAHAA LSSCPVTCPL SHMERTVSEV LRKIVRKYSG KRPEVIAIAT 660 ENPMAVRADE VSARLSGDSS VGSGVAALRK VVDGHSKKSR PKKAPSQEDA PEEIDRTLED 720 DIIDSARLLA EEETAASTYT EEVKMPVGSS SEESDDFWKS FISPSSSPSP GETENVNKVT 780 GTEPKTEDKE SSRDDDNPSD TSDSETKPSS KRVRKNKWKP EEIKKVIRMR GELHSRFQVV 840 KGRMALWEEI SSNLSAEGIN RSPGQCKSLW ASLVQKYEEC KADERSKTSW PHFEDMNNIL 900 SELDTPAS* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5a0t_A | 5e-88 | 107 | 661 | 19 | 560 | RIBONUCLEASE J |
5a0t_B | 5e-88 | 107 | 661 | 19 | 560 | RIBONUCLEASE J |
5a0v_A | 5e-88 | 107 | 661 | 19 | 560 | RIBONUCLEASE J |
5a0v_B | 5e-88 | 107 | 661 | 19 | 560 | RIBONUCLEASE J |
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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 | Cagra.0248s0020.1.p |
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_006279731.1 | 0.0 | uncharacterized protein LOC17874922 | ||||
Swissprot | Q84W56 | 0.0 | RNJ_ARATH; Ribonuclease J | ||||
TrEMBL | R0G7Y9 | 0.0 | R0G7Y9_9BRAS; Uncharacterized protein | ||||
STRING | Cagra.0248s0020.1.p | 0.0 | (Capsella grandiflora) |
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 |
Link Out ? help Back to Top | |
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Phytozome | Cagra.0248s0020.1.p |
Publications ? help Back to Top | |||
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