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 | mrna06360.1-v1.0-hybrid | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria
|
||||||||
Family | Trihelix | ||||||||
Protein Properties | Length: 1029aa MW: 112715 Da PI: 8.54 | ||||||||
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 | 64.4 | 2.5e-20 | 859 | 939 | 1 | 86 |
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 +W+ +ev++ i++r ++++r++ k +++lWee+s+++ ++g++rsp qCk+ w +l ++y++ k g++++ +++py+++++ mrna06360.1-v1.0-hybrid 859 KWKPEEVKKFIKMRGKLHSRFQVVKGRMALWEEISRNLLAEGVNRSPGQCKSLWASLVQKYEESKSGKRSQ-----KSWPYYEEMD 939 7******************************************************************9984.....56*******7 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:3.60.15.10 | 5.3E-67 | 153 | 403 | IPR001279 | Metallo-beta-lactamase |
SuperFamily | SSF56281 | 5.59E-71 | 154 | 568 | IPR001279 | Metallo-beta-lactamase |
SMART | SM00849 | 8.7E-25 | 166 | 363 | IPR001279 | Metallo-beta-lactamase |
Pfam | PF12706 | 1.3E-10 | 177 | 313 | IPR001279 | Metallo-beta-lactamase |
Pfam | PF07521 | 8.8E-6 | 509 | 540 | IPR011108 | Zn-dependent metallo-hydrolase, RNA specificity domain |
PROSITE profile | PS50090 | 8.026 | 852 | 916 | IPR017877 | Myb-like domain |
Gene3D | G3DSA:1.10.10.60 | 5.0E-5 | 856 | 917 | IPR009057 | Homeodomain-like |
Pfam | PF13837 | 8.5E-18 | 857 | 939 | No hit | No description |
CDD | cd12203 | 6.91E-22 | 858 | 923 | No hit | No description |
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 |
Plant Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PO Term | PO Category | PO Description | ||||
PO:0009001 | anatomy | fruit | ||||
PO:0007010 | developmental stage | whole plant fruit ripening stage | ||||
PO:0007027 | developmental stage | whole plant fruit formation stage 70% to final size |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 1029 aa Download sequence Send to blast |
MVMGELEQRP EGCEAERDGE KFSHSFFSTS LSISRSSSSS SKSQPHAFSG ASKLMQLGVL 60 GGLSLYHSIY SPAVPAQMAA LGALSPCPYT LLSRLKSSHR SVSCSLGSST APSTGTRGSG 120 YKRSGRVEGP RKSMEDSVQR KMEQFYEGRD GPPLRVLPIG GLGEIGMNCM LVGNYDRYIL 180 IDAGIMFPDF DELGVQKIIP DTTFIRKWKH KIEAIVITHG HEDHIGALPW VIPALDPSTP 240 IFASSFTMEL IRKRLKEHGI FVPSRLKMFK TKRKFMAGPF EIEPVRVTHS IPDCCGLVLR 300 CADGTILHTG DWKIDESPLD GQGFDREGLE ELSKEGVTLM MSDSTNVLSP GRTTSESSVA 360 DALMRHISAA QGRVITTQFA SNIHRLGSVK AAADATGRKL VFVGMSLRTY LDAAWRDGKA 420 PIDPSTLVKV EDIDSYAPKD LLIVTTGSQA EPRAALNLAS FGGSHSVKLT KEDIILYSAK 480 VIPGNESRVM KMLNRISDMG STIVMGKNEG LHTSGHGYRG ELEEVLRIVK PQHFLPIHGE 540 LLFLKEHELL GRSTGIHHTT VIKNGEMLGV SHLRNRRVLS NGFTLLGKEN LQLKYSDGDK 600 AFGTSSELCV DERLKIALDG IIVVSMEILR PQNVNGLAES SIKGKIRITT RCLWLDKGKL 660 YDALYKAAHA ALSSCPINCP LPHMERTVSE VLRKLVRKYS GKRPDVIAIA MENPTAVLAD 720 EVSTRLSGKS HVGYERSALR KVNDGNSNKS RSTRTESDEA KDNIELQSST TEKDFEDDGV 780 EVKAPLPVEV STSSNVNPEN VSSDTEEPND IWNAMVKLSA GDKLAEDKND LVLQEENLKK 840 DDPESTERTS PSKPVKRNKW KPEEVKKFIK MRGKLHSRFQ VVKGRMALWE EISRNLLAEG 900 VNRSPGQCKS LWASLVQKYE ESKSGKRSQK SWPYYEEMDG ALSDSEAMAT KPPTQLSTYA 960 DAVTTSNAAL SSATSSTVAG NQRRSSTSSF SEPPHPTPAA DPKCCAARQT SSPSQQSPSK 1020 LCLVDLRL* |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5a0t_A | 9e-88 | 154 | 712 | 19 | 560 | RIBONUCLEASE J |
5a0t_B | 9e-88 | 154 | 712 | 19 | 560 | RIBONUCLEASE J |
5a0v_A | 9e-88 | 154 | 712 | 19 | 560 | RIBONUCLEASE J |
5a0v_B | 9e-88 | 154 | 712 | 19 | 560 | RIBONUCLEASE J |
Search in ModeBase |
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 | mrna06360.1-v1.0-hybrid |
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 -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_004297533.1 | 0.0 | PREDICTED: uncharacterized protein LOC101299666 | ||||
Swissprot | Q84W56 | 0.0 | RNJ_ARATH; Ribonuclease J | ||||
TrEMBL | A0A2P6P4Z1 | 0.0 | A0A2P6P4Z1_ROSCH; Putative beta-lactamase transcription factor MYB family | ||||
STRING | XP_004297533.1 | 0.0 | (Fragaria vesca) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF5099 | 34 | 50 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT5G63420.1 | 0.0 | Trihelix family protein |
Link Out ? help Back to Top | |
---|---|
Phytozome | mrna06360.1-v1.0-hybrid |
Publications ? help Back to Top | |||
---|---|---|---|
|