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 | Glyma.12G048600.1.p | ||||||||
Common Name | GLYMA_12G048600, LOC100813285 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
|
||||||||
Family | B3 | ||||||||
Protein Properties | Length: 442aa MW: 50118.1 Da PI: 9.4879 | ||||||||
Description | B3 family protein | ||||||||
Gene Model |
|
Signature Domain? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | B3 | 59.4 | 6.3e-19 | 6 | 96 | 1 | 97 |
EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 f k l+ps v +++l+lp +f++++gg+ +tl ++g +W+v l +k +++y++ +GWkeFvk + g +vFk++g+s+f Glyma.12G048600.1.p 6 FHKLLLPSTVQPNQQLRLPDNFMRKYGGE--LLPIVTLSVPDGSVWRVGL--KKADNKYWFLDGWKEFVKHYSISIGYLLVFKYEGKSSF-- 91 899***********************877..44599**************..*********************************99999.. PP EEEEE CS B3 93 vvkvf 97 v++f Glyma.12G048600.1.p 92 SVHIF 96 88887 PP | |||||||
2 | B3 | 56.5 | 5.1e-18 | 305 | 395 | 4 | 98 |
E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS B3 4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 vl ps+ + ++++lp fae+h +g++ ++l+ ++gr+W v++ yr+++ l++GW eF +n+L egD++vF+l + +e l Glyma.12G048600.1.p 305 VLRPSYLYRGCIMYLPSCFAEKHlNGVSG---FIKLQISNGRQWPVRCLYRGGR--AKLSQGWFEFSLENNLGEGDVCVFELLRMKEVVL 389 78899******************877743...59**************665555..66***********************998889989 PP EEEEE- CS B3 93 vvkvfr 98 v+vfr Glyma.12G048600.1.p 390 QVTVFR 395 999998 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF101936 | 5.89E-23 | 2 | 97 | IPR015300 | DNA-binding pseudobarrel domain |
Gene3D | G3DSA:2.40.330.10 | 4.5E-24 | 3 | 97 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 5.15E-23 | 4 | 97 | No hit | No description |
PROSITE profile | PS50863 | 14.466 | 6 | 99 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 1.9E-16 | 6 | 96 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 7.4E-19 | 6 | 99 | IPR003340 | B3 DNA binding domain |
Gene3D | G3DSA:2.40.330.10 | 3.4E-24 | 294 | 395 | IPR015300 | DNA-binding pseudobarrel domain |
SuperFamily | SSF101936 | 2.16E-24 | 295 | 395 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 1.52E-22 | 300 | 395 | No hit | No description |
PROSITE profile | PS50863 | 13.479 | 302 | 397 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 4.6E-16 | 302 | 397 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 9.5E-16 | 305 | 395 | IPR003340 | B3 DNA binding domain |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 442 aa Download sequence Send to blast |
MPHPSFHKLL LPSTVQPNQQ LRLPDNFMRK YGGELLPIVT LSVPDGSVWR VGLKKADNKY 60 WFLDGWKEFV KHYSISIGYL LVFKYEGKSS FSVHIFNLAT SEINYQSATR SSNEGLHFTN 120 RLKLFEEIED EDSIEISDSS PSHLAPSSLQ NQALTGSVDK MMPGKSYTPP ALQNLFNGSK 180 LNSINWGEGG NAHSSRIANS LDNRLTRDIG LQFNAVEFKR STEELKLRAS MEERMKKTTR 240 KKRKSVCASA DGQDPSAEHE EEVEMRLRFY ESASARKRTV TAEERERAIN AAKAFEPPNP 300 FCRVVLRPSY LYRGCIMYLP SCFAEKHLNG VSGFIKLQIS NGRQWPVRCL YRGGRAKLSQ 360 GWFEFSLENN LGEGDVCVFE LLRMKEVVLQ VTVFRVIEDV GLLSPPLQQN QNMSSAKMLN 420 TPLQQHLTST KMVRNQQQVH S* |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4i1k_A | 1e-72 | 268 | 400 | 15 | 146 | B3 domain-containing transcription factor VRN1 |
4i1k_B | 1e-72 | 268 | 400 | 15 | 146 | B3 domain-containing transcription factor VRN1 |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
---|---|---|---|---|---|---|
UniGene ID | E-value | Expressed in | ||||
Gma.24785 | 0.0 | seed coat |
Expression -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in roots and at lower levels in aerial parts. {ECO:0000269|PubMed:12114624}. |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | Involved in the regulation of vernalization. Acts as transcriptional repressor of FLC, a major target of the vernalization pathway. Binds DNA in vitro in a non-sequence-specific manner. {ECO:0000269|PubMed:12114624}. |
Cis-element ? help Back to Top | |
---|---|
Source | Link |
PlantRegMap | Glyma.12G048600.1.p |
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 | EU857413 | 0.0 | EU857413.1 Glycine max reduced vernalization response 1 (VRN1) gene, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_006592124.1 | 0.0 | B3 domain-containing transcription factor VRN1 isoform X1 | ||||
Swissprot | Q8L3W1 | 1e-131 | VRN1_ARATH; B3 domain-containing transcription factor VRN1 | ||||
TrEMBL | I1LQ96 | 0.0 | I1LQ96_SOYBN; Uncharacterized protein | ||||
STRING | GLYMA12G05250.1 | 0.0 | (Glycine max) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF2147 | 34 | 85 | Representative plant | OGRP2051 | 14 | 36 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT1G49480.1 | 2e-74 | related to vernalization1 1 |
Link Out ? help Back to Top | |
---|---|
Phytozome | Glyma.12G048600.1.p |
Entrez Gene | 100813285 |
Publications ? help Back to Top | |||
---|---|---|---|
|