Arabidopsis thaliana protein interaction network
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
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AT5G42270 - ( VAR1 (VARIEGATED 1) ATP-dependent peptidase/ ATPase/ metallopeptidase )
23 Proteins interacs with AT5G42270Locus | Method | FSW | Cellular Compartment Classification (C3) | Description |
---|---|---|---|---|
AT2G30950 | ExperimentalAffinity Capture-Westernco-fractionationCo-fractionationcoimmunoprecipitation | FSW = 0.3135
| Class A:plastidClass D:plastid (p = 0.78)mitochondrion (p = 0.82)cytosol (p = 0.67) | VAR2 (VARIEGATED 2) ATP-DEPENDENT PEPTIDASE/ ATPASE/ METALLOPEPTIDASE/ ZINC ION BINDING |
AT3G27280 | Predictedpull down | FSW = 0.0324
| Class C:plastid | ATPHB4 (PROHIBITIN 4) |
AT2G29080 | PredictedEnriched domain pairPhylogenetic profile methodCo-expression | FSW = 0.0788
| Class C:plastid | FTSH3 (FTSH PROTEASE 3) ATP-DEPENDENT PEPTIDASE/ ATPASE |
AT5G50920 | PredictedEnriched domain pairGene neighbors methodCo-expression | FSW = 0.1524
| Class C:plastid | CLPC1 ATP BINDING / ATP-DEPENDENT PEPTIDASE/ ATPASE |
AT5G55220 | Predictedpull down | FSW = 0.0693
| Class C:plastid | TRIGGER FACTOR TYPE CHAPERONE FAMILY PROTEIN |
AT1G50250 | PredictedEnriched domain pairPhylogenetic profile methodCo-expression | FSW = 0.2165
| Class C:plastid | FTSH1 (FTSH PROTEASE 1) ATP-DEPENDENT PEPTIDASE/ ATPASE/ METALLOPEPTIDASE |
AT5G15450 | PredictedEnriched domain pairGene neighbors methodCo-expression | FSW = 0.0225
| Class C:plastid | CLPB3 (CASEIN LYTIC PROTEINASE B3) ATP BINDING / ATPASE/ NUCLEOSIDE-TRIPHOSPHATASE/ NUCLEOTIDE BINDING / PROTEIN BINDING |
AT3G27850 | Predictedpull down | FSW = 0.0497
| Class C:plastid | RPL12-C (RIBOSOMAL PROTEIN L12-C) STRUCTURAL CONSTITUENT OF RIBOSOME |
AT1G06430 | PredictedEnriched domain pairPhylogenetic profile methodCo-expression | FSW = 0.2227
| Class C:plastid | FTSH8 ATP-DEPENDENT PEPTIDASE/ ATPASE/ METALLOPEPTIDASE/ ZINC ION BINDING |
ATCG01240 | Predictedpull down | FSW = 0.0615
| Class C:plastid | 30S CHLOROPLAST RIBOSOMAL PROTEIN S7 |
AT3G19370 | PredictedGene fusion method | FSW = 0.1048
| Unknown | LOCATED IN PLASMA MEMBRANE EXPRESSED IN 23 PLANT STRUCTURES EXPRESSED DURING 13 GROWTH STAGES CONTAINS INTERPRO DOMAIN/S PROTEIN OF UNKNOWN FUNCTION DUF869 PLANT (INTERPROIPR008587) BEST ARABIDOPSIS THALIANA PROTEIN MATCH IS TRANSPORT PROTEIN-RELATED (TAIRAT2G233601) HAS 35914 BLAST HITS TO 20425 PROTEINS IN 933 SPECIES ARCHAE - 357 BACTERIA - 2527 METAZOA - 19254 FUNGI - 2459 PLANTS - 1272 VIRUSES - 95 OTHER EUKARYOTES - 9950 (SOURCE NCBI BLINK) |
AT5G47040 | PredictedEnriched domain pairGene neighbors methodCo-expression | FSW = 0.1481
| Unknown | LON2 (LON PROTEASE 2) ATP BINDING / ATP-DEPENDENT PEPTIDASE/ NUCLEOSIDE-TRIPHOSPHATASE/ NUCLEOTIDE BINDING / SERINE-TYPE ENDOPEPTIDASE/ SERINE-TYPE PEPTIDASE |
AT4G30930 | Predictedpull down | FSW = 0.0672
| Unknown | NFD1 (NUCLEAR FUSION DEFECTIVE 1) RNA BINDING / STRUCTURAL CONSTITUENT OF RIBOSOME |
AT2G47510 | Predictedpull down | FSW = 0.0101
| Unknown | FUM1 (FUMARASE 1) CATALYTIC/ FUMARATE HYDRATASE |
AT5G44790 | Predictedpull down | FSW = 0.0324
| Unknown | RAN1 (RESPONSIVE-TO-ANTAGONIST 1) ATPASE COUPLED TO TRANSMEMBRANE MOVEMENT OF IONS PHOSPHORYLATIVE MECHANISM / COPPER ION TRANSMEMBRANE TRANSPORTER |
AT5G15250 | PredictedEnriched domain pairGene neighbors methodPhylogenetic profile methodCo-expression | FSW = 0.1683
| Unknown | FTSH6 (FTSH PROTEASE 6) ATP-DEPENDENT PEPTIDASE/ ATPASE/ METALLOPEPTIDASE/ PEPTIDASE/ ZINC ION BINDING |
AT5G58080 | Predictedpull down | FSW = 0.0315
| Unknown | ARR18 (ARABIDOPSIS RESPONSE REGULATOR 18) TRANSCRIPTION FACTOR/ TWO-COMPONENT RESPONSE REGULATOR |
AT2G20060 | Predictedpull down | FSW = 0.0415
| Unknown | RIBOSOMAL PROTEIN L4 FAMILY PROTEIN |
AT4G31150 | Predictedpull down | FSW = 0.1724
| Unknown | ENDONUCLEASE V FAMILY PROTEIN |
AT3G44600 | Predictedpull down | FSW = 0.0385
| Unknown | CYP71 (CYCLOPHILIN71) CHROMATIN BINDING / HISTONE BINDING / PEPTIDYL-PROLYL CIS-TRANS ISOMERASE |
AT4G29540 | Predictedpull down | FSW = 0.0847
| Unknown | BACTERIAL TRANSFERASE HEXAPEPTIDE REPEAT-CONTAINING PROTEIN |
AT4G28010 | PredictedGene fusion method | FSW = 0.1177
| Unknown | PENTATRICOPEPTIDE (PPR) REPEAT-CONTAINING PROTEIN |
AT1G56690 | PredictedGene fusion method | FSW = 0.1177
| Unknown | PENTATRICOPEPTIDE (PPR) REPEAT-CONTAINING PROTEIN |
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Experimental: This means that the indicated PPI was experimentally demonstrated using Arabidopsis thaliana proteins as model of study. The experiment indicated links to the publication of which this interaction was annotated from
Predicted: The indicated PPI was proposed based on ortholgs studies. The experiment indicated links to the publication of the orthologous PPI was annotated from
FSW
FSW is the Functional Similarity Weight. It represents the proportion of interaction partners that two proteins have in commonLearn more - FSWeight top ranked cut offs
C3
Class A: The PPI is a direct evidence (experimental), the subcellular location was experimentally demonstrated and both, target and source, were indicated as expressed in same cellular compartment
Class B: The PPI is a direct evidence (experimental), the subcellular location was experimentally demonstrated but both, target and source, were indicated as expressed in different cellular compartment
Class C: Same as Class A but the PPI is predicted
Class D: Same as Class A but subcellular location was predicted. P(exp|pred) indicates the probability of this particular predicted location be experimentally demonstrated given all data available on AtPINDB
Unknown: There is no available data to calculate the C3 or the data does not fit onto any class previously described
PEP
PEP is the posterior probability of this particular PPI be experimentally demonstrated once it was predicted. For this release p = 0.0030. If they share same cell compartment p = 0.0029Learn more
How to cite
If you find AtPIN interesting and want to use it in your work please cite usAtPIN: Arabidopsis thaliana Protein Interaction Network
Marcelo M Brandao, Luiza L Dantas and Marcio C Silva-Filho
BMC Bioinformatics 2009, 10:454DOI:1471-2105/10/454
Marcelo M Brandao, Luiza L Dantas and Marcio C Silva-Filho
BMC Bioinformatics 2009, 10:454DOI:1471-2105/10/454