Arabidopsis thaliana protein interaction network
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
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AT4G02840 - ( small nuclear ribonucleoprotein D1 putative / snRNP core protein D1 putative / Sm protein D1 putative )
40 Proteins interacs with AT4G02840Locus | Method | FSW | Cellular Compartment Classification (C3) | Description |
---|---|---|---|---|
AT2G46560 | Predictedtwo hybrid | FSW = 0.0248
| Class C:vacuole | TRANSDUCIN FAMILY PROTEIN / WD-40 REPEAT FAMILY PROTEIN |
AT1G20960 | PredictedAffinity Capture-MSAffinity Capture-MSCo-purificationAffinity Capture-MSCo-purification | FSW = 0.4491
| Class C:nucleus | EMB1507 (EMBRYO DEFECTIVE 1507) ATP BINDING / ATP-DEPENDENT HELICASE/ HELICASE/ NUCLEIC ACID BINDING / NUCLEOSIDE-TRIPHOSPHATASE/ NUCLEOTIDE BINDING |
AT1G09760 | PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.4765
| Class C:nucleus | U2A (U2 SMALL NUCLEAR RIBONUCLEOPROTEIN A) PROTEIN BINDING |
AT1G09770 | PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.3027
| Class C:nucleus | ATCDC5 (ARABIDOPSIS THALIANA CELL DIVISION CYCLE 5) DNA BINDING / TRANSCRIPTION FACTOR |
AT5G08290 | PredictedAffinity Capture-MS | FSW = 0.5700
| Class C:nucleus | YLS8 CATALYTIC |
AT3G62840 | PredictedAffinity Capture-MS | FSW = 0.1553
| Class C:nucleus | FUNCTIONS IN MOLECULAR_FUNCTION UNKNOWN LOCATED IN SMALL NUCLEOLAR RIBONUCLEOPROTEIN COMPLEX NUCLEUS EXPRESSED IN 22 PLANT STRUCTURES EXPRESSED DURING 13 GROWTH STAGES CONTAINS INTERPRO DOMAIN/S LIKE-SM RIBONUCLEOPROTEIN CORE (INTERPROIPR001163) LIKE-SM RIBONUCLEOPROTEIN EUKARYOTIC AND ARCHAEA-TYPE CORE (INTERPROIPR006649) LIKE-SM RIBONUCLEOPROTEIN-RELATED CORE (INTERPROIPR010920) BEST ARABIDOPSIS THALIANA PROTEIN MATCH IS SMALL NUCLEAR RIBONUCLEOPROTEIN D2 PUTATIVE / SNRNP CORE PROTEIN D2 PUTATIVE / SM PROTEIN D2 PUTATIVE (TAIRAT2G476404) HAS 535 BLAST HITS TO 535 PROTEINS IN 164 SPECIES ARCHAE - 2 BACTERIA - 0 METAZOA - 239 FUNGI - 109 PLANTS - 78 VIRUSES - 0 OTHER EUKARYOTES - 107 (SOURCE NCBI BLINK) |
AT2G23930 | PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MS | FSW = 0.5684
| Class C:nucleus | SNRNP-G (PROBABLE SMALL NUCLEAR RIBONUCLEOPROTEIN G) |
AT5G27720 | PredictedAffinity Capture-MS | FSW = 0.2265
| Class C:nucleus | EMB1644 (EMBRYO DEFECTIVE 1644) |
AT3G11500 | Predictedinteraction predictionCo-expression | FSW = 0.6146
| Class C:nucleus | SMALL NUCLEAR RIBONUCLEOPROTEIN G PUTATIVE / SNRNP-G PUTATIVE / SM PROTEIN G PUTATIVE |
AT1G03330 | PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.2929
| Class C:nucleus | SMALL NUCLEAR RIBONUCLEOPROTEIN D PUTATIVE / SNRNP CORE SM-LIKE PROTEIN PUTATIVE / U6 SNRNA-ASSOCIATED SM-LIKE PROTEIN PUTATIVE |
AT4G30330 | PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.5490
| Class C:nucleus | SMALL NUCLEAR RIBONUCLEOPROTEIN E PUTATIVE / SNRNP-E PUTATIVE / SM PROTEIN E PUTATIVE |
AT2G47640 | PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.4014
| Class C:nucleus | SMALL NUCLEAR RIBONUCLEOPROTEIN D2 PUTATIVE / SNRNP CORE PROTEIN D2 PUTATIVE / SM PROTEIN D2 PUTATIVE |
AT3G19840 | PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MS | FSW = 0.3432
| Class C:nucleus | FF DOMAIN-CONTAINING PROTEIN / WW DOMAIN-CONTAINING PROTEIN |
AT3G50670 | PredictedAffinity Capture-MSCo-purification | FSW = 0.1239
| Class C:nucleus | U1-70K (U1 SMALL NUCLEAR RIBONUCLEOPROTEIN-70K) RNA BINDING / NUCLEIC ACID BINDING / NUCLEOTIDE BINDING |
AT1G20580 | PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.5896
| Class C:nucleus | SMALL NUCLEAR RIBONUCLEOPROTEIN PUTATIVE / SNRNP PUTATIVE / SM PROTEIN PUTATIVE |
AT1G28060 | PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.3841
| Class C:nucleus | SMALL NUCLEAR RIBONUCLEOPROTEIN FAMILY PROTEIN / SNRNP FAMILY PROTEIN |
AT4G30220 | PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.4805
| Class C:nucleus | RUXF (SMALL NUCLEAR RIBONUCLEOPROTEIN F) |
AT1G65700 | Predictedtwo hybrid | FSW = 0.0766
| Class C:nucleus | SMALL NUCLEAR RIBONUCLEOPROTEIN PUTATIVE / SNRNP PUTATIVE / SM PROTEIN PUTATIVE |
AT2G41500 | PredictedAffinity Capture-MS | FSW = 0.4514
| Class C:nucleus | EMB2776 NUCLEOTIDE BINDING |
AT1G72560 | Predictedinteraction predictiontwo hybrid | FSW = 0.0052
| Class C:nucleus | PSD (PAUSED) NUCLEOBASE NUCLEOSIDE NUCLEOTIDE AND NUCLEIC ACID TRANSMEMBRANE TRANSPORTER/ TRNA BINDING |
AT2G33340 | PredictedAffinity Capture-MSCo-purification | FSW = 0.3512
| Unknown | NUCLEOTIDE BINDING / UBIQUITIN-PROTEIN LIGASE |
AT1G80070 | PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-MS | FSW = 0.4412
| Unknown | SUS2 (ABNORMAL SUSPENSOR 2) |
AT5G62290 | PredictedReconstituted ComplexAffinity Capture-Western | FSW = 0.1097
| Unknown | NUCLEOTIDE-SENSITIVE CHLORIDE CONDUCTANCE REGULATOR (ICLN) FAMILY PROTEIN |
AT4G31120 | PredictedReconstituted Complex | FSW = 0.0569
| Unknown | SKB1 (SHK1 BINDING PROTEIN 1) PROTEIN METHYLTRANSFERASE |
AT1G14640 | PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSinteraction prediction | FSW = 0.5009
| Unknown | SWAP (SUPPRESSOR-OF-WHITE-APRICOT)/SURP DOMAIN-CONTAINING PROTEIN |
AT1G60170 | PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSinteraction prediction | FSW = 0.5137
| Unknown | EMB1220 (EMBRYO DEFECTIVE 1220) |
AT1G65660 | Predictedtwo hybridinteraction prediction | FSW = 0.1104
| Unknown | SMP1 (SWELLMAP 1) NUCLEIC ACID BINDING / SINGLE-STRANDED RNA BINDING |
AT3G55220 | PredictedAffinity Capture-MS | FSW = 0.5611
| Unknown | SPLICING FACTOR PUTATIVE |
AT1G66510 | PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.2090
| Unknown | AAR2 PROTEIN FAMILY |
AT2G32170 | PredictedAffinity Capture-MS | FSW = 0.0629
| Unknown | LOCATED IN CELLULAR_COMPONENT UNKNOWN EXPRESSED IN 24 PLANT STRUCTURES EXPRESSED DURING 15 GROWTH STAGES CONTAINS INTERPRO DOMAIN/S N2227-LIKE (INTERPROIPR012901) BEST ARABIDOPSIS THALIANA PROTEIN MATCH IS UNKNOWN PROTEIN (TAIRAT2G321603) HAS 362 BLAST HITS TO 319 PROTEINS IN 141 SPECIES ARCHAE - 0 BACTERIA - 0 METAZOA - 132 FUNGI - 130 PLANTS - 25 VIRUSES - 0 OTHER EUKARYOTES - 75 (SOURCE NCBI BLINK) |
AT2G32600 | PredictedAffinity Capture-MS | FSW = 0.2657
| Unknown | HYDROXYPROLINE-RICH GLYCOPROTEIN FAMILY PROTEIN |
AT3G03340 | PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.2592
| Unknown | UNE6 (UNFERTILIZED EMBRYO SAC 6) |
AT3G05760 | PredictedAffinity Capture-MS | FSW = 0.2407
| Unknown | NUCLEIC ACID BINDING / ZINC ION BINDING |
AT4G03430 | PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSinteraction prediction | FSW = 0.3469
| Unknown | EMB2770 (EMBRYO DEFECTIVE 2770) RNA SPLICING FACTOR TRANSESTERIFICATION MECHANISM |
AT4G21660 | PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.4856
| Unknown | PROLINE-RICH SPLICEOSOME-ASSOCIATED (PSP) FAMILY PROTEIN |
AT5G06160 | PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.4421
| Unknown | ATO (ATROPOS) NUCLEIC ACID BINDING / ZINC ION BINDING |
AT5G41770 | PredictedAffinity Capture-MS | FSW = 0.2649
| Unknown | CROOKED NECK PROTEIN PUTATIVE / CELL CYCLE PROTEIN PUTATIVE |
AT4G32720 | PredictedSynthetic Lethality | FSW = 0.0227
| Unknown | ATLA1 (ARABIDOPSIS THALIANA LA PROTEIN 1) RNA BINDING |
AT5G46400 | PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MS | FSW = 0.5730
| Unknown | PRP39-2 |
AT5G15770 | Predictedinterologs mappinginteraction prediction | FSW = 0.0374
| Unknown | ATGNA1 (ARABIDOPSIS THALIANA GLUCOSE-6-PHOSPHATE ACETYLTRANSFERASE 1) N-ACETYLTRANSFERASE/ GLUCOSAMINE 6-PHOSPHATE N-ACETYLTRANSFERASE |
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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