Arabidopsis thaliana protein interaction network
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 AT4G02840
LocusMethodFSW Cellular Compartment Classification (C3)Description
AT2G46560

Predicted

two hybrid

FSW = 0.0248

Class C:

vacuole

TRANSDUCIN FAMILY PROTEIN / WD-40 REPEAT FAMILY PROTEIN
AT1G20960

Predicted

Affinity Capture-MS

Affinity Capture-MS

Co-purification

Affinity Capture-MS

Co-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

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

interaction prediction

Co-expression

FSW = 0.4765

Class C:

nucleus

U2A (U2 SMALL NUCLEAR RIBONUCLEOPROTEIN A) PROTEIN BINDING
AT1G09770

Predicted

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.3027

Class C:

nucleus

ATCDC5 (ARABIDOPSIS THALIANA CELL DIVISION CYCLE 5) DNA BINDING / TRANSCRIPTION FACTOR
AT5G08290

Predicted

Affinity Capture-MS

FSW = 0.5700

Class C:

nucleus

YLS8 CATALYTIC
AT3G62840Predicted

Affinity 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

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.5684

Class C:

nucleus

SNRNP-G (PROBABLE SMALL NUCLEAR RIBONUCLEOPROTEIN G)
AT5G27720

Predicted

Affinity Capture-MS

FSW = 0.2265

Class C:

nucleus

EMB1644 (EMBRYO DEFECTIVE 1644)
AT3G11500

Predicted

interaction prediction

Co-expression

FSW = 0.6146

Class C:

nucleus

SMALL NUCLEAR RIBONUCLEOPROTEIN G PUTATIVE / SNRNP-G PUTATIVE / SM PROTEIN G PUTATIVE
AT1G03330

Predicted

Affinity Capture-MS

Affinity 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

Predicted

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.5490

Class C:

nucleus

SMALL NUCLEAR RIBONUCLEOPROTEIN E PUTATIVE / SNRNP-E PUTATIVE / SM PROTEIN E PUTATIVE
AT2G47640

Predicted

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.4014

Class C:

nucleus

SMALL NUCLEAR RIBONUCLEOPROTEIN D2 PUTATIVE / SNRNP CORE PROTEIN D2 PUTATIVE / SM PROTEIN D2 PUTATIVE
AT3G19840

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.3432

Class C:

nucleus

FF DOMAIN-CONTAINING PROTEIN / WW DOMAIN-CONTAINING PROTEIN
AT3G50670

Predicted

Affinity Capture-MS

Co-purification

FSW = 0.1239

Class C:

nucleus

U1-70K (U1 SMALL NUCLEAR RIBONUCLEOPROTEIN-70K) RNA BINDING / NUCLEIC ACID BINDING / NUCLEOTIDE BINDING
AT1G20580

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

interaction prediction

Co-expression

FSW = 0.5896

Class C:

nucleus

SMALL NUCLEAR RIBONUCLEOPROTEIN PUTATIVE / SNRNP PUTATIVE / SM PROTEIN PUTATIVE
AT1G28060

Predicted

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.3841

Class C:

nucleus

SMALL NUCLEAR RIBONUCLEOPROTEIN FAMILY PROTEIN / SNRNP FAMILY PROTEIN
AT4G30220

Predicted

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.4805

Class C:

nucleus

RUXF (SMALL NUCLEAR RIBONUCLEOPROTEIN F)
AT1G65700

Predicted

two hybrid

FSW = 0.0766

Class C:

nucleus

SMALL NUCLEAR RIBONUCLEOPROTEIN PUTATIVE / SNRNP PUTATIVE / SM PROTEIN PUTATIVE
AT2G41500

Predicted

Affinity Capture-MS

FSW = 0.4514

Class C:

nucleus

EMB2776 NUCLEOTIDE BINDING
AT1G72560

Predicted

interaction prediction

two hybrid

FSW = 0.0052

Class C:

nucleus

PSD (PAUSED) NUCLEOBASE NUCLEOSIDE NUCLEOTIDE AND NUCLEIC ACID TRANSMEMBRANE TRANSPORTER/ TRNA BINDING
AT2G33340

Predicted

Affinity Capture-MS

Co-purification

FSW = 0.3512

Unknown

NUCLEOTIDE BINDING / UBIQUITIN-PROTEIN LIGASE
AT1G80070

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.4412

Unknown

SUS2 (ABNORMAL SUSPENSOR 2)
AT5G62290

Predicted

Reconstituted Complex

Affinity Capture-Western

FSW = 0.1097

Unknown

NUCLEOTIDE-SENSITIVE CHLORIDE CONDUCTANCE REGULATOR (ICLN) FAMILY PROTEIN
AT4G31120

Predicted

Reconstituted Complex

FSW = 0.0569

Unknown

SKB1 (SHK1 BINDING PROTEIN 1) PROTEIN METHYLTRANSFERASE
AT1G14640

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

interaction prediction

FSW = 0.5009

Unknown

SWAP (SUPPRESSOR-OF-WHITE-APRICOT)/SURP DOMAIN-CONTAINING PROTEIN
AT1G60170

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

interaction prediction

FSW = 0.5137

Unknown

EMB1220 (EMBRYO DEFECTIVE 1220)
AT1G65660

Predicted

two hybrid

interaction prediction

FSW = 0.1104

Unknown

SMP1 (SWELLMAP 1) NUCLEIC ACID BINDING / SINGLE-STRANDED RNA BINDING
AT3G55220

Predicted

Affinity Capture-MS

FSW = 0.5611

Unknown

SPLICING FACTOR PUTATIVE
AT1G66510

Predicted

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.2090

Unknown

AAR2 PROTEIN FAMILY
AT2G32170

Predicted

Affinity 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

Predicted

Affinity Capture-MS

FSW = 0.2657

Unknown

HYDROXYPROLINE-RICH GLYCOPROTEIN FAMILY PROTEIN
AT3G03340

Predicted

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.2592

Unknown

UNE6 (UNFERTILIZED EMBRYO SAC 6)
AT3G05760

Predicted

Affinity Capture-MS

FSW = 0.2407

Unknown

NUCLEIC ACID BINDING / ZINC ION BINDING
AT4G03430

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

interaction prediction

FSW = 0.3469

Unknown

EMB2770 (EMBRYO DEFECTIVE 2770) RNA SPLICING FACTOR TRANSESTERIFICATION MECHANISM
AT4G21660

Predicted

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.4856

Unknown

PROLINE-RICH SPLICEOSOME-ASSOCIATED (PSP) FAMILY PROTEIN
AT5G06160

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

interaction prediction

Co-expression

FSW = 0.4421

Unknown

ATO (ATROPOS) NUCLEIC ACID BINDING / ZINC ION BINDING
AT5G41770

Predicted

Affinity Capture-MS

FSW = 0.2649

Unknown

CROOKED NECK PROTEIN PUTATIVE / CELL CYCLE PROTEIN PUTATIVE
AT4G32720

Predicted

Synthetic Lethality

FSW = 0.0227

Unknown

ATLA1 (ARABIDOPSIS THALIANA LA PROTEIN 1) RNA BINDING
AT5G46400

Predicted

Affinity Capture-MS

Affinity Capture-MS

Affinity Capture-MS

FSW = 0.5730

Unknown

PRP39-2
AT5G15770

Predicted

interologs mapping

interaction prediction

FSW = 0.0374

Unknown

ATGNA1 (ARABIDOPSIS THALIANA GLUCOSE-6-PHOSPHATE ACETYLTRANSFERASE 1) N-ACETYLTRANSFERASE/ GLUCOSAMINE 6-PHOSPHATE N-ACETYLTRANSFERASE

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Fasta sequences:

Proteins

DNA

Quick help

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 common

Learn 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 = 0.0029

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How to cite

If you find AtPIN interesting and want to use it in your work please cite us

AtPIN: Arabidopsis thaliana Protein Interaction Network
Marcelo M Brandao, Luiza L Dantas and Marcio C Silva-Filho
BMC Bioinformatics 2009, 10:454

DOI:1471-2105/10/454