Arabidopsis thaliana protein interaction network
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
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AT3G54280 - ( RGD3 (ROOT GROWTH DEFECTIVE 3) ATP binding / DNA binding / binding / helicase/ nucleic acid binding )
45 Proteins interacs with AT3G54280| Locus | Method | FSW  | Cellular Compartment Classification (C3) | Description |
|---|---|---|---|---|
AT3G09200
   | PredictedPhenotypic SuppressionAffinity Capture-MS | FSW = 0.0366
| Class C:nucleus | 60S ACIDIC RIBOSOMAL PROTEIN P0 (RPP0B) |
| AT5G59690 | PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.1061
| Class C:nucleus | HISTONE H4 |
| AT1G07790
| PredictedAffinity Capture-MS | FSW = 0.0718
| Class C:nucleus | HTB1 DNA BINDING |
| AT3G10330
| Predictedinterologs mappingColocalization | FSW = 0.0385
| Class C:nucleus | TRANSCRIPTION INITIATION FACTOR IIB-2 / GENERAL TRANSCRIPTION FACTOR TFIIB-2 (TFIIB2) |
| AT4G17020
| PredictedCo-purification | FSW = 0.0388
| Class C:nucleus | TRANSCRIPTION FACTOR-RELATED |
| AT3G12480
| PredictedSynthetic Rescue | FSW = 0.0467
| Class C:nucleus | NF-YC11 (NUCLEAR FACTOR Y SUBUNIT C11) DNA BINDING / TRANSCRIPTION FACTOR |
| AT3G54610
| PredictedSynthetic Lethality | FSW = 0.0979
| Class C:nucleus | GCN5 DNA BINDING / H3 HISTONE ACETYLTRANSFERASE/ HISTONE ACETYLTRANSFERASE |
| AT5G41580
| PredictedSynthetic Rescue | FSW = 0.0633
| Class C:nucleus | ZINC ION BINDING |
| AT2G47620
| PredictedAffinity Capture-MS | FSW = 0.0911
| Class C:nucleus | ATSWI3A (SWITCH/SUCROSE NONFERMENTING 3A) DNA BINDING |
| AT3G13445
| PredictedAffinity Capture-MSColocalizationAffinity Capture-MSinterologs mappingAffinity Capture-WesternAffinity Capture-WesternAffinity Capture-WesternAffinity Capture-MSAffinity Capture-MSinterologs mappingSynthetic Lethalityinterologs mappingReconstituted ComplexReconstituted ComplexReconstituted ComplexReconstituted ComplexAffinity Capture-WesternReconstituted Complexin vivoin vitroAffinity Capture-Westerninterologs mappingSynthetic LethalitySynthetic RescueColocalizationCo-purificationinteraction prediction | FSW = 0.0566
| Class C:nucleus | TBP1 (TATA BINDING PROTEIN 1) DNA BINDING / RNA POLYMERASE II TRANSCRIPTION FACTOR/ BINDING |
| AT1G55520
| PredictedSynthetic LethalityReconstituted ComplexReconstituted ComplexReconstituted ComplexReconstituted Complexin vivoin vitrointerologs mappinginterologs mappingAffinity Capture-WesternAffinity Capture-WesternAffinity Capture-WesternAffinity Capture-WesternAffinity Capture-MSAffinity Capture-MSReconstituted ComplexAffinity Capture-MSAffinity Capture-WesternColocalizationCo-purificationinterologs mappingSynthetic LethalitySynthetic Rescue | FSW = 0.0939
| Class C:nucleus | TBP2 (TATA BINDING PROTEIN 2) DNA BINDING / RNA POLYMERASE II TRANSCRIPTION FACTOR/ TATA-BINDING PROTEIN BINDING |
| AT1G07470
| PredictedSynthetic Lethalityinteraction prediction | FSW = 0.0692
| Class C:nucleus | TRANSCRIPTION FACTOR IIA LARGE SUBUNIT PUTATIVE / TFIIA LARGE SUBUNIT PUTATIVE |
| AT2G37470
| PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.0446
| Class C:nucleus | HISTONE H2B PUTATIVE |
| AT5G08630
| PredictedAffinity Capture-MS | FSW = 0.0973
| Class C:nucleus | DDT DOMAIN-CONTAINING PROTEIN |
| AT5G18620
| PredictedAffinity Capture-MS | FSW = 0.0790
| Class C:nucleus | CHR17 (CHROMATIN REMODELING FACTOR17) ATP BINDING / DNA BINDING / DNA-DEPENDENT ATPASE/ HELICASE/ HYDROLASE ACTING ON ACID ANHYDRIDES IN PHOSPHORUS-CONTAINING ANHYDRIDES / NUCLEIC ACID BINDING / NUCLEOSOME BINDING |
| AT1G07660 | PredictedAffinity Capture-MS | FSW = 0.0764
| Unknown | HISTONE H4 |
| AT2G17360
| PredictedAffinity Capture-MS | FSW = 0.0272
| Unknown | 40S RIBOSOMAL PROTEIN S4 (RPS4A) |
| AT2G31610
| PredictedAffinity Capture-MS | FSW = 0.0881
| Unknown | 40S RIBOSOMAL PROTEIN S3 (RPS3A) |
| AT3G11250
| PredictedPhenotypic SuppressionPhenotypic SuppressionCo-expression | FSW = 0.0730
| Unknown | 60S ACIDIC RIBOSOMAL PROTEIN P0 (RPP0C) |
| AT1G64790 | PredictedAffinity Capture-MSinteraction prediction | FSW = 0.0385
| Unknown | BINDING |
| AT3G44620
| PredictedAffinity Capture-MSinteraction prediction | FSW = 0.0476
| Unknown | PROTEIN TYROSINE PHOSPHATASE |
| AT3G53870
| PredictedAffinity Capture-MS | FSW = 0.0415
| Unknown | 40S RIBOSOMAL PROTEIN S3 (RPS3B) |
| AT1G70320
| PredictedSynthetic Rescue | FSW = 0.0159
| Unknown | UPL2 (UBIQUITIN-PROTEIN LIGASE 2) UBIQUITIN-PROTEIN LIGASE |
| AT1G55860
| PredictedSynthetic Rescue | FSW = 0.0216
| Unknown | UPL1 (UBIQUITIN-PROTEIN LIGASE 1) UBIQUITIN-PROTEIN LIGASE |
| AT4G26840
| PredictedSynthetic RescueAffinity Capture-MSCo-expression | FSW = 0.0685
| Unknown | SUMO1 (SMALL UBIQUITIN-LIKE MODIFIER 1) PROTEIN BINDING / PROTEIN TAG |
| AT4G21710
| Predictedinterologs mapping | FSW = 0.0151
| Unknown | NRPB2 DNA BINDING / DNA-DIRECTED RNA POLYMERASE |
| AT1G05180
| PredictedSynthetic Rescue | FSW = 0.0223
| Unknown | AXR1 (AUXIN RESISTANT 1) SMALL PROTEIN ACTIVATING ENZYME |
| AT3G54250
| Predictedtwo hybridAffinity Capture-Westernin vivoCo-expression | FSW = 0.0207
| Unknown | MEVALONATE DIPHOSPHATE DECARBOXYLASE PUTATIVE |
| AT1G04950
| PredictedAffinity Capture-Western | FSW = 0.0785
| Unknown | TAF6 (TBP-ASSOCIATED FACTOR 6) DNA BINDING / RNA POLYMERASE II TRANSCRIPTION FACTOR/ TRANSCRIPTION INITIATION FACTOR |
| AT2G21470
| PredictedSynthetic Rescue | FSW = 0.1154
| Unknown | SAE2 (SUMO-ACTIVATING ENZYME 2) SUMO ACTIVATING ENZYME |
| AT3G06910
| PredictedSynthetic Rescue | FSW = 0.0441
| Unknown | ULP1A (UB-LIKE PROTEASE 1A) SUMO-SPECIFIC PROTEASE/ CYSTEINE-TYPE PEPTIDASE |
| AT1G08880
| PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.1146
| Unknown | H2AXA DNA BINDING |
| AT1G29150
| PredictedAffinity Capture-MS | FSW = 0.0129
| Unknown | ATS9 (ARABIDOPSIS NON-ATPASE SUBUNIT 9) |
| AT1G64520
| PredictedAffinity Capture-MS | FSW = 0.0194
| Unknown | RPN12A (REGULATORY PARTICLE NON-ATPASE 12A) PEPTIDASE |
| AT1G75660
| PredictedSynthetic Lethality | FSW = 0.0119
| Unknown | XRN3 5-3 EXORIBONUCLEASE |
| AT3G10070
| PredictedAffinity Capture-MS | FSW = 0.0729
| Unknown | TAF12 (TBP-ASSOCIATED FACTOR 12) DNA BINDING / TRANSCRIPTION INITIATION FACTOR |
| AT4G36080 | PredictedAffinity Capture-MS | FSW = 0.1156
| Unknown | FAT DOMAIN-CONTAINING PROTEIN / PHOSPHATIDYLINOSITOL 3- AND 4-KINASE FAMILY PROTEIN |
| AT5G27740
| PredictedSynthetic Lethality | FSW = 0.0054
| Unknown | EMB2775 (EMBRYO DEFECTIVE 2775) DNA BINDING / NUCLEOSIDE-TRIPHOSPHATASE/ NUCLEOTIDE BINDING |
| AT5G60040
| PredictedAffinity Capture-MS | FSW = 0.1156
| Unknown | NRPC1 DNA BINDING / DNA-DIRECTED RNA POLYMERASE/ RIBONUCLEOSIDE BINDING / ZINC ION BINDING |
| AT3G57870
| PredictedSynthetic Rescue | FSW = 0.0355
| Unknown | SCE1 (SUMO CONJUGATION ENZYME 1) SUMO LIGASE |
| AT4G33620 | PredictedSynthetic Rescue | FSW = 0.1761
| Unknown | ULP1 PROTEASE FAMILY PROTEIN |
| AT2G40010
| PredictedAffinity Capture-MS | FSW = 0.0440
| Unknown | 60S ACIDIC RIBOSOMAL PROTEIN P0 (RPP0A) |
| AT2G10440
| PredictedAffinity Capture-MS | FSW = 0.0923
| Unknown | UNKNOWN PROTEIN |
| AT3G07120
| PredictedSynthetic Rescue | FSW = 0.0305
| Unknown | ZINC FINGER (C3HC4-TYPE RING FINGER) FAMILY PROTEIN |
| AT3G53650
| Predictedinteraction prediction | FSW = 0.0171
| Unknown | HISTONE H2B PUTATIVE |
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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
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