Arabidopsis thaliana protein interaction network
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
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AT4G02070 - ( MSH6 (MUTS HOMOLOG 6) damaged DNA binding )
38 Proteins interacs with AT4G02070Locus | Method | FSW | Cellular Compartment Classification (C3) | Description |
---|---|---|---|---|
AT3G18524 | Experimentalco-fractionationCo-fractionationco-fractionationCo-fractionation | FSW = 0.4200
| Class B:plasma membranenucleusClass D:nucleus (p = 0.78) | MSH2 (MUTS HOMOLOG 2) ATP BINDING / DAMAGED DNA BINDING / MISMATCHED DNA BINDING / PROTEIN BINDING |
AT2G06510 | PredictedAffinity Capture-MSAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.1972
| Class C:nucleus | RPA1A (REPLICATION PROTEIN A 1A) DNA BINDING / NUCLEIC ACID BINDING |
AT5G67630 | PredictedAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.0182
| Class C:nucleus | DNA HELICASE PUTATIVE |
AT3G48750 | Predictedbiochemicalinteraction prediction | FSW = 0.0140
| Class C:nucleus | CDC2 (CELL DIVISION CONTROL 2) CYCLIN-DEPENDENT PROTEIN KINASE/ KINASE/ PROTEIN BINDING / PROTEIN KINASE |
AT5G14170 | Predictedtwo hybridtwo hybridCo-expression | FSW = 0.0061
| Class C:nucleus | CHC1 |
AT2G24490 | PredictedAffinity Capture-MSAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.0323
| Class C:nucleus | RPA2 (REPLICON PROTEIN A2) PROTEIN BINDING |
AT1G05120 | PredictedAffinity Capture-MSAffinity Capture-MSinteraction prediction | FSW = 0.0446
| Class C:nucleus | SNF2 DOMAIN-CONTAINING PROTEIN / HELICASE DOMAIN-CONTAINING PROTEIN / RING FINGER DOMAIN-CONTAINING PROTEIN |
AT2G47620 | PredictedAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.0147
| Class C:nucleus | ATSWI3A (SWITCH/SUCROSE NONFERMENTING 3A) DNA BINDING |
AT2G29570 | Predictedin vitroin vitroAffinity Capture-MSCo-expression | FSW = 0.1345
| Class C:nucleus | PCNA2 (PROLIFERATING CELL NUCLEAR ANTIGEN 2) DNA BINDING / DNA POLYMERASE PROCESSIVITY FACTOR |
AT1G07370 | PredictedReconstituted ComplexReconstituted ComplexPhenotypic Enhancementco-fractionationCo-fractionationAffinity Capture-WesternReconstituted ComplexPhenotypic EnhancementAffinity Capture-Westernco-fractionationCo-fractionationinteraction predictionCo-expression | FSW = 0.1986
| Class C:nucleus | PCNA1 (PROLIFERATING CELLULAR NUCLEAR ANTIGEN) DNA BINDING / DNA POLYMERASE PROCESSIVITY FACTOR/ PROTEIN BINDING |
AT1G01040 | PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.0451
| Class C:nucleus | DCL1 (DICER-LIKE 1) ATP-DEPENDENT HELICASE/ DOUBLE-STRANDED RNA BINDING / PROTEIN BINDING / RIBONUCLEASE III |
AT3G11630 | PredictedPhenotypic Enhancement | FSW = 0.0594
| Unknown | 2-CYS PEROXIREDOXIN CHLOROPLAST (BAS1) |
AT3G48190 | PredictedCo-purification | FSW = 0.2551
| Unknown | ATM (ATAXIA-TELANGIECTASIA MUTATED) 1-PHOSPHATIDYLINOSITOL-3-PHOSPHATE 5-KINASE |
AT3G49830 | PredictedAffinity Capture-MS | FSW = 0.0165
| Unknown | DNA HELICASE-RELATED |
AT5G41150 | PredictedPhenotypic Enhancement | FSW = 0.2002
| Unknown | UVH1 (ULTRAVIOLET HYPERSENSITIVE 1) SINGLE-STRANDED DNA SPECIFIC ENDODEOXYRIBONUCLEASE |
AT2G31970 | PredictedCo-purification | FSW = 0.1537
| Unknown | RAD50 ATP BINDING / NUCLEASE/ ZINC ION BINDING |
AT5G63960 | PredictedSynthetic LethalitySynthetic LethalityPhenotypic EnhancementCo-expression | FSW = 0.2002
| Unknown | EMB2780 (EMBRYO DEFECTIVE 2780) DNA BINDING / DNA-DIRECTED DNA POLYMERASE/ NUCLEIC ACID BINDING / NUCLEOTIDE BINDING |
AT5G54260 | PredictedCo-purification | FSW = 0.2039
| Unknown | MRE11 (MEIOTIC RECOMBINATION 11) ENDONUCLEASE/ EXONUCLEASE/ HYDROLASE/ MANGANESE ION BINDING / PROTEIN SERINE/THREONINE PHOSPHATASE |
AT5G40820 | PredictedAffinity Capture-MSAffinity Capture-MSinteraction prediction | FSW = 0.1421
| Unknown | ATRAD3 BINDING / INOSITOL OR PHOSPHATIDYLINOSITOL KINASE/ PHOSPHOTRANSFERASE ALCOHOL GROUP AS ACCEPTOR / PROTEIN SERINE/THREONINE KINASE |
AT1G10930 | PredictedAffinity Capture-MSCo-purificationinteraction prediction | FSW = 0.1355
| Unknown | RECQ4A ATP BINDING / ATP-DEPENDENT HELICASE/ HELICASE/ NUCLEIC ACID BINDING |
AT3G05740 | PredictedCo-purification | FSW = 0.2547
| Unknown | RECQI1 (ARABIDOPSIS RECQ HELICASE L1) ATP BINDING / ATP-DEPENDENT HELICASE/ HELICASE/ NUCLEIC ACID BINDING |
AT1G04020 | PredictedReconstituted Complex | FSW = 0.1088
| Unknown | BARD1 (BREAST CANCER ASSOCIATED RING 1) DNA BINDING / TRANSCRIPTION COACTIVATOR |
AT3G02680 | PredictedCo-purification | FSW = 0.3549
| Unknown | NBS1 (NIJMEGEN BREAKAGE SYNDROME 1) |
AT4G09140 | PredictedCo-purificationinterologs mappinginterologs mappingReconstituted Complexinteraction predictionCo-expression | FSW = 0.3499
| Unknown | MLH1 (MUTL-HOMOLOGUE 1) PROTEIN BINDING BRIDGING |
AT5G22010 | PredictedCo-purification | FSW = 0.2900
| Unknown | ATRFC1 (REPLICATION FACTOR C 1) ATP BINDING / DNA BINDING / DNA CLAMP LOADER/ NUCLEOSIDE-TRIPHOSPHATASE/ NUCLEOTIDE BINDING |
AT1G21710 | PredictedPhenotypic EnhancementPhenotypic EnhancementPhenotypic EnhancementCo-expression | FSW = 0.1757
| Unknown | OGG1 (8-OXOGUANINE-DNA GLYCOSYLASE 1) OXIDIZED PURINE BASE LESION DNA N-GLYCOSYLASE |
AT1G49980 | Predictedinterologs mapping | FSW = 0.1217
| Unknown | DNA-DIRECTED DNA POLYMERASE/ DAMAGED DNA BINDING |
AT1G80710 | PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.0333
| Unknown | TRANSDUCIN FAMILY PROTEIN / WD-40 REPEAT FAMILY PROTEIN |
AT1G08260 | PredictedPhenotypic EnhancementCo-expression | FSW = 0.0949
| Unknown | TIL1 (TILTED 1) DNA BINDING / DNA-DIRECTED DNA POLYMERASE/ NUCLEIC ACID BINDING / NUCLEOTIDE BINDING / ZINC ION BINDING |
AT1G29990 | PredictedPhenotypic Suppression | FSW = 0.0141
| Unknown | PDF6 (PREFOLDIN 6) UNFOLDED PROTEIN BINDING |
AT2G45700 | PredictedPhenotypic Enhancement | FSW = 0.0876
| Unknown | STERILE ALPHA MOTIF (SAM) DOMAIN-CONTAINING PROTEIN |
AT4G02460 | PredictedPhenotypic Enhancementinterologs mappinginteraction predictionCo-expression | FSW = 0.3643
| Unknown | PMS1 (POSTMEIOTIC SEGREGATION 1) ATP BINDING / MISMATCHED DNA BINDING |
AT4G25540 | PredictedPhenotypic EnhancementPhenotypic EnhancementPhenotypic EnhancementPhenotypic EnhancementPhenotypic EnhancementPhenotypic Enhancementinterologs mappingAffinity Capture-MSAffinity Capture-MSPhenotypic EnhancementPhenotypic Enhancementinteraction predictionEnriched domain pairCo-expression | FSW = 0.2616
| Unknown | MSH3 (ARABIDOPSIS HOMOLOG OF DNA MISMATCH REPAIR PROTEIN MSH3) DAMAGED DNA BINDING / MISMATCHED DNA BINDING / PROTEIN BINDING |
AT4G35520 | PredictedPhenotypic Enhancement | FSW = 0.0425
| Unknown | MLH3 (MUTL PROTEIN HOMOLOG 3) ATP BINDING / MISMATCHED DNA BINDING |
AT5G22110 | PredictedPhenotypic Enhancement | FSW = 0.0484
| Unknown | ATDPB2 (ARABIDOPSIS THALIANA DNA POLYMERASE EPSILON SUBUNIT B2) DNA BINDING / DNA-DIRECTED DNA POLYMERASE/ NUCLEIC ACID BINDING |
AT5G63920 | PredictedAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.1711
| Unknown | DNA TOPOISOMERASE III ALPHA PUTATIVE |
AT5G44740 | Predictedinterologs mapping | FSW = 0.0533
| Unknown | POLH (Y-FAMILT DNA POLYMERASE H) DNA-DIRECTED DNA POLYMERASE |
AT3G26680 | PredictedPhenotypic Enhancement | FSW = 0.1337
| Unknown | SNM1 (SENSITIVE TO NITROGEN MUSTARD 1) |
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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