Arabidopsis thaliana protein interaction network
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
Laboratório de Biologia Integrativa e Sistêmica (LaBIS)
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AT3G12860 - ( nucleolar protein Nop56 putative )
75 Proteins interacs with AT3G12860| Locus | Method | FSW  | Cellular Compartment Classification (C3) | Description |
|---|---|---|---|---|
AT5G15200
   | PredictedAffinity Capture-MS | FSW = 0.2155
| Class C:nucleus | 40S RIBOSOMAL PROTEIN S9 (RPS9B) |
| AT5G20290
| PredictedAffinity Capture-MS | FSW = 0.2545
| Class C:nucleus | 40S RIBOSOMAL PROTEIN S8 (RPS8A) |
| AT3G11964 | PredictedAffinity Capture-MS | FSW = 0.3575
| Class C:nucleus | RNA BINDING |
| AT4G00100
| PredictedAffinity Capture-MS | FSW = 0.3306
| Class C:nucleus | ATRPS13A (ARABIDOPSIS THALIANA RIBOSOMAL PROTEIN S13A) STRUCTURAL CONSTITUENT OF RIBOSOME |
| AT5G04600
| PredictedAffinity Capture-MS | FSW = 0.2274
| Class C:nucleus | RNA RECOGNITION MOTIF (RRM)-CONTAINING PROTEIN |
| AT3G58660
| PredictedAffinity Capture-MS | FSW = 0.1475
| Class C:nucleus | 60S RIBOSOMAL PROTEIN-RELATED |
| AT3G57150
| PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.3045
| Class C:nucleus | NAP57 (ARABIDOPSIS THALIANA HOMOLOGUE OF NAP57) PSEUDOURIDINE SYNTHASE |
| AT3G05060
| PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-WesternAffinity Capture-WesternAffinity Capture-MStwo hybridinterologs mappinginteraction predictionGene neighbors methodPhylogenetic profile methodCo-expression | FSW = 0.5056
| Class C:nucleus | SAR DNA-BINDING PROTEIN PUTATIVE |
| AT3G06720
| PredictedAffinity Capture-MS | FSW = 0.0132
| Class C:nucleus | IMPA-1 (IMPORTIN ALPHA ISOFORM 1) BINDING / PROTEIN TRANSPORTER |
| AT3G62310
| PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.2681
| Class C:nucleus | RNA HELICASE PUTATIVE |
| AT1G56110
| PredictedPhylogenetic profile methodCo-expression | FSW = 0.4207
| Class C:nucleus | NOP56 (ARABIDOPSIS HOMOLOG OF NUCLEOLAR PROTEIN NOP56) |
| AT5G27120
| PredictedPhylogenetic profile method | FSW = 0.1235
| Class C:nucleus | SAR DNA-BINDING PROTEIN PUTATIVE |
| AT1G74060
| PredictedAffinity Capture-MS | FSW = 0.0912
| Class C:nucleus | 60S RIBOSOMAL PROTEIN L6 (RPL6B) |
| AT4G25630
| Predictedtwo hybridSynthetic LethalityAffinity Capture-WesternAffinity Capture-MStwo hybridAffinity Capture-MSAffinity Capture-Westerninterologs mappinginteraction predictionEnriched domain pairCo-expression | FSW = 0.4237
| Class C:nucleus | FIB2 (FIBRILLARIN 2) SNORNA BINDING |
| AT2G41500
| PredictedAffinity Capture-MS | FSW = 0.0401
| Class C:nucleus | EMB2776 NUCLEOTIDE BINDING |
| AT1G48920
| PredictedAffinity Capture-MS | FSW = 0.1325
| Class C:nucleus | ATNUC-L1 NUCLEIC ACID BINDING / NUCLEOTIDE BINDING |
| AT3G16810
| PredictedAffinity Capture-MS | FSW = 0.1172
| Class C:nucleus | APUM24 (ARABIDOPSIS PUMILIO 24) RNA BINDING / BINDING |
| AT5G48240
| PredictedAffinity Capture-MS | FSW = 0.0924
| Class C:nucleus | UNKNOWN PROTEIN |
| AT5G54910
| PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.1161
| Class C:nucleus | DEAD/DEAH BOX HELICASE PUTATIVE |
| AT5G55920
| PredictedAffinity Capture-MSAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.0770
| Class C:nucleus | NUCLEOLAR PROTEIN PUTATIVE |
| AT3G18130
| PredictedAffinity Capture-MS | FSW = 0.1063
| Class C:nucleus | RACK1C_AT (RECEPTOR FOR ACTIVATED C KINASE 1 C) NUCLEOTIDE BINDING |
| AT4G05410
| PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MS | FSW = 0.5459
| Class C:nucleus | TRANSDUCIN FAMILY PROTEIN / WD-40 REPEAT FAMILY PROTEIN |
| AT5G66540
| PredictedAffinity Capture-MS | FSW = 0.5187
| Class C:nucleus | FUNCTIONS IN MOLECULAR_FUNCTION UNKNOWN INVOLVED IN RRNA PROCESSING LOCATED IN CYTOSOL NUCLEOLUS NUCLEUS EXPRESSED IN 22 PLANT STRUCTURES EXPRESSED DURING 12 GROWTH STAGES CONTAINS INTERPRO DOMAIN/S U3 SMALL NUCLEOLAR RIBONUCLEOPROTEIN COMPLEX SUBUNIT MPP10P (INTERPROIPR012173) MPP10 PROTEIN (INTERPROIPR007151) HAS 76240 BLAST HITS TO 38667 PROTEINS IN 1479 SPECIES ARCHAE - 252 BACTERIA - 6537 METAZOA - 31185 FUNGI - 9935 PLANTS - 3937 VIRUSES - 750 OTHER EUKARYOTES - 23644 (SOURCE NCBI BLINK) |
| AT1G63810
| PredictedAffinity Capture-MS | FSW = 0.4530
| Class C:nucleus | FUNCTIONS IN MOLECULAR_FUNCTION UNKNOWN INVOLVED IN BIOLOGICAL_PROCESS UNKNOWN LOCATED IN CELLULAR_COMPONENT UNKNOWN EXPRESSED IN 21 PLANT STRUCTURES EXPRESSED DURING 13 GROWTH STAGES CONTAINS INTERPRO DOMAIN/S NRAP PROTEIN (INTERPROIPR005554) HAS 268 BLAST HITS TO 263 PROTEINS IN 124 SPECIES ARCHAE - 3 BACTERIA - 0 METAZOA - 116 FUNGI - 89 PLANTS - 17 VIRUSES - 0 OTHER EUKARYOTES - 43 (SOURCE NCBI BLINK) |
| AT3G57000
| PredictedAffinity Capture-MS | FSW = 0.4994
| Class C:nucleus | NUCLEOLAR ESSENTIAL PROTEIN-RELATED |
| AT5G58420
| PredictedAffinity Capture-MS | FSW = 0.2781
| Class C:nucleus | 40S RIBOSOMAL PROTEIN S4 (RPS4D) |
| AT4G22380
| Predictedtwo hybridtwo hybridAffinity Capture-WesternAffinity Capture-MS | FSW = 0.1236
| Class C:nucleus | RIBOSOMAL PROTEIN L7AE/L30E/S12E/GADD45 FAMILY PROTEIN |
| AT1G63780
| PredictedAffinity Capture-MS | FSW = 0.2226
| Class C:nucleus | IMP4 |
| AT3G21540
| PredictedAffinity Capture-MS | FSW = 0.3732
| Class C:nucleus | TRANSDUCIN FAMILY PROTEIN / WD-40 REPEAT FAMILY PROTEIN |
| AT2G17360
| PredictedAffinity Capture-MS | FSW = 0.2291
| Unknown | 40S RIBOSOMAL PROTEIN S4 (RPS4A) |
| AT2G37270
| PredictedAffinity Capture-MS | FSW = 0.1055
| Unknown | ATRPS5B (RIBOSOMAL PROTEIN 5B) STRUCTURAL CONSTITUENT OF RIBOSOME |
| AT1G07770
| PredictedAffinity Capture-MS | FSW = 0.1794
| Unknown | RPS15A (RIBOSOMAL PROTEIN S15A) STRUCTURAL CONSTITUENT OF RIBOSOME |
| AT1G18080
| Predictedinteraction prediction | FSW = 0.0655
| Unknown | ATARCA NUCLEOTIDE BINDING |
| AT5G16630
| PredictedAffinity Capture-MS | FSW = 0.0224
| Unknown | RAD4 DAMAGED DNA BINDING |
| AT3G06530
| PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MS | FSW = 0.5422
| Unknown | BINDING |
| AT5G53480
| PredictedAffinity Capture-MS | FSW = 0.0122
| Unknown | IMPORTIN BETA-2 PUTATIVE |
| AT5G60790
| PredictedAffinity Capture-MS | FSW = 0.0483
| Unknown | ATGCN1 TRANSPORTER |
| AT2G47990
| PredictedAffinity Capture-MS | FSW = 0.3741
| Unknown | SWA1 (SLOW WALKER1) NUCLEOTIDE BINDING |
| AT2G31970
| PredictedAffinity Capture-MS | FSW = 0.0118
| Unknown | RAD50 ATP BINDING / NUCLEASE/ ZINC ION BINDING |
| AT3G23890
| PredictedAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.0151
| Unknown | TOPII (TOPOISOMERASE II) ATP BINDING / DNA BINDING / DNA TOPOISOMERASE (ATP-HYDROLYZING)/ DNA TOPOISOMERASE/ DNA-DEPENDENT ATPASE |
| AT1G10490
| PredictedAffinity Capture-MS | FSW = 0.4752
| Unknown | UNKNOWN PROTEIN |
| AT1G06720
| PredictedAffinity Capture-MS | FSW = 0.4801
| Unknown | INVOLVED IN RIBOSOME BIOGENESIS LOCATED IN NUCLEUS EXPRESSED IN 21 PLANT STRUCTURES EXPRESSED DURING 13 GROWTH STAGES CONTAINS INTERPRO DOMAIN/S AARP2CN (INTERPROIPR012948) PROTEIN OF UNKNOWN FUNCTION DUF663 (INTERPROIPR007034) BEST ARABIDOPSIS THALIANA PROTEIN MATCH IS UNKNOWN PROTEIN (TAIRAT1G424401) HAS 7944 BLAST HITS TO 5342 PROTEINS IN 373 SPECIES ARCHAE - 33 BACTERIA - 667 METAZOA - 2609 FUNGI - 1045 PLANTS - 414 VIRUSES - 80 OTHER EUKARYOTES - 3096 (SOURCE NCBI BLINK) |
| AT1G72320
| PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.3955
| Unknown | APUM23 (ARABIDOPSIS PUMILIO 23) RNA BINDING / BINDING |
| AT2G17250
| PredictedAffinity Capture-MS | FSW = 0.4995
| Unknown | EMB2762 (EMBRYO DEFECTIVE 2762) |
| AT2G34357 | PredictedAffinity Capture-MS | FSW = 0.3996
| Unknown | BINDING |
| AT1G03530
| PredictedAffinity Capture-MS | FSW = 0.0689
| Unknown | NAF1 (NUCLEAR ASSEMBLY FACTOR 1) |
| AT1G15440
| PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.2521
| Unknown | TRANSDUCIN FAMILY PROTEIN / WD-40 REPEAT FAMILY PROTEIN |
| AT1G31660
| PredictedAffinity Capture-MS | FSW = 0.3816
| Unknown | FUNCTIONS IN MOLECULAR_FUNCTION UNKNOWN INVOLVED IN BIOLOGICAL_PROCESS UNKNOWN LOCATED IN CELLULAR_COMPONENT UNKNOWN EXPRESSED IN 21 PLANT STRUCTURES EXPRESSED DURING 13 GROWTH STAGES CONTAINS INTERPRO DOMAIN/S BYSTIN (INTERPROIPR007955) HAS 370 BLAST HITS TO 362 PROTEINS IN 156 SPECIES ARCHAE - 0 BACTERIA - 7 METAZOA - 139 FUNGI - 93 PLANTS - 32 VIRUSES - 0 OTHER EUKARYOTES - 99 (SOURCE NCBI BLINK) |
| AT1G31970
| PredictedAffinity Capture-MSAffinity Capture-MS | FSW = 0.1089
| Unknown | STRS1 (STRESS RESPONSE SUPPRESSOR 1) ATP BINDING / ATP-DEPENDENT HELICASE/ HELICASE/ NUCLEIC ACID BINDING |
| AT1G57620
| PredictedAffinity Capture-MS | FSW = 0.0038
| Unknown | EMP24/GP25L/P24 FAMILY PROTEIN |
| AT1G69070
| PredictedAffinity Capture-MS | FSW = 0.4459
| Unknown | FUNCTIONS IN MOLECULAR_FUNCTION UNKNOWN INVOLVED IN BIOLOGICAL_PROCESS UNKNOWN LOCATED IN CELLULAR_COMPONENT UNKNOWN EXPRESSED IN 23 PLANT STRUCTURES EXPRESSED DURING 13 GROWTH STAGES CONTAINS INTERPRO DOMAIN/S NOP14-LIKE PROTEIN (INTERPROIPR007276) HAS 64668 BLAST HITS TO 30830 PROTEINS IN 1152 SPECIES ARCHAE - 207 BACTERIA - 18692 METAZOA - 20758 FUNGI - 6782 PLANTS - 2177 VIRUSES - 523 OTHER EUKARYOTES - 15529 (SOURCE NCBI BLINK) |
| AT1G80410
| PredictedAffinity Capture-MS | FSW = 0.0378
| Unknown | EMB2753 (EMBRYO DEFECTIVE 2753) BINDING |
| AT2G21440
| PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSinteraction prediction | FSW = 0.1854
| Unknown | RNA RECOGNITION MOTIF (RRM)-CONTAINING PROTEIN |
| AT2G33560
| Predictedinterologs mapping | FSW = 0.0078
| Unknown | SPINDLE CHECKPOINT PROTEIN-RELATED |
| AT3G10530
| PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSinteraction predictionCo-expression | FSW = 0.4078
| Unknown | TRANSDUCIN FAMILY PROTEIN / WD-40 REPEAT FAMILY PROTEIN |
| AT3G11910
| PredictedAffinity Capture-MS | FSW = 0.0257
| Unknown | UBP13 (UBIQUITIN-SPECIFIC PROTEASE 13) UBIQUITIN THIOLESTERASE/ UBIQUITIN-SPECIFIC PROTEASE |
| AT3G24830
| PredictedAffinity Capture-MS | FSW = 0.1246
| Unknown | 60S RIBOSOMAL PROTEIN L13A (RPL13AB) |
| AT3G56510
| PredictedAffinity Capture-MS | FSW = 0.2564
| Unknown | TBP-BINDING PROTEIN PUTATIVE |
| AT4G07410
| PredictedAffinity Capture-MS | FSW = 0.5342
| Unknown | TRANSDUCIN FAMILY PROTEIN / WD-40 REPEAT FAMILY PROTEIN |
| AT4G08500
| PredictedAffinity Capture-MS | FSW = 0.0515
| Unknown | MEKK1 (MAP KINASE KINASE KINASE 1) DNA BINDING / MAP KINASE KINASE KINASE/ KINASE/ KINASE BINDING / PROTEIN BINDING |
| AT4G28200
| PredictedAffinity Capture-MS | FSW = 0.4815
| Unknown | FUNCTIONS IN MOLECULAR_FUNCTION UNKNOWN INVOLVED IN RNA PROCESSING LOCATED IN INTRACELLULAR EXPRESSED IN 22 PLANT STRUCTURES EXPRESSED DURING 13 GROWTH STAGES CONTAINS INTERPRO DOMAIN/S RNA-PROCESSING PROTEIN HAT HELIX (INTERPROIPR003107) U3 SMALL NUCLEOLAR RNA-ASSOCIATED PROTEIN 6 (INTERPROIPR013949) HAS 352 BLAST HITS TO 342 PROTEINS IN 144 SPECIES ARCHAE - 0 BACTERIA - 0 METAZOA - 111 FUNGI - 130 PLANTS - 24 VIRUSES - 0 OTHER EUKARYOTES - 87 (SOURCE NCBI BLINK) |
| AT4G28450
| PredictedAffinity Capture-MS | FSW = 0.4852
| Unknown | NUCLEOTIDE BINDING / PROTEIN BINDING |
| AT4G30991 | PredictedAffinity Capture-MS | FSW = 0.4777
| Unknown | NUCLEOTIDE BINDING / PROTEIN BINDING |
| AT5G07760 | PredictedAffinity Capture-MS | FSW = 0.0098
| Unknown | FORMIN HOMOLOGY 2 DOMAIN-CONTAINING PROTEIN / FH2 DOMAIN-CONTAINING PROTEIN |
| AT5G08420
| PredictedAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSAffinity Capture-MSinteraction prediction | FSW = 0.4397
| Unknown | RNA BINDING |
| AT5G14050
| PredictedAffinity Capture-MSinteraction prediction | FSW = 0.2000
| Unknown | TRANSDUCIN FAMILY PROTEIN / WD-40 REPEAT FAMILY PROTEIN |
| AT5G15750
| PredictedAffinity Capture-MS | FSW = 0.4717
| Unknown | RNA-BINDING S4 DOMAIN-CONTAINING PROTEIN |
| AT5G53770
| PredictedAffinity Capture-MSinteraction prediction | FSW = 0.0131
| Unknown | NUCLEOTIDYLTRANSFERASE FAMILY PROTEIN |
| AT3G24080
| PredictedAffinity Capture-MS | FSW = 0.2740
| Unknown | KRR1 FAMILY PROTEIN |
| AT4G04940
| PredictedAffinity Capture-MS | FSW = 0.4346
| Unknown | TRANSDUCIN FAMILY PROTEIN / WD-40 REPEAT FAMILY PROTEIN |
| AT5G16750
| PredictedAffinity Capture-MS | FSW = 0.3006
| Unknown | TOZ (TORMOZEMBRYO DEFECTIVE) NUCLEOTIDE BINDING |
| AT5G65900
| PredictedAffinity Capture-MS | FSW = 0.3147
| Unknown | DEAD/DEAH BOX HELICASE PUTATIVE |
| AT1G54140
| Predictedinteraction prediction | FSW = 0.0100
| Unknown | TAFII21 (TATA BINDING PROTEIN ASSOCIATED FACTOR 21KDA SUBUNIT) DNA BINDING / TRANSCRIPTION INITIATION FACTOR |
| AT5G67380
| Predictedinteraction prediction | FSW = 0.0525
| Unknown | CKA1 (CASEIN KINASE ALPHA 1) KINASE |
| AT5G27140
| PredictedPhylogenetic profile method | FSW = 0.0882
| Unknown | SAR DNA-BINDING PROTEIN 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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