Table 2.
Protein-Protein Interaction Pairs Identified in the High-Throughput in vivo Assay
| PPI No. | BIND clone ID | annotation | ACT clone ID | annotation |
| 1 | 0610006G13 | (J04716) ferritin light chain [M] | 0610006G13 | (J04716) ferrin light chain [M] |
| 2 | 0610006G13 | (J04716) ferritin light chain [M] | 1500001P18 | (J03941) ferritin heavy chain [M] |
| 3 | 0610007F07 | (K01515) hypoxanthine phosphoribosyltransferase [M] | 0610007F07 | (K01515) hypoxanthine phosphoribosyltransferase [M] |
| 4 | 0610007L03 | (U46837) SRB7 [H] | 2010309C18 | (U94662) TFG protein [M] |
| 5 | 0610007L13 | (X13752) delta-aminolevulinate dehydratase (AA 1-330) [M] | 0610007L13 | (X13752) delta-aminolevulinate dehydratase [M] |
| 6 | 0610009D16 | (D14811) hypothetical protein KIAA0110 [H] e-119 | 2410002G23 | (U96131) HPV16 E1 protein binding protein [H] |
| 7 | 0610009O09 | (M13955) type II mesothelial keratin K7 [H] | 1200007G13 | (U13921) cytokeratin 13 [M] |
| 8 | 0610009O09 | (M13955) type II mesothelial keratin K7 [H] | 2210407G07 | (AB013608) cytokeratin 17 [M] |
| 9 | 0610009O09 | (M13955) type II mesothelial keratin K7 [H] | 4631426H08 | (AB013607) c29 [M] e-165 |
| 10 | 0610010C03 | (M28723) antioxidant protein 1 [M] | 0610010C03 | (M28723) antioxidant protein 1 [M] |
| 11 | 0610010F19 | (AB013360) DPM2 [M] | 130015L18 | (AF050157) MHC class II beta chain [M] |
| 12 | 0610011M09 | (AL049610) transcription elongation factor A (SII)-like 1 [H] | 1700023B02 | (AF098297) CBF1 interacting corepressor CIR [H] |
| 13 | 0610012G03 | novel protein | 0610009O08 | (U24223) alpha-complex proein 1 [H] |
| 14 | 0610012H09 | (M36429) transducin beta-2 subunit [H] | 0610009O08 | (U24223) alpha-complex protein 1 [H] |
| 15 | 0610012K15 | (AF043225) 6-pyruvoyl-tetrahydropterin synthase [M] | 0610012K15 | (AF043225) 6-pyruvoyl-tetrahydropterin synthase [M] |
| 16 | 0610027F08 | (AL023859) putative tRNA splicing endonuclease γ subunit [Sc] 9e-12 | 110001K11 | (M81086) beta-tropomyosin [M] |
| 17 | 0610030M18 | (AF022813) tetraspan [H] | 1500006F05 | (U19582) claudin-11 [M] |
| 18 | 0610037N03 | (D63902) estrogen-responsive finger protein [M] 7e-10 | 2010309C18 | (U94662) TFG protein [M] |
| 19 | 0610042A16 | (AF068179) calcium modulating cyclophilin ligand CAMLG [H] | 2010107G23 | novel protein |
| 20 | 0610042H17 | (Z67995) pyrroline-5-carboxylate reductase [C] 1e-64 | 0610042H17 | (Z67995) pyrroline-5-carboxylate reductase [C] 1e-64 |
| 21 | 0910001B06 | (AF182293) U6 snRNA-associated Sm-like protein LSm7 [H] | 2310034K10 | (AJ238097) Lsm5 protein [H] |
| 22 | 0910001F03 | (AF151884) CGI-126 protein [H] | 311001N19 | (AC000098) Similar to unknown protein [C] e-105 |
| 23 | 1010001P06 | (AF047659) No definition line found [C] 9e-92 | 2010323J02 | (U49112) ALG-2 [M] |
| 24 | 1020013A21 | (D87438) Similar to a C. elegans protein [H] | 2310069P03 | (AC004839) similar to AL031532[H] |
| 25 | 1100001A17 | (D28557) RYB-a [R] | 0610042H17 | (Z67995) pyrroline-5-carboxylate reductase [C] 1e-64 |
| 26 | 1110001H08 | (M59293) Id2 protein [M] | 3300001C01 | (U16321) MITF-2A protein [M] |
| 27 | 1110001H08 | (M69293) Id2 protein [M] | 5730435I22 | (X54549) Pan-2 [R] |
| 28 | 1110003H09 | (Z96932) nuclear autoantigen of 14 kDa [H] | 1110003H09 | (Z96932) nuclear autoantigen of 14 kDa [H] |
| 29 | 1110004E04 | novel protein | 1110004E04 | novel protein |
| 30 | 1110004E04 | novel protein | 1110018O07 | novel protein |
| 31 | 1110008E06 | novel protein | 2010309C18 | (U94662) TFG protein [M] |
| 32 | 1110013A16 | (AF063937) squamous cell carcinoma antigen 2 [M] | 2900011O08 | (U95740) Unknown gene product [H] |
| 33 | 1110014J03 | (AL110500) hypothetical protein [C] | 2310047L21 | (AC006465) supported by mouse EST AA277724 [H] 6e-31 |
| 34 | 1110020E15 | novel protein | 1810038N03 | novel protein |
| 35 | 1110033F04 | (X80035) hair keratin associated protein [O] 5e-06 | 1110004E04 | novel protein |
| 36 | 1110033F04 | (X80035) hair keratin associated protein [O] 5e-06 | 1110018O07 | novel protein |
| 37 | 1110054P19 | novel protein | 1110004E04 | novel protein |
| 38 | 1110054P19 | novel protein | 1110007B04 | novel protein |
| 39 | 1190002C06 | novel protein | 1190002C06 | novel protein |
| 40 | 1200005I04 | (AF095193) BAG-family molecualr chaperone regulator-3; BAG-3 [H] | 1300018P04 | (AF133207) protein kinase [H] |
| 41 | 1200007G13 | (U13921) cytokeratin 13 [M] | 0610009O09 | (M13955) type II mesothelial keratin K7 [H] |
| 42 | 1200015A19 | novel protein | 1200015A19 | novel protein |
| 43 | 1300007C18 | (U66900) acid labile subunit [M] | 2010323J02 | (U49112) ALG-2 [M] |
| 44 | 1300008O09 | novel protein | 0610012K15 | (AF043225) 6-pyruvoyl-tetrahydropterin synthase [M] |
| 45 | 1500001L03 | novel protein | 0610012K15 | (AF043225) 6-pyruvoyl-tetrahydropterin synthase [M] |
| 46 | 1500001P18 | (J03941) ferritin heavy chain [M] | 0610006G13 | (J04716) ferritin light chain [M] |
| 47 | 1500001P18 | (J03941) ferritin heavy chain [M] | 1500001P18 | (J03941) ferritin heavy chain [M] |
| 48 | 1500003N18 | (AF061346) Edp 1 protein [M] e-103 | 1500003N18 | (AF061346) Edp 1 protein [M] e-103 |
| 49 | 1500006O17 | (J04716) ferritin light chain [M] | 1500031L05 | (AF026465) putative cell adhesion molecule [M] |
| 50 | 1500012F11 | (AF074723) RNA polymerase transcriptional regulation mediator [H] | 1200015A19 | novel protein |
| 51 | 1500016H19 | (AB001740) p27 [H] | 1500016H19 | (AB001740) p27 [H] |
| 52 | 1500016H19 | (AB001740) p27 [H] | 2700002C15 | (Z31399) CCTeta protein eta chain [M] |
| 53 | 1500037O10 | (U28068) neurogenic differentiation factor (neuroD) [M] | 3300001C01 | (U16321) MITF-2A protein [M] |
| 54 | 1500040C19 | (X93357) SYT [M] | 0610043D20 | (Z85979) histone H3.3A [M] |
| 55 | 1600014M03 | (U06755) acidic calponin [R] | 2310007K12 | (D37837) 65-kDa macrophage protein [M] |
| 56 | 1700003P11 | (AF151883) CGI-125 protein [H] | 1110001O11 | (AF119676) RAB25 [M] |
| 57 | 1700022I15 | (X75959) polyA binding protein [M] | 1700021C22 | (NM_011517) synaptonemal complex protein 3 [M] |
| 58 | 1700025D04 | (U81002) TRAF4 associated factor 1 [H] 2e-74 | 2310047M10 | novel protein |
| 59 | 1700026B03 | (L32752) GTPase (Ran) [M] | 2400006H24 | (Z49574) ORF YJR074w [Sc] 1e-10 |
| 60 | 1700029P02 | (AF019926) protein kinase [M] | 2010309C18 | (U94662) TFG protein [M] |
| 62 | 1810014B23 | (X63469) TFIIE-beta [H] | 2810048P05 | novel protein |
| 65 | 1810043E06 | (M60523) Id3 protein [M] | 3300001C01 | (U16321) MTF-2A protein [M] |
| 66 | 1810043E06 | (M60523) Id3 protein [M] | 3110001I23 | (D32007) CBFA2T1(Mtg8a) [M] |
| 72 | 2010016A14 | (U43884) Id1B protein [M] | 3110001I23 | (D32007) CBFA2T1(Mtg8a) [M] |
| 73 | 2010016A14 | (U43884) Id1B protein [M] | 3300001C01 | (U16321) MITF-2A protein [M] |
| 74 | 2010016A14 | (U43884) Id1B protein [M] | 5730435I22 | (X54549) Pan-2 [R] |
| 85 | 2210407G07 | (AB013608) cytokeratin 17 [M] | 0610009O09 | (M13955) type II mesothelial keratin K7 [H] |
| 91 | 2310015J09 | (M27734) keratin type I [M] | 330001P10 | (M19723) keratin K5 [H] |
| 119 | 2610027O10 | (AF029753) basic helix-loop-helix factor Cor1 [M] | 5730435I22 | (X54549) Pan-2 [R] |
| 133 | 2900002E16 | (D83999) RNA polymerase II 3 (Rpo2-3) [M] | 2810048P05 | novel protein |
| 141 | 3300001C01 | (U16321) MITF-2A proein [M] | 1110001H08 | (M69293) Id2 protein [M] |
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Clone IDs and annotations of the participants in part of 145 interaction pairs are shown. The complete table is available as an on-line supplement at http://www.genome.org/ and also available at our Web site, http://genome.gsc.riken.go.jp/. Results ofBLASTX (2.0.11) search were used for the annotation. Where similar genes with an E-value of <e-5 are specified, their accession number in parenthesis, gene name, species (in brackets), and E-value are shown. In the case of identical or orthlogous genes, their E-values are omitted. Other clones are described as novel proteins.
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Abbreviations of species are as follows: A, Arabidopsis thaliana; C, Caenorhabditis elegans; G, Gallus gallus; H, Homo sapiens; M, Mus musculus; Mt, Mycobacterium tuberculosis; O, Oryctolagus cuniculus; R, Rattus norvegicus; Sc,Saccharomyces cerevisiae; Sp, Schizosaccharomyces pombe; X, Xenopus laevis.
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All interaction data in this report have been submitted to the public database BIND (http://www.bind.ca/).
