Table 1.
Protein Interactions Detected by Y2H Matrix Experiments
|
Description |
Accession |
Bait constructa |
Matrix interactions (Ade/His selection)d |
|---|---|---|---|
| Exosome: PH | NM_019037 | Rrp41 | PM/Scl-100[1-456], Rrp40, Dom3, Ski2[1-708] (weak) |
| PH | NM_015004 | Rrp42/KIAA0116 | PM/Scl-1000[1-456], Dom3 (weak) |
| PH | NM_020158 | Rrp46c | Rrp40, Oip2, Csl4, PM/Scl-100[1-456] |
| PH | NM_005033 | PM/Scl-75/Rrp45 | — |
| PH | NM_058219 | Mtr3 | Rrp42, Oip2, Csl4, Mtr3, PM/Scl-100[1-456], Dcp1B (weak) Kiaa0052 (weak), TTP (weak) |
| PH | XM_085017 | Oip2 | Rrp46, Oip2, TTP |
| S1/KH | NM_014285 | Rrp4c | RRp42, Znf408 |
| S1/KH | NM_016042 | Rrp40 | Rrp46, Oip2 |
| S1 | NM_016046 | Csl4 | Rrp46, Rrp41, Oip2 |
| RNase D-like | NM_002685 | PM/Scl-100/Rrp6 exonuclease [1-456] | PM/Scl-100[1-456] (weak) |
| PM/Scl-100[1-456], Dom3, Ski2[1-708[, Rrp44 (weak), Mtr3 (weak) | |||
| HRDC [503-583] | — | ||
| [584-860] | Oip2 | ||
| Putative helicase | NM_015360 | Kiaa0052b | — |
| NM_005792 | Mpp6c | Kiaa0052, PARN, PM/Scl-100[1-456] | |
| Homolog of yeast exosome associated | NM_014953 | Rrp44 | — |
| PinC [1-182] | Oip2 | ||
| PinC+CSP [1-387] | — | ||
| RNase II + RNB [388-958] | — | ||
| Homolog of yeast exosome | NM_006929 | Ski2 helicase [1-708]b | — |
| [709-1246] | — | ||
| Lsm proteins | NM_014462 | Lsm1 | Lsm3, Lsm2, Lsm4, Mtr3(weak) Oip2 (weak) |
| NM_021177 | Lsm2 | Lsm3, Lsm8, Znf408, PM/Scl-100[1-456], Lsm1, Lsm7 | |
| NM_014463 | Lsm3 | Lsm1, Lsm2, Lsm5, Lsm6, Lsm7, Lsm8, Xrn2[1-280] | |
| NM_012321 | Lsm4 | Lsm7, Lsm8 | |
| NM_012322 | Lsm5 | Lsm3, Lsm6, Lsm7 | |
| NM_007080 | Lsm6 | Lsm3, Lsm5, Lsm7, Lsm1, Lsm8 | |
| NM_016199 | Lsm7 | Lsm3, Lsm5, Mtr3, Lsm2, Lsm4, Lsm6, Oip2 (weak), | |
| NM_016200 | Lsm8c | Lsm2, Lsm3, Lsm6, PM/Scl-100[1-456], Lsm4, Lsm7, Mtr3, Dcp1A, Upf1[702-1119] | |
| Decapping factors | NM_152624 | Dcp2 | Dcp1A, Dcp1B |
| Dcp2 (Δ exons 8 and 9) | Dcp1A, Dcp1B | ||
| NM_018403 | Dcp1Ab | — | |
| NM_152640 | Dcp1Bb | — | |
| NM_014026 | DcpS | — | |
| 5′→3′ exonucleases | XM_033181 | Xrn1/Sep1 | |
| Exonuclease [1-300] | Dep1A, Dom3, Ski2[1-708], PM/Scl-100[1-456], Lsm4 (weak) | ||
| [578-1470] | |||
| Oip2, Mtr3 (weak), Dcp1B (weak), TTP (weak), Kiaa0052 (weak), Csl4 (weak) | |||
| RBD [1440-1707] | Oip2 | ||
| Rat1p homolog | NM_012255 | Xrn2/Rat1 | Dom3, PM/Scl-100[1-456] |
| Exonuclease [1-280] | Oip2 (weak) | ||
| Rai1p homolog | NM_005510 | Dom3 | Dom3, PM/Scl-100[1-456] |
| Poly(A) ribonuclease | NM_002582 | PARN | — |
| ARE-BPs | NM_003407 | TTPb | — |
| NM_002138 | Auf1/hnRNPDc (variant 3) | — | |
| NM_001419 | HuR | HuR | |
| NMD factors | NM_002911 | Upf1 [1-415] | — |
| Helicase [416-701] | — | ||
| [702-1119] | Dom3 | ||
| NM_080599 | Upf2 [1-167] | Oip2, Mtr3, TTP (weak), Dcp1B (weak), Csl4 (weak), Kiaa005 (weak) | |
| MIF4G1+2 [166-758] | Upf2[1-167] | ||
| [757-1272]c | Oip2, Dcp2, Xrn2[1-280], PM/Scl-100[1-456], Znf408, Lsm1, Upf2[757-1272], Mtr3 (weak) | ||
| NM_023011 | Upf3A (variant2) | — | |
| NM_080632 | Upf3B | Upf2[757-1272] | |
| Novel
|
NM_024741
|
Znf408
|
Znf408, Upf2[757-1272], Rrp4
|
-
Previously published interactions are in bold, and interactions detected between the orthologous yeast or Drosophila proteins in genome-wide data sets are underlined.
-
↵a Protein fragments are indicated by the residue numbers covered and a domain name (where known).
-
↵b Self-active bait.
-
↵c Weakly self-active bait (— His selection).
-
↵d Interactions only selected on — His media are shown in italics, weak but reproducible interactions (<50% growth) are indicated as “weak.”
