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. Author manuscript; available in PMC: 2012 Jul 23.
Published in final edited form as: Cell Rep. 2012 May 23;1(6):590–598. doi: 10.1016/j.celrep.2012.05.004

Table 1. Comparison of AMPA-R and KA-R interactomes by Mass Spectrometry.

Known primary interactors (left) as well as candidate interactors (right) are listed by common name and IPI number. The spectrum count (spec), peptide count (pep) and % coverage (%AA) identified by LC-MS/MS as well as the normalized (norm) abundance of the protein relative to the IPed target protein are listed for proteins in both the GluA2 (A2) and GluK2 (K2) preparations. The current annotated rat protein database does not provide complete representation of the proteins in the rat genome. Thus, to identify Shisa-6, 9, and Neto-1 (shown in italics) we searched against a concatenated database consisting of the humanmouse-rat protein databases. References of known and candidate interactors are provided in the supplementary material.

known primary interactors
IPI GluA2
spec,pep (%AA)
GluA2
norm
GluK2
spec,pep (%AA)
GluK2
norm
Common Name

IPI00780113.1 2526, 193 (71.3) 1.0000 17, 11 (17.2) 0.0215 GluA2
IPI00324555.2 876, 129 (60.4) 0.3468 6, 3 (5.1) 0.0076 GluA1
IPI00231095.1 873, 121 (56.5) 0.3456 6, 4 (4.8) 0.0076 GluA3
IPI00195445.1 585, 91 (48.7) 0.2316 3, 2 (2.4) 0.0038 GluA4
IPI00207460.1 212, 26 (34.0) 0.0839 0, 0 (0.0) 0.0000 TARP gamma-3
IPI00201313.4 193, 28 (39.6) 0.0764 0, 0 (0.0) 0.0000 TARP gamma-2
IPI00207426.1 162, 28 (36.8) 0.0641 5, 2 (8.3) 0.0063 TARP gamma-8
IPI00207431.1 78, 13 (32.4) 0.0309 0, 0 (0.0) 0.0000 TARP gamma-4
IPI00214444.1 11, 4 (23.30 0.0044 0, 0 (0.0) 0.0000 TARP gamma-7
IPI00207430.1 3, 2 (6.9) 0.0012 0, 0 (0.0) 0.0000 TARP gamma-5
IPI00366152.2 18, 6 (13.1) 0.0071 0, 0 (0.0) 0.0000 CNIH-2
IPI00358957.3 11, 4 (9.0) 0.0044 0, 0 (0.0) 0.0000 CNIH-3
IPI00956073.1 147, 13 (26.2) 0.0582 0, 0 (0.0) 0.0000 Shisa-9/CKAMP-44
IPI00566635.2 255, 61 (65.1) 0.1010 28, 10 (16.0) 0.0354 PSD-95
IPI00777470.1 80, 31 (40.7) 0.0317 208, 62 (62.7) 0.2633 SAP-97
IPI00650099.1 53, 21 (27.9) 0.0210 140, 48 (42.4) 0.1772 PSD-93
IPI00568474.1 28, 14 (19.6) 0.0111 27, 11 (10.0) 0.0342 SAP-102
IPI00208830.1 2,.2 (3.0) 0.0008 0, 0 (0.0) 0.0000 Grip1
IPI00409970.1 0, 0 (0.0) 0.0000 2, 2 (6.3) 0.0025 Grip2
IPI00204506.1 5, 5 (6.7) 0.0020 42, 20 (22.8) 0.0532 protein4.1
IPI00210635.2 16, 13 (19.5) 0.0063 32, 20 (36.0) 0.0405 NSF
IPI00471901.3 11, 6 (8.4) 0.0044 10, 6 (10.2) 0.0127 AP-2 alpha2
IPI00389753 1 6, 6 (9.3) 0.0024 10, 6 (7.6) 0.0127 AP-2 beta
IPI00203346.4 5, 4 (6.3) 0 0020 8, 6 (10.1) 0.0101 AP-2 alpha1
IPI00196530.1 4, 3 (5.7) 0.0016 5, 4 (11.5) 0.0063 AP-2 mu
IPI00198371.1 2, 2 (14.1) 0.0008 4, 3 (24.6) 0.0051 AP-2 sigma
IPI00324708.1 0, 0 (0.0) 0.0000 790, 88 (47.8) 1.0000 GluK2
IPI00207006.1 0, 0 (0.0) 0.0000 190, 52 (48.0) 0.2405 GluK5
IPI00231400.2 0, 0 (0.0) 0.0000 187, 36 (29.1) 0.2367 GluK1
IPI00231277.4 2, 2 (2.2) 0.0006 686, 77 (45.4) 0.8684 GluK3
IPI00326553.1 0, 0 (0.0) 0.0000 105, 32 (34 5) 0.1329 GluK4
IPI00359373.3 0, 0 (0.0) 0.0000 125, 37 (59.7) 0.1582 Neto-2
IPI00367046.2 0, 0 (0.0) 0.0000 37, 14 (38.3) 0 0468 Neto-1
IPI00370061.1 0, 0 (0.0) 0.0000 19, 14 (22.8) 0.0241 Kelch
candidate interactors
IPI GluA2
spec,pep (%AA)
GluA2
norm
GluK2
spec,pep (%AA)
GluK2
norm
Common Name

IPI00763858.2 0, 0 (0.0) 0.0000 9, 5 (13.3) 0.0114 MAGUK p55
IPI00365736.3 14, 11 (12.0) 0.0055 5, 5 (6.1) 0.0063 Liprin alpha 3
IPI00392157.3 0, 0 (0.0) 0.0000 14, 13 (13.9) 0.0177 Liprin alpha 4
IPI00388795.3 11, 8 (12.6) 0.0044 94, 32 (36.6) 0.1190 CASK
IPI00214300.1 0, 0 (0.0) 0.0000 37, 12 (42.6) 0.0342 Lin 7
IPI00367477.1 56, 21 (29.8) 0.0222 0, 0 (0.0) 0.0000 NGL-3 (LRRC 4b)
IPI00207958.1 11, 7 (11.4) 0.0044 0, 0 (0.0) 0.0000 NGL-l (LRRC 4c)
IPI00360822.3 4, 3 (5.1) 0.0018 0, 0 (0.0) 0.0000 LRRTM3
IPI00454354.1 3, 3 (4.3) 0.0012 8, 6 (5.3) 0.0101 LRRC 7
IPI00206020.1 3, 3 (19.2) 0.0012 5, 3 (11.1) 0.0063 LRRC 59
IPI00372074.1 2, 2 (4.0) 0.0008 0, 0 (0.0) 0.0000 LRRC 8
IPI00359172.2 0, 0 (0.0) 0.0000 3, 2 (5.9) 0.0038 LRRC 47
IPI00367715.3 2, 2 (3.9) 0.0008 0, 0 (0.0) 0.0000 FLRT-2
IPI00829463.1 10, 8 (7.8) 0.0040 10, 7 (6.5) 0.0127 Nrxn-1
IPI00195792.3 10, 7 (6 8) 0.0004 6, 6 (7.8) 0.0076 Nrxn-2
IPI00829491.1 5, 4 (6.1) 0.0020 4, 2 (2.7) 0.0051 Nrxn-3
IPI00325649.1 3, 2 (4.9) 0.0012 0, 0 (0.0) 0.0000 Nlgn-2
IPI00325804 1 0, 0 (0 0) 0.0000 5, 2 (3.3) 0.0063 Nlgn-3
IPI00764645.1 30, 15 (23.2) 0.0119 0, 0 (0.0) 0.0000 EphB2
IPI00189428.1 4, 3 (5.5) 0.0016 0, 0 (0.0) 0.0000 EphB1
IPI00569433.1 3, 3 (6.7) 0.0012 0, 0 (0.0) 0.0000 EphA4
IPI00230960.1 2, 2 (4.8) 0.0008 0, 0 (0.0) 0.0000 EphA5
IPI00365395.2 2, 2 (13.4) 0 0008 0, 0 (0.0) 0.0000 EphrinB2
IPI00411236.1 10, 7 (8.1) 0.0040 13, 8 (9.3) 0.0165 Latrophillin 1
IPI00561212.4 9, 8 (9.2) 0.0036 0, 0 (0.0) 0.0000 Latrophillin 3
IPI00568123.2 4, 3 (4.3) 0.0016 0, 0 (0.0) 0.0000 Latrophillin 2
IPI00568245.2 0, 0 (0.0) 0.0000 480, 136 0.6076 myosin 18
IPI00193933.3 3, 3 (6.0) 0.0012 0, 0 (0.0) 0.0000 DHHC5
IPI00357941.4 7, 7 (5.8) 0.0028 0, 0 (0.0) 0.0000 RTPT delta
IPI00231945.4 3, 2 (3.3) 0.0012 0, 0 (0.0) 0.0000 RTPT
IPI00565098.2 30, 13 (25.8) 0 0119 0, 0 (0.0) 0.0000 GSG1L
IPI00939232.1 2, 2 (5.1) 0.0006 0, 0 (0.0) 0.0000 Shisa-6
IPI00214724.3 4,20 (12.1) 0.0016 0, 0 (0.0) 0.0000 PPRT 1
IPI00366048.3 38, 10 (38.1) 0.0150 0, 0 (0.0) 0.0000 PPRT 2
IPI00207495.3 0, 0 (0.0) 0.0000 32, 13 (24.5) 0.0405 pentraxin-2 (Narp)
IPI00192125.1 0, 0 (0 0) 0.0000 58, 19 (29.9) 0.0734 pentraxin-1
IPI00212317.1 0, 0 (0.0) 0.0000 69, 16 (36.6) 0.0873 pentraxin receptor
IPI00206558.4 19, 9 (15.1) 0.0075 0, 0 (0.0) 0.0000 Olfm-1
IPI00337161.1 5, 3 (8.7) 0.0020 0, 0 (0.0) 0.0000 Olfm-3

Black dots represent proteins which were also found in a smaller scale duplication experiment.

HHS Vulnerability Disclosure