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. Author manuscript; available in PMC: 2016 Jan 13.
Published in final edited form as: Methods Cell Biol. 2012;109:141–175. doi: 10.1016/B978-0-12-385967-9.00006-2

Table I.

Genes coregulated with the µ subunit genes of 5 heterotetrameric adaptors in T. thermophila. We list, in order of decreasing correlation coefficients, all coregulated genes with Pearson’s correlation coefficients ≥0.85 for each µ subunit (to a maximum of 20, for reasons of space). PCC = Pearson's Correlation Coefficient. Not included in these lists are coregulated genes for which no functions or conserved domains can be specified (denoted 'hypothetical protein' in NCBI). The number of such hypothetical genes with correlation coefficients equal or larger than those of the genes shown is as follows: for AMP1A, 14; for APM1B, 35; for APM2, 21; for APM4, 24; for APM5, 55.

The TTHERM IDs of genes that appear more than once in the Table, i.e, that appear to be coregulated with more than one adaptor, are emboldened.

APM1A query (TTHERM_01108620) APM2 query (TTHERM_00577030)
Coregulated gene name (or putative) Ttherm ID PCC Coregulated gene name (or putative) Ttherm ID PCC
Drp1, dynamin-related protein 1 _00486790 0.9434 Fimbrin-like _00136510 0.9148
Drp2, dynamin-related protein 2 _00188910 0.9433 Succinate dehydrogenase/fumarate reductase _00241700 0.9073
Adaptor-related protein complex 4, epsilon 1 _00316010 0.9339 Proteasome A-type and B-type family _00487110 0.9072
SNARE; syntaxin 5-2 _00558250 0.9298 Mov34/MPN/PAD-1 family _00049450 0.9066
Rab6C GTPase _00079900 0.9042 Proteasome A-type and B-type family _00147560 0.9044
N-terminal YjeF-domain _00149620 0.9021 Phosphoglycerate mutase 1 family _00641240 0.9071
RabD4 GTPase _00825210 0.8965 Ubiquinol-cytochrome c reductase _00295080 0.8969
Ubiquitin carboxyl-terminal hydrolase family _00077370 0.8861 Actin family _01020680 0.8962
ARF5 GTPase _00735240 0.8846 Adaptor-related protein complex 1, beta 1 _00219370 0.8959
RCC1-domain protein _00586630 0.8793 Protein phosphatase 2C–containing _00446510 0.8955
Endonuclease/exonuclease/phosphatase family _00316140 0.8783 Coatomer protein complex, subunit beta 1 _00488350 0.8937
Protein kinase domain-containing _00128930 0.8760 V-type ATPase, D subunit _00821870 0.8936
Rab GGTB geranylgeranyltransferase _00630460 0.8739 EF hand-containing _00059190 0.8917
Yip1 domain family (GDI displacement factor) _00193890 0.8737 Proteasome A-type and B-type family _00316530 0.8912
HECT domain and RCC1-like domain _00586640 0.8721 Cytochrome C1 family _00918500 0.8908
NSF (N-ethylmaleimide-sensitive factor) _00039210 0.8718 DnaJ domain-containing _00195890 0.8888
von Willebrand factor type A domain-containing _00809300 0.8698 ATP synthase F1, delta _00684790 0.8886
TRAF-type family _00666410 0.8695 Ribosomal protein L13 _01207660 0.8884
DHHC zinc finger domain-containing _00581830 0.8683 Proteasome A-type and B-type family _00043880 0.8834
Adaptor-related protein complex 1, gamma 1 _00715750 0.8673 IQ calmodulin-binding motif family _01194640 0.8822
APM1B query (TTHERM_00455300) APM4 query (TTHERM_00545860)
Coregulated gene name (or putative) Ttherm ID PCC Coregulated gene name (or putative) Ttherm ID PCC
Phosphatidylinositol glycan, class Q (PIGQ) _00945240 0.9392 Oxidoreductase family _00334360 0.9517
RabD40 GTPase _01129680 0.9346 ARP2/3 complex 20 kDa subunit (ARPC4) _00857810 0.9397
Hydrolase, NUDIX family _01084270 0.9214 Amidase family _00361450 0.9383
TB2/DP1, HVA22 family _00270350 0.9184 Coatomer zeta coat _00052600 0.9378
Adaptor-related protein complex 4, beta-1 _00225780 0.9141 EF hand-containing _01055480 0.9364
NSF (N-ethylmaleimide-sensitive factor) _00039210 0.9078 F-actin capping protein, beta subunit-containing _00784430 0.9339
SNARE; syntaxin 5-2 _00558250 0.8983 Coatomer epsilon subunit family _00459320 0.9304
HIT domain-containing _00378790 0.8978 Actin family _01020680 0.9299
N-terminal YjeF-domain _00149620 0.8977 Fimbrin-like 71 K _00136510 0.9291
Oxidoreductase _00334360 0.8941 ADP-ribosylation factor _00340150 0.9286
Eukaryotic phosphomannomutase family _00059380 0.8860 Signal peptidase I family _01093560 0.9283
Protein kinase domain-containing _00715960 0.8851 Peptidyl-prolyl cis-trans isomerase _00548130 0.9279
Adaptor-related protein complex 4, sigma 1 _01227730 0.8843 Peptidyl-prolyl cis-trans isomerase _00532620 0.9239
Adaptor-related protein complex 1, gamma 1 _00287890 0.8783 Phosphatidylserine decarboxylase family _00859340 0.9221
RabX23 Rab-like protein; GTPase _00298510 0.8676 HCaRG _00059120 0.9205
Adaptor-related protein complex 4, mu 1 _00545860 0.8604 Coatomer protein complex, gamma 2 _00444320 0.9199
Hydrolase, NUDIX family _00113100 0.8536 Coatomer alpha _01345820 0.9196
ADP-ribosylation factor _00448910 0.8528 Endomembrane protein 70-containing _00723110 0.9187
EF Tu C-terminal domain-containing _01234330 0.8505 Roadblock/LC7 domain-containing _00348650 0.9180
EF hand-containing _00497600 0.9177
APM3 query (TTHERM_00572100)
Coregulated gene name (or putative) Ttherm ID PCC
Adaptor-related protein complex 3, beta 1 _00703490 0.9581
Protein kinase domain-containing _01015890 0.9467
VPS10 domain (sortilin 2) _00410210 0.9428
Protein kinase domain-containing _01052880 0.9378
VPS10 domain (sortilin 4) _00313130 0.9350
MAC/Perforin domain-containing _01141420 0.9231
Rab4B GTPase _01097960 0.9190
Thioredoxin (TRX) family _00664030 0.9175
Golgin; GRIP domain-containing _01143870 0.9168
Eukaryotic aspartyl protease family _00440510 0.9156
SNARE; synaptobrevin 3 _00152090 0.9116
Amidase family _00361390 0.9086
Taurine catabolism dioxygenase TauD, TfdA family _00823760 0.8995
Rab21A GTPase _00540110 0.8758
HAD-superfamily hydrolase, subfamily IIA _01093670 0.8722
Histidine acid phosphatase family _00649220 0.8666
Protein kinase domain-containing _01164090 0.8638
Calpain family cysteine protease _00196650 0.8618
Mitochondrial carrier protein _00637710 0.8609