Table 1 List of the names of 59 test protein families together with their CDD accession names, lengths, number of protein pairs, Pearson correlation coefficients between LHM (AHM) and normalized Blast bitscore. The families are ordered with respect to decreasing quality of LHM correlation. The supplementary table is available at [27].
From: Structural similarity of loops in protein families: toward the understanding of protein evolution
Family name | CDD acc | Length | #Obs | AHM | LHM |
|---|---|---|---|---|---|
Xylose_isom | pfam00259 | 381 | 28 | -0.99 | -0.98 |
MHC_I | pfam00129 | 175 | 28 | -0.95 | -0.96 |
PTPc | smart00194 | 248 | 25 | -0.92 | -0.96 |
IPT | smart00429 | 97 | 21 | -0.90 | -0.94 |
ZnMc_1 | smart00235 | 137 | 34 | -0.83 | -0.94 |
RNAse_Pc | cd00163 | 99 | 25 | -0.82 | -0.94 |
gpdh_C | pfam02800 | 153 | 39 | -0.72 | -0.93 |
Aamy_C | smart00632 | 81 | 31 | -0.94 | -0.90 |
peroxidase | pfam00141 | 240 | 48 | -0.90 | -0.90 |
copper-bind | pfam00127 | 81 | 87 | -0.84 | -0.89 |
CBM_20 | pfam00686 | 94 | 15 | -0.91 | -0.89 |
RnaseA | pfam00074 | 98 | 44 | -0.48 | -0.87 |
IGv | cd00099 | 105 | 133 | -0.78 | -0.86 |
ADH_zinc_N | pfam00107 | 337 | 64 | -0.93 | -0.86 |
ldh_C | pfam02866 | 143 | 29 | -0.93 | -0.86 |
RIP | pfam00161 | 232 | 28 | -0.87 | -0.85 |
Peptidase_C1 | pfam00112 | 200 | 55 | -0.82 | -0.85 |
ZnMc_2 | cd00203 | 134 | 23 | -0.87 | -0.85 |
PROF | cd00148 | 120 | 15 | -0.90 | -0.85 |
plant_peroxidase | cd00314 | 236 | 76 | -0.90 | -0.83 |
alpha-amylase_C | pfam02806 | 78 | 39 | -0.93 | -0.82 |
sodcu | pfam00080 | 139 | 15 | -0.98 | -0.81 |
fer2_1 | cd00207 | 78 | 38 | -0.86 | -0.80 |
Pept_C1 | smart00645 | 202 | 90 | -0.86 | -0.79 |
ferritin | pfam00210 | 152 | 19 | -0.94 | -0.79 |
ldh | pfam00056 | 135 | 44 | -0.82 | -0.78 |
SH2 | pfam00017 | 86 | 21 | -0.48 | -0.78 |
flavodoxin | pfam00258 | 143 | 26 | -0.88 | -0.78 |
EFh | cd00051 | 57 | 59 | -0.75 | -0.77 |
rhv_1 | cd00205 | 195 | 71 | -0.86 | -0.76 |
LYZ1_1 | smart00263 | 116 | 67 | -0.66 | -0.75 |
aldo_ket_red | pfam00248 | 277 | 28 | -0.93 | -0.73 |
COesterase | pfam00135 | 485 | 28 | -0.80 | -0.72 |
TIG | pfam01833 | 89 | 39 | -0.90 | -0.72 |
fer2_2 | pfam00111 | 69 | 73 | -0.77 | -0.70 |
beta-lactamase | pfam00144 | 264 | 45 | -0.90 | -0.70 |
rhv_2 | pfam00073 | 216 | 95 | -0.86 | -0.70 |
GLECT | cd00070 | 124 | 28 | -0.80 | -0.67 |
globin | pfam00042 | 133 | 96 | -0.74 | -0.66 |
GST_C | pfam00043 | 107 | 77 | -0.77 | -0.63 |
LYZ1_2 | cd00119 | 109 | 24 | -0.43 | -0.61 |
PA2c | smart00085 | 102 | 210 | -0.29 | -0.57 |
lipocalin | pfam00061 | 131 | 55 | -0.62 | -0.56 |
phoslip | pfam00068 | 102 | 102 | -0.21 | -0.54 |
proteasome | pfam00227 | 189 | 56 | -0.80 | -0.51 |
UBCc | smart00212 | 141 | 45 | -0.79 | -0.50 |
Sm | smart00651 | 63 | 30 | -0.54 | -0.49 |
Tryp_SPc | smart00020 | 208 | 561 | -0.55 | -0.46 |
CLECT_1 | smart00034 | 90 | 35 | -0.59 | -0.44 |
crystall | pfam00030 | 81 | 10 | -0.76 | -0.41 |
CLECT_2 | cd00037 | 93 | 263 | -0.45 | -0.36 |
RHO | smart00174 | 173 | 10 | -0.52 | -0.36 |
IGc1 | cd00098 | 88 | 85 | -0.65 | -0.32 |
Tryp_SPc | cd00190 | 211 | 378 | -0.55 | -0.31 |
MHC_II_beta | pfam00969 | 86 | 32 | -0.52 | -0.26 |
ADK | pfam00406 | 174 | 28 | -0.37 | -0.19 |
Rho | cd00157 | 172 | 66 | -0.20 | -0.16 |
Phycobilisome | pfam00502 | 148 | 15 | -0.85 | -0.10 |
ADF | smart00102 | 116 | 10 | -0.85 | 0.34 |