# List of top-scoring protein chains for t04-100-30-stride-ebghtl-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.soe.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1htp 131 1.08e-01 1htp 1hpcA 131 1.14e-01 1htp b.84.1.1 28221 1zkoA 136 2.02e-01 1gycA 499 3.78e-01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1hfuA 503 5.70e-01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1a65A 504 6.56e-01 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 2gjgA 248 7.49e-01 2q1fA 1022 1.10e+00 2evbA 74 1.10e+00 2gcuA 245 1.14e+00 2qt6A 498 1.51e+00 1cb8A 678 1.95e+00 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1xrkA 124 2.04e+00 d.32.1.2 115881 1zi0A 307 2.07e+00 1y8oB 128 2.16e+00 b.84.1.1 122759 2hrgA 496 2.47e+00 1v10A 521 2.53e+00 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1vdzA 588 2.84e+00 2e63A 170 3.08e+00 2a6hC 1119 3.34e+00 e.29.1.1 126264 2b0vA 153 3.35e+00 d.113.1.1 127650 1brwA 433 3.76e+00 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1ghj 79 5.01e+00 1ghj 1k1xA 659 5.03e+00 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1fm4A 159 5.33e+00 1bv1 d.129.3.1 76186 2bh0A 208 5.38e+00 2vduB 450 5.45e+00 1tdtA 259 6.00e+00 3tdt b.81.1.2 28055 1nr0A 611 6.45e+00 b.69.4.1,b.69.4.1 86078,86079 1seiA 130 6.55e+00 1seiA d.140.1.1 41463 1ut9A 609 6.68e+00 a.102.1.2,b.1.18.2 99912,99913 1rl2A 137 7.64e+00 1rl2A b.34.5.3,b.40.4.5 24610,25342 2oitA 434 7.66e+00 2gbaA 105 7.80e+00 1vyqA 173 8.78e+00 b.85.4.1 120548 1aac 105 8.96e+00 1aac 1bdo 80 9.44e+00 1bdo 1bdoA 80 9.44e+00 b.84.1.1 28214 2pjhB 193 1.03e+01 1evuA 731 1.05e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1go3E 187 1.12e+01 b.40.4.5,d.230.1.1 83054,83055 1em2A 229 1.14e+01 1em2A d.129.3.2 41321 1yu4A 381 1.18e+01 b.163.1.1,d.169.1.8 124033,124034 2ov0A 105 1.19e+01 1z6bA 154 1.22e+01 d.38.1.6 124510 3tdt 274 1.23e+01 3tdt 3tdtA 274 1.23e+01 b.81.1.2 28053 2idqA 105 1.24e+01 1k8mA 93 1.26e+01 b.84.1.1 68314 1gpr 162 1.30e+01 1gpr 1gprA 162 1.30e+01 b.84.3.1 28267 1vmeA 410 1.31e+01 c.23.5.1,d.157.1.3 108893,108894 1yu2A 381 1.34e+01 b.163.1.1,d.169.1.8 124029,124030 1poiA 317 1.34e+01 1poiA c.124.1.2 34153 1yu1A 381 1.35e+01 b.163.1.1,d.169.1.8 124027,124028 2eenA 183 1.37e+01 1sfdA 105 1.38e+01 b.6.1.1 105480 1ex0A 731 1.39e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1nhcA 336 1.39e+01 b.80.1.3 91879 1id2A 106 1.39e+01 1aac b.6.1.1 62288 2i45A 107 1.42e+01 1uwfA 158 1.45e+01 b.2.3.2 119758 1udxA 416 1.50e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1bxaA 105 1.50e+01 1aac b.6.1.1 22839 2in5A 207 1.55e+01 2dsjA 423 1.59e+01 2eu9A 355 1.60e+01 1lcyA 325 1.62e+01 b.36.1.4,b.47.1.1 73834,73835 2cghA 268 1.64e+01 1ti6B 274 1.69e+01 b.3.5.1,d.58.1.5 106976,106977 1yu0A 381 1.71e+01 b.163.1.1,d.169.1.8 124025,124026 1hxn 219 1.75e+01 1hxn 1hxnA 219 1.75e+01 b.66.1.1 27529 1sgoA 139 1.76e+01 d.82.3.1 98857 1nxmA 197 1.77e+01 b.82.1.1 86385 2ckkA 127 1.77e+01 1klfB 279 1.80e+01 b.2.3.2,b.2.3.2 72684,72685 1qunB 279 1.84e+01 b.2.3.2,b.2.3.2 22411,22412 1nwbA 124 1.86e+01 b.124.1.1 86296 1zhhB 242 1.87e+01 1qy5A 269 1.92e+01 d.122.1.1 96573 2gw4B 162 1.96e+01 1klo 162 1.98e+01 1klo 1kloA 162 1.98e+01 g.3.11.2,g.3.11.2,g.3.11.2 44326,44327,44328 1u9tA 354 2.05e+01 e.62.1.1 119651 1yu3A 381 2.05e+01 b.163.1.1,d.169.1.8 124031,124032 1vrmA 325 2.08e+01 d.96.2.1 120472 1wzlA 585 2.09e+01 b.1.18.2,b.71.1.1,c.1.8.1 121513,121514,121515 2akrA 285 2.15e+01 b.1.1.2,d.19.1.1 126931,126932 3c8cA 240 2.16e+01 1ixlA 131 2.18e+01 d.38.1.5 90717 2z14A 133 2.22e+01 2e4qA 109 2.29e+01 2oziA 98 2.31e+01 1tr7A 164 2.33e+01 b.2.3.2 119328 2dyiA 162 2.37e+01 1mpuA 138 2.41e+01 d.169.1.1 85040 1x1oA 286 2.45e+01 2biwA 490 2.52e+01 2iwxA 214 2.54e+01 d.122.1.1 137758 2c0zA 216 2.60e+01 b.82.1.1 129615 1jyhA 157 2.61e+01 d.60.1.3 71956 2elaA 175 2.62e+01 1gxrA 337 2.63e+01 b.69.4.1 70722 1m0wA 491 2.70e+01 c.30.1.4,d.142.1.6 78363,78364 1pgs 314 2.90e+01 1pgs 1pgsA 314 2.90e+01 b.121.1.1,b.121.1.1 23653,23654 2qm1A 326 2.97e+01 2f41A 121 3.00e+01 d.38.1.5 132904 2vl0A 321 3.01e+01 2j4hA 193 3.07e+01 1juvA 193 3.11e+01 c.71.1.1 90912 2dfuA 264 3.15e+01 1v25A 541 3.18e+01 e.23.1.1 108275 1eybA 471 3.20e+01 1ey2A b.82.1.4 28115 1bv1 159 3.21e+01 1bv1 2p8rA 273 3.24e+01 2b9uA 176 3.31e+01 2dt4A 143 3.47e+01 1yx0A 159 3.48e+01 d.108.1.1 124168 2d4rA 147 3.60e+01 d.129.3.6 131256 1wp5A 323 3.64e+01 b.68.10.1 114780 1bylA 125 3.74e+01 1bylA d.32.1.2 38495 2h5uA 499 3.75e+01 1q7fA 286 3.76e+01 b.68.9.1 96036 2b06A 155 3.82e+01 d.113.1.1 127624 1ue1A 164 3.86e+01 b.40.4.3 99243 1shxA 138 3.87e+01 b.6.1.5 118962 1bxvA 91 3.87e+01 1aac b.6.1.1 22875 2cxxA 190 3.89e+01 c.37.1.8 131013 3bijA 285 3.90e+01 2aukA 190 3.91e+01 1ttuA 477 3.94e+01 b.1.18.1,b.2.5.8,b.42.7.1 107305,107306,107307 1y9lA 115 3.96e+01 2hqvA 195 3.98e+01 e.62.1.2 136674 1p4kA 295 3.99e+01 d.153.1.5 87772 1genA 218 4.01e+01 b.66.1.1 27536 2o8qA 134 4.04e+01 2a22A 215 4.09e+01 d.159.1.7 126025 1at0 145 4.18e+01 1at0 1at0A 145 4.18e+01 b.86.1.1 28374 1z57A 339 4.20e+01 2uzxB 727 4.22e+01 2bbvA 363 4.29e+01 2bbvA b.121.4.4 23323 1erjA 393 4.42e+01 1erjA b.69.4.1 27660 1qpoA 284 4.46e+01 1qpoA c.1.17.1,d.41.2.1 29561,38597 2ervA 150 4.46e+01 3gcb 470 4.48e+01 3gcb 3gcbA 470 4.48e+01 d.3.1.1 37032 2z3zA 706 4.48e+01 2e1vA 454 4.49e+01 2ej8A 160 4.51e+01 1hxxA 340 4.55e+01 2omf f.4.3.1 61385 2omf 340 4.58e+01 2omf 2gw3A 225 4.59e+01 2h26A 291 4.72e+01 b.1.1.2,d.19.1.1 135990,135991 1tf4A 605 4.74e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1vqoA 240 4.80e+01 b.34.5.3,b.40.4.5 120361,120362 2hrvA 142 4.82e+01 2hrvA b.47.1.4 26429 2cl2A 298 4.90e+01 2in0A 139 4.95e+01 2ogrA 229 4.96e+01 1vprA 374 5.03e+01 b.60.1.7 120066 2ijrA 300 5.04e+01 1f8vA 355 5.07e+01 2bbvA b.121.4.4 23329 2gllA 171 5.08e+01 8fabB 224 5.16e+01 1igtB b.1.1.1,b.1.1.2 19773,20883 9gafA 295 5.18e+01 1apyA d.153.1.5 42008 1lb6A 160 5.20e+01 b.8.1.1 73798 1pg4A 652 5.21e+01 e.23.1.1 88067 2e01A 457 5.21e+01 1nqzA 194 5.30e+01 d.113.1.1 86077 1jlyA 304 5.35e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1hx0A 496 5.37e+01 b.71.1.1,c.1.8.1 61346,61347 2vroA 532 5.47e+01 1h9mA 145 5.47e+01 1h9jA b.40.6.2,b.40.6.2 60833,60834 1eaxA 241 5.55e+01 b.47.1.2 64889 1yhfA 115 5.59e+01 b.82.1.9 123176 2gnqA 336 5.63e+01 1i9gA 280 5.67e+01 c.66.1.13 62090 2q6fA 309 5.69e+01 1ou8A 111 5.70e+01 b.136.1.1 93543 1im3D 95 5.72e+01 1im3D b.1.18.5 62568 1qfmA 710 5.77e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 1bteA 97 5.78e+01 1bteA g.7.1.3 44463 1xfpA 142 5.81e+01 b.1.1.1 109587 1e2tA 284 5.88e+01 1e2tA d.3.1.5 37121 2ivwA 113 5.88e+01 1pmyA 123 5.88e+01 b.6.1.1 22888 1bkb 136 5.89e+01 1bkb 1bkbA 136 5.89e+01 b.34.5.2,b.40.4.5 24609,25341 2ch4W 151 5.92e+01 b.40.7.1 130451 1zx6A 58 5.94e+01 1gcb 454 5.96e+01 3gcb 1j1yA 136 5.97e+01 d.38.1.5 90776 2qe8A 343 6.02e+01 1a3wA 500 6.09e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 1gmuA 143 6.14e+01 b.107.1.1,d.58.38.1 65335,65336 1n26A 325 6.14e+01 b.1.1.4,b.1.2.1,b.1.2.1 79850,79851,79852 1wmdA 434 6.14e+01 b.18.1.20,c.41.1.1 109408,109409 1l3aA 228 6.17e+01 d.18.1.2 73531 2qqzA 126 6.17e+01 2zdiC 151 6.17e+01 1yqeA 282 6.18e+01 c.56.7.1 123879 1zmyA 142 6.24e+01 2vesA 299 6.28e+01 2z4iA 233 6.32e+01 2d42A 249 6.39e+01 1fsgA 233 6.51e+01 1qk3A c.61.1.1 34029 2r55A 231 6.52e+01 1wosA 364 6.53e+01 b.44.2.1,d.250.1.1 109468,109469 2d1zA 436 6.57e+01 1shfA 59 6.58e+01 1bbzA b.34.2.1 24462 1pbyA 489 6.62e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 2q3zA 687 6.62e+01 1xs1A 193 6.63e+01 b.85.4.1 115892 2hgsA 474 6.67e+01 2hgsA c.30.1.4,d.142.1.6 31722,75997 2ho9A 167 6.70e+01 1ud9A 245 6.83e+01 d.131.1.2,d.131.1.2 107768,107769 2awgA 118 6.84e+01 2ch5A 347 6.86e+01 c.55.1.5,c.55.1.5 130453,130454 1v70A 105 6.89e+01 b.82.1.9 113555 2eb4A 267 7.03e+01 2a15A 139 7.04e+01 d.17.4.3 125973 1qniA 581 7.06e+01 1qniA b.6.1.4,b.69.3.1 23042,27642 1a62 130 7.08e+01 1a62 1a62A 130 7.08e+01 a.140.3.1,b.40.4.5 64708,64709 1shyB 551 7.08e+01 b.69.12.1,g.16.2.1 105565,105566 1clc 639 7.15e+01 1clc 1clcA 639 7.15e+01 a.102.1.2,b.1.18.2 18835,21872 2hjeA 221 7.20e+01 2gj3A 120 7.21e+01 1osyA 115 7.29e+01 b.1.21.1 93502 2ichA 335 7.33e+01 2dpkA 152 7.45e+01 b.1.27.1 131616 2hqlA 110 7.54e+01 1xgsA 295 7.57e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 2og4A 254 7.58e+01 2nxcA 254 7.63e+01 c.66.1.39 138739 1w5rA 278 7.67e+01 d.3.1.5 120643 2qdlA 165 7.75e+01 2po1B 277 7.88e+01 1stzA 338 7.88e+01 a.4.5.51,d.110.2.3 106009,106010 2hqhA 93 7.95e+01 2breA 219 7.97e+01 d.122.1.1 128994 1wi5A 119 8.00e+01 b.40.4.5 114661