# List of top-scoring protein chains for t2k-100-30-alpha-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 1dzlA 505 3.36e-01 1dzlA b.121.6.1 23586 1oltA 457 3.81e-01 c.1.28.2 93334 1e3dB 542 6.76e-01 1h2rL e.18.1.1 59189 2frvB 536 1.31e+00 1h2rL e.18.1.1 43291 1frvB 536 1.67e+00 1h2rL e.18.1.1 43296 2x10A 545 1.69e+00 2gvkA 317 1.79e+00 d.58.4.14 135782 1ypxA 375 2.90e+00 2px2A 269 3.05e+00 1wuiL 534 3.51e+00 e.18.1.1 121289 1ubkL 534 3.94e+00 e.18.1.1 88422 3hqfA 181 4.08e+00 1jlvA 209 4.15e+00 a.45.1.1,c.47.1.5 71729,71730 3lqaG 332 4.27e+00 1h2rL 534 5.17e+00 1h2rL e.18.1.1 43298 1na6A 404 5.20e+00 b.142.1.1,c.52.1.22 91748,91749 2koeA 40 5.21e+00 1h2aL 567 5.57e+00 1h2rL e.18.1.1 43299 1ez4A 318 5.63e+00 c.2.1.5,d.162.1.1 64917,64918 1ockA 412 5.89e+00 c.117.1.1 86802 3d0oA 317 5.95e+00 3cuzA 532 6.25e+00 3h3xQ 549 6.26e+00 1txvA 452 7.85e+00 2b5lC 222 8.06e+00 2zuvA 759 8.13e+00 3do7A 296 8.43e+00 3kudB 81 8.61e+00 2eknA 159 8.81e+00 1dcoA 104 9.68e+00 1dcpA d.74.1.1 39680 2nqoA 376 9.91e+00 d.153.1.6 138473 2fmyA 220 1.00e+01 3gtxA 339 1.00e+01 2hb5A 164 1.01e+01 2vdrA 452 1.03e+01 3gmeA 549 1.08e+01 1ru0A 105 1.14e+01 d.74.1.1 111937 1qvtA 194 1.14e+01 a.4.1.9,a.121.1.1 104602,104603 2fxqA 264 1.21e+01 2o4vA 411 1.25e+01 1yymG 313 1.30e+01 d.172.1.1 124232 2i53A 258 1.36e+01 a.74.1.1,a.74.1.1 147505,147506 1amuA 563 1.36e+01 1amuA e.23.1.1 43351 2p5mA 83 1.37e+01 d.74.2.1 149254 2ewdA 317 1.44e+01 2qmcA 377 1.45e+01 3gtfA 337 1.47e+01 1bfd 528 1.48e+01 1bfd 3gu9A 331 1.52e+01 3ck6A 252 1.52e+01 3gthA 337 1.53e+01 2vu9A 444 1.53e+01 1et0A 269 1.55e+01 1et0A e.17.1.1 43289 2gwgA 350 1.55e+01 c.1.9.15 135805 2z4tA 514 1.56e+01 3gtiA 337 1.63e+01 2pm7A 399 1.68e+01 3eheA 313 1.80e+01 1jt6A 188 1.82e+01 a.4.1.9,a.121.1.1 67247,67248 3btiA 188 1.82e+01 a.4.1.9,a.121.1.1 155566,155567 3bqzA 194 1.85e+01 1waaA 93 1.87e+01 3br2A 194 1.90e+01 2zc1A 333 1.91e+01 1awe 130 1.94e+01 1awe 1q6zA 528 1.99e+01 c.31.1.3,c.36.1.5,c.36.1.9 111655,111656,111657 1i2kA 269 2.10e+01 e.17.1.1 90661 1ldnA 316 2.10e+01 1hyhA c.2.1.5,d.162.1.1 30166,42133 3gu1A 337 2.16e+01 3kucB 81 2.21e+01 3gocA 237 2.22e+01 3cp8A 641 2.23e+01 3f1tA 148 2.25e+01 1vppV 102 2.32e+01 1vpfA g.17.1.1 44753 2b69A 343 2.53e+01 c.2.1.2 127974 3lc3B 57 2.57e+01 3fdkA 323 2.59e+01 1tit 98 2.66e+01 1tit 3br5A 194 2.66e+01 3htwA 328 2.69e+01 3ksyA 1049 2.83e+01 1dbhA 354 2.83e+01 1awe a.87.1.1,b.55.1.1 18514,26967 3ir4A 218 2.85e+01 2wphE 59 2.89e+01 1v5dA 386 2.91e+01 a.102.1.2 113537 2p4dA 172 2.91e+01 1dvpA 220 2.92e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 2i5iA 263 2.94e+01 c.6.2.8 147514 2wg4A 155 2.97e+01 2ohdA 151 2.97e+01 2pkpA 170 2.99e+01 2onfA 140 3.04e+01 d.227.1.1 148901 3br3A 194 3.04e+01 2h6rA 219 3.11e+01 1vkdA 338 3.19e+01 b.67.2.4 108644 2ob9A 130 3.19e+01 1wozA 177 3.24e+01 1tw9A 206 3.26e+01 a.45.1.1,c.47.1.5 107381,107382 1p1jA 533 3.28e+01 c.2.1.3,d.81.1.3 87687,87688 1p27B 106 3.32e+01 d.58.7.1 93908 1fpzA 212 3.35e+01 1fpzA c.45.1.1 59976 2vfjA 366 3.36e+01 1xk4C 113 3.38e+01 a.39.1.2 122057 2p39A 155 3.41e+01 2h8aA 154 3.48e+01 f.56.1.1 147239 1mkkA 96 3.50e+01 g.17.1.1 79240 1ux5A 411 3.51e+01 a.207.1.1 100144 3dgbA 382 3.59e+01 2fnaA 357 3.60e+01 a.4.5.11,c.37.1.20 133809,133810 1z57A 339 3.62e+01 1v9fA 325 3.75e+01 d.265.1.3 108448 2qtwB 546 3.77e+01 1ah7 245 3.79e+01 1ah7 1ah7A 245 3.79e+01 a.124.1.1 19339 3dnhA 258 3.80e+01 3d4pA 317 3.82e+01 1zg2A 107 3.84e+01 2o9pA 454 3.90e+01 2w2jA 291 3.91e+01 2f9cA 334 3.93e+01 b.81.1.7 133158 2a6pA 208 3.94e+01 2ysrA 105 3.94e+01 1gp6A 356 4.03e+01 b.82.2.1 65441 2oerA 214 4.05e+01 3ct2A 382 4.05e+01 1ofwA 296 4.09e+01 a.138.1.1 92850 3gu2A 336 4.10e+01 1m8nA 121 4.10e+01 b.81.2.1 78771 1ymkA 175 4.20e+01 c.46.1.1 123699 3k1qI 639 4.25e+01 2f6sA 201 4.26e+01 a.265.1.1 133058 3hv0A 393 4.28e+01 2vj4A 294 4.45e+01 2gvhA 288 4.46e+01 d.38.1.1,d.38.1.1 135776,135777 1p2xA 159 4.50e+01 a.40.1.1 104062 3bb1A 274 4.52e+01 1xqoA 256 4.58e+01 a.96.1.6 115853 1fltV 98 4.59e+01 1vpfA g.17.1.1 44751 1jr3A 373 4.59e+01 a.80.1.1,c.37.1.20 63245,63246 3lahA 188 4.62e+01 1awqA 164 4.63e+01 2cpl b.62.1.1 27461 3cdjA 559 4.69e+01 1m2rA 327 4.72e+01 d.144.1.7 84760 2ahxA 617 4.79e+01 1gnlA 544 4.84e+01 e.26.1.1 70287 2gwdA 449 4.85e+01 1h5uA 842 4.85e+01 1a8i c.87.1.4 60655 2zdsA 340 4.87e+01 1edg 380 4.89e+01 1edg 1edgA 380 4.89e+01 c.1.8.3 28807 1guaB 81 4.93e+01 1c1yB d.15.1.5 37619 3g87A 394 4.99e+01 3ipqA 283 5.00e+01 2k9hA 57 5.05e+01 3cxmA 268 5.10e+01 1qupA 222 5.11e+01 1qupA b.1.8.1,d.58.17.1 22301,39352 1om1A 332 5.19e+01 d.144.1.7 93347 3imhA 338 5.29e+01 2hjhA 354 5.30e+01 3dkbA 390 5.33e+01 3bxjA 507 5.33e+01 3bk2A 562 5.36e+01 2aclB 244 5.38e+01 a.123.1.1 144801 2pigA 334 5.38e+01 3lwsA 357 5.38e+01 1b26A 416 5.47e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 2g7bA 137 5.48e+01 2wlwA 165 5.59e+01 1u55A 188 5.59e+01 d.278.1.1 107677 1awsA 164 5.64e+01 2cpl b.62.1.1 27431 3k0mA 165 5.67e+01 1g7oA 215 5.70e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1yndA 165 5.78e+01 b.62.1.1 123721 2bvlA 543 5.85e+01 c.68.1.22 146219 1nscA 390 5.87e+01 2qwc b.68.1.1 27591 1iknA 286 5.89e+01 1a3qA b.1.18.1,b.2.5.3 21936,22449 2gj4A 824 5.90e+01 c.87.1.4 135256 2a97A 439 5.98e+01 1e1dA 553 6.12e+01 1e1dA e.26.1.1 43363 1abbA 828 6.18e+01 1a8i c.87.1.4 35536 3gw9A 450 6.20e+01 3gy9A 150 6.25e+01 2x2dB 165 6.28e+01 3fc6B 266 6.29e+01 1gntA 553 6.33e+01 e.26.1.1 70290 1a8i 842 6.41e+01 1a8i 1co4A 42 6.42e+01 1co4A g.47.1.1 45347 1b9bA 255 6.43e+01 1amk c.1.1.1 28531 3ke3A 379 6.50e+01 3govA 155 6.50e+01 3k8nA 185 6.51e+01 1dpjA 329 6.54e+01 1smrA b.50.1.2 26828 1r6lA 239 6.55e+01 d.14.1.4,d.101.1.1 97153,97154 2nwwA 422 6.58e+01 f.49.1.1 138721 2q4fA 149 6.59e+01 a.24.10.2 139847 3dxiA 320 6.60e+01 2a2kA 175 6.61e+01 1e0tA 470 6.67e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 2pbyA 308 6.69e+01 2b2yA 187 6.69e+01 b.34.13.2,b.34.13.2 127754,127755 3kn6A 325 6.71e+01 3ijdA 315 6.80e+01 2kigA 161 6.83e+01 3mmiA 386 6.93e+01 3fpwA 192 7.00e+01 1vkxA 273 7.08e+01 1a3qA b.1.18.1,b.2.5.3 21941,22454 3ezzA 144 7.15e+01 2ganA 190 7.19e+01 d.108.1.1 134889 1ofcX 304 7.20e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2bemA 170 7.22e+01 b.1.18.2 116698 3fw3A 266 7.37e+01 1c3pA 375 7.41e+01 1c3pA c.42.1.2 32606 2qklA 127 7.41e+01 1zgkA 308 7.45e+01 b.68.11.1 145998 1t4wA 196 7.45e+01 b.2.5.2 106427 2fluX 308 7.58e+01 b.68.11.1 133750 2otuA 115 7.65e+01 3i3uA 112 7.77e+01 1yrbA 262 7.78e+01 c.37.1.10 123915 5cytR 104 7.78e+01 1ycc a.3.1.1 15878 2fs6A 137 7.90e+01 b.60.1.2 134005 2nwlA 422 7.99e+01