# List of top-scoring protein chains for t04-100-30-bys-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.cse.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 1zynA 202 3.10e-02 1hyuA 521 1.20e-01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 2rslA 140 4.70e-01 2rslA c.53.1.1 33345 1dyqA 234 5.50e-01 3seb b.40.2.2,d.15.6.1 59140,59141 2fclA 169 7.20e-01 1a53 247 8.30e-01 1a53 c.1.2.4 28564 1igs 248 8.58e-01 1a53 c.1.2.4 28565 2ewrA 170 8.79e-01 1m93A 55 2.27e+00 e.1.1.1 91235 2fvtA 135 3.17e+00 1a0rP 245 3.38e+00 1b9yC c.47.1.6 33054 2flsA 132 3.55e+00 2bg5A 324 3.81e+00 1zp4A 304 4.48e+00 1regX 122 4.61e+00 1regX d.58.27.1 39406 2aioA 269 5.11e+00 1pbgA 468 5.16e+00 1e70M c.1.8.4 28946 2c3zA 222 5.26e+00 1qzgA 187 5.58e+00 b.40.4.3 96643 1j5vA 351 6.01e+00 c.72.1.1 71585 1xkiA 162 6.27e+00 1smlA 269 6.41e+00 1smlA d.157.1.1 42053 2axwA 134 6.44e+00 2g9iA 249 6.54e+00 1qhlA 227 6.55e+00 1qhlA c.37.1.12 32382 1fl2A 310 7.45e+00 1hyuA c.3.1.5,c.3.1.5 59869,59870 1xwvA 129 8.07e+00 1repC 251 8.16e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1iz5A 249 8.50e+00 d.131.1.2,d.131.1.2 83834,83835 1ih8A 271 8.58e+00 2nsyA c.26.2.1 62377 1ma3A 253 9.71e+00 c.31.1.5 78883 2pil 159 9.86e+00 2pil d.24.1.1 38376 1thg 544 9.89e+00 1thg c.69.1.17 34763 1kqpA 271 1.00e+01 c.26.2.1 72883 1c52 131 1.08e+01 1c52 a.3.1.1 15810 2d1uA 104 1.09e+01 1t64A 377 1.12e+01 c.42.1.2 106543 1h8vA 218 1.13e+01 2nlrA b.29.1.11 60795 2b33A 140 1.15e+01 1s55A 156 1.17e+01 1tiqA 180 1.19e+01 d.108.1.1 107010 1d2oA 187 1.20e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1oa2A 218 1.22e+01 b.29.1.11 86721 1cjbA 231 1.23e+01 1qk3A c.61.1.1 34079 1pnsC 206 1.24e+01 i.1.1.1 88170 2afbA 351 1.29e+01 1v30A 124 1.36e+01 1zpvA 91 1.38e+01 1gyxA 76 1.39e+01 d.80.1.1 76387 1h72C 296 1.44e+01 d.14.1.5,d.58.26.1 60712,60713 2gfgA 193 1.51e+01 1larA 575 1.56e+01 1larA c.45.1.2,c.45.1.2 32693,32694 1hdoA 206 1.56e+01 1he2A c.2.1.2 60965 1a99A 344 1.58e+01 1pot c.94.1.1 35812 1iqaA 160 1.64e+01 b.22.1.1 71274 2gw6A 123 1.67e+01 1k38A 254 1.69e+01 e.3.1.1 84303 2fh7A 595 1.69e+01 1xedA 117 1.71e+01 1o58A 303 1.71e+01 c.79.1.1 92491 1sqsA 242 1.72e+01 c.23.5.5 98968 1tzaA 134 1.76e+01 b.1.23.1 107468 1fwkA 296 1.81e+01 1fwkA d.14.1.5,d.58.26.1 37576,39398 1vr0A 247 1.84e+01 1sek 378 1.88e+01 1sek e.1.1.1 42675 1d2rA 326 1.88e+01 1d2rB c.26.1.1 31572 2gmqA 118 1.95e+01 1b25A 619 1.95e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1yr2A 741 2.03e+01 1o0pA 104 2.03e+01 d.58.7.1 86535 1tf1A 198 2.07e+01 d.110.2.2 106826 1i8fA 81 2.10e+01 1i8fA b.38.1.1 61959 1vr7A 142 2.11e+01 1my6A 199 2.12e+01 a.2.11.1,d.44.1.1 85232,85233 2asbA 251 2.17e+01 1ycyA 71 2.19e+01 2cxcA 144 2.23e+01 1m07A 111 2.27e+01 d.5.1.1 78328 1yb2A 275 2.36e+01 1juvA 193 2.49e+01 c.71.1.1 90912 1ej0A 180 2.49e+01 1ej0A c.66.1.2 34179 1wmqA 147 2.53e+01 1y96B 85 2.55e+01 1qlmA 316 2.57e+01 1qlmA d.147.1.1 41765 1g8lA 411 2.60e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1qavA 90 2.61e+01 1qauA b.36.1.1 24777 1o6dA 163 2.71e+01 c.116.1.3 92567 1u00A 227 2.76e+01 1ockA 412 2.77e+01 c.117.1.1 86802 2b7eA 59 2.83e+01 1tygB 87 2.87e+01 d.15.3.2 107455 1b56 135 2.90e+01 1hmt b.60.1.2 27183 1v5tA 90 3.05e+01 d.15.1.1 108385 1lwjA 441 3.12e+01 b.71.1.1,c.1.8.1 74303,74304 1vddA 228 3.13e+01 e.49.1.1 108519 1es6A 296 3.15e+01 1es6A b.31.1.1,b.31.1.1 83048,83049 1qi9A 556 3.18e+01 1qhbA a.111.1.2 19053 4uagA 437 3.19e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1wpuA 147 3.20e+01 2gi3A 476 3.28e+01 2ohxA 374 3.29e+01 2ohxA b.35.1.2,c.2.1.1 24669,29685 1ft5A 211 3.38e+01 1bvb a.138.1.3 19681 1u2xA 474 3.40e+01 c.72.1.3 107622 1t0aA 159 3.41e+01 1b5tA 275 3.42e+01 1b5tA c.1.23.1 29676 1lid 131 3.42e+01 1hmt b.60.1.2 27184 1rwiA 270 3.43e+01 b.68.9.1 97987 1x74A 360 3.48e+01 1epwA 1290 3.50e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 2g0uA 92 3.52e+01 1p35A 299 3.53e+01 1p35A b.28.1.1 23925 1q48A 134 3.62e+01 d.224.1.2 95783 1ll2A 333 3.74e+01 c.68.1.14 74005 1ydmA 187 3.76e+01 1ktjA 129 3.77e+01 b.1.18.7 72974 2aefA 234 3.80e+01 1ta8A 332 3.82e+01 1uc7A 125 3.90e+01 c.47.1.1 99163 1p5vA 235 3.90e+01 b.1.11.1,b.7.2.1 87812,87813 1ri7A 171 3.96e+01 a.4.5.32,d.58.4.2 97504,97505 1xdpA 687 3.97e+01 1nijA 318 4.17e+01 c.37.1.10,d.237.1.1 85741,85742 1q59A 172 4.17e+01 f.1.4.1 95881 1ns5A 155 4.19e+01 c.116.1.3 80705 1g7nA 131 4.20e+01 b.60.1.2 83274 1duvG 333 4.25e+01 1othA c.78.1.1,c.78.1.1 35228,35229 1mmiA 366 4.32e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1bg6 359 4.39e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1ble 163 4.39e+01 1ble c.38.1.1 32475 1souA 194 4.43e+01 c.124.1.6 105858 1zhvA 134 4.43e+01 1v0lA 313 4.47e+01 c.1.8.3 108207 1jhfA 202 4.56e+01 a.4.5.2,b.87.1.1 63057,63058 1shsA 147 4.66e+01 1shsA b.15.1.1 23675 1v93A 296 4.66e+01 c.1.23.1 100532 1zthA 258 4.66e+01 1tueA 212 4.71e+01 c.37.1.20 107323 1exg 110 4.71e+01 1exg b.2.2.1 22387 2bo4A 397 4.71e+01 2bwfA 77 4.76e+01 1vicA 262 4.77e+01 c.68.1.13 100756 1njhA 119 4.92e+01 b.128.1.1 85787 3seb 238 4.95e+01 3seb b.40.2.2,d.15.6.1 25184,37773 2a2pA 129 4.95e+01 1wmhA 89 4.97e+01 1vr4A 103 5.00e+01 1smrA 335 5.00e+01 1smrA b.50.1.2 26878 1rypI 222 5.14e+01 d.153.1.4 41877 1fc1A 224 5.16e+01 1igtB b.1.1.2,b.1.1.2 21520,21521 1t9bA 677 5.16e+01 1of8A 370 5.18e+01 c.1.10.4 92819 1ve6A 582 5.23e+01 5nul 138 5.29e+01 5nul c.23.5.1 31191 2f4mA 295 5.30e+01 1wlyA 333 5.31e+01 1bby 69 5.33e+01 2bby a.4.5.15 16149 1u6tA 121 5.36e+01 2cygA 312 5.40e+01 1k0rA 366 5.49e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 67961,67962,67963,67964 1vcvA 226 5.50e+01 1j1lA 290 5.53e+01 b.82.1.12 90766 1fg7A 356 5.54e+01 1gewA c.67.1.1 59819 1vfsA 386 5.68e+01 b.49.2.2,c.1.6.1 108584,108585 1wlzA 105 5.69e+01 2a3mA 130 5.73e+01 2trcP 217 5.78e+01 1b9yC c.47.1.6 33051 1quqB 121 5.83e+01 1quqB b.40.4.3 25305 1s9rA 410 5.86e+01 d.126.1.4 98758 1yqzA 438 5.97e+01 1mm4A 170 5.99e+01 f.4.1.2 79294 2axpA 173 6.01e+01 1fsgA 233 6.11e+01 1qk3A c.61.1.1 34029 2b3wA 168 6.11e+01 1t8qA 336 6.14e+01 c.1.18.3 106669 1p6pA 125 6.16e+01 b.60.1.2 87839 2amyA 246 6.20e+01 2bce 581 6.32e+01 2bce c.69.1.1 34625 1wu3I 161 6.34e+01 2a41C 32 6.39e+01 1ok7A 366 6.62e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 2gnxA 365 6.65e+01 1v04A 355 6.70e+01 b.68.6.2 100240 1y96A 86 6.70e+01 1pyfA 312 6.72e+01 c.1.7.1 95334 1m4jA 142 6.77e+01 d.109.1.2 78602 2fcjA 119 6.79e+01 1gqzA 274 6.79e+01 d.21.1.1,d.21.1.1 83311,83312 1u3wA 374 6.80e+01 1i6lA 328 6.86e+01 c.26.1.1 66041 1kq1A 77 6.90e+01 b.38.1.2 72848 1hetA 374 6.97e+01 2ohxA b.35.1.2,c.2.1.1 60975,60976 1o0yA 260 6.97e+01 c.1.10.1 80756 1oj4A 283 6.98e+01 d.14.1.5,d.58.26.5 93083,93084 1ur1A 378 6.98e+01 c.1.8.3 99804 1xn9A 101 7.00e+01 1hqz1 141 7.04e+01 1n8kA 374 7.06e+01 b.35.1.2,c.2.1.1 80298,80299 1evuA 731 7.09e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1ti6B 274 7.10e+01 b.3.5.1,d.58.1.5 106976,106977 1vm6A 228 7.12e+01 c.2.1.3,d.81.1.3 108876,108877 1ztsA 139 7.16e+01 1ryjA 70 7.19e+01 d.15.3.2 98104 1xyiA 66 7.21e+01 1kshA 186 7.21e+01 c.37.1.8 72914 1r5lA 262 7.23e+01 a.5.3.1,c.13.1.1 97099,97100 1vqzA 341 7.25e+01 1f6dA 376 7.33e+01 1f6dA c.87.1.3 35467 1mkaA 171 7.40e+01 1mkaA d.38.1.2 38543 1m7vA 363 7.43e+01 d.174.1.1 78748 2a74A 643 7.49e+01 2fj6A 82 7.58e+01 2f42A 179 7.58e+01 1vl4A 447 7.62e+01 d.283.1.1 108718 1f9vA 347 7.65e+01 1bg2 c.37.1.9 59745 1p8xA 344 7.68e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1fhgA 154 7.69e+01 1tlk b.1.1.4 21706 1a8q 274 7.73e+01 1brt c.69.1.12 34702 1r5jA 337 7.75e+01 c.77.1.5 97097 1azpA 66 7.75e+01 1azpA b.34.13.1 37467 1f0cA 305 7.81e+01 1c8oA e.1.1.1 42676 1nxiA 132 7.90e+01 d.58.47.1 86381 1xkqA 280 7.90e+01 1ydyA 356 7.91e+01 2as9A 210 7.94e+01 1h2cA 140 7.94e+01 b.31.1.1 83462 1gewA 356 7.95e+01 1gewA c.67.1.1 60470 2f6hX 419 7.95e+01 1txvB 440 7.97e+01 3csuA 310 7.99e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 2awpA 198 8.01e+01 1mdc 133 8.01e+01 1hmt b.60.1.2 27198 1od8A 313 8.07e+01 c.1.8.3 86838 1t0hA 132 8.07e+01 b.34.2.1 106207 1zruA 264 8.07e+01 1r64A 481 8.09e+01 b.18.1.20,c.41.1.1 97140,97141 1c7sA 858 8.14e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1ddf 127 8.24e+01 1ddf a.77.1.2 18423 2dfkA 402 8.25e+01 1gklA 297 8.33e+01 c.69.1.2 65250 1jer 138 8.36e+01 2cbp b.6.1.1 23022 1mzgA 146 8.38e+01 d.224.1.1 79696 1wb4A 297 8.45e+01 1q3lA 69 8.66e+01 1b65A 375 8.85e+01 1b65A d.154.1.1 42020 4pfk 319 8.92e+01 3pfk c.89.1.1 35582 1ex0A 731 8.94e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1ouwA 152 8.96e+01 b.77.3.1 93571 1xtoA 311 8.97e+01