# List of top-scoring protein chains for t06-100-30-str2-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 2a9uA 144 8.40e-03 1yn9A 169 7.88e-01 2cwyA 94 1.03e+00 1h3nA 878 2.00e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1w68A 390 2.39e+00 a.25.1.2 109216 1uhgA 385 2.41e+00 e.1.1.1 88491 2c3mA 1231 2.67e+00 1cuk 203 2.69e+00 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1lniA 96 3.99e+00 d.1.1.2 74046 2bb6A 414 4.42e+00 1vmaA 306 4.79e+00 a.24.13.1,c.37.1.10 108887,108888 1u2wA 122 4.82e+00 1x8vA 455 4.98e+00 1jhgA 101 5.14e+00 1jhgA a.4.12.1 19009 1lrv 244 5.24e+00 1lrv a.118.1.5 19146 1pylA 97 5.96e+00 d.1.1.2 104391 1gvhA 396 6.03e+00 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1oyzA 280 6.87e+00 a.118.1.16 93775 1ho8A 480 6.90e+00 1ho8A a.118.1.9 61107 1vrmA 325 6.93e+00 1mun 225 6.95e+00 1mun a.96.1.2 18744 1w5tA 412 7.43e+00 1up7A 417 7.63e+00 1ks8A 433 7.81e+00 a.102.1.2 77519 1hm6A 346 7.93e+00 1avc a.65.1.1 18147 1zejA 293 8.71e+00 1gmjA 84 8.85e+00 h.4.8.1 65310 2b1eA 564 9.01e+00 1mgrA 99 9.16e+00 d.1.1.2 79106 1fpzA 212 9.51e+00 1fpzA c.45.1.1 59976 1g8pA 350 9.74e+00 1g8pA c.37.1.20 60376 1i4mA 108 1.00e+01 d.6.1.1 66025 1vddA 228 1.01e+01 e.49.1.1 108519 1w27A 714 1.02e+01 1gl2C 65 1.02e+01 h.1.15.1 65280 1wu7A 434 1.02e+01 1r1uA 106 1.03e+01 a.4.5.5 104771 2cohA 202 1.08e+01 1tw9A 206 1.12e+01 a.45.1.1,c.47.1.5 107381,107382 1lfkA 398 1.13e+01 a.104.1.1 77926 1s9pA 227 1.15e+01 a.123.1.1 105384 2ccmA 191 1.19e+01 1sqgA 429 1.22e+01 a.79.1.3,c.66.1.38 105912,105913 2c12A 439 1.23e+01 1wa8A 99 1.28e+01 2bcqA 335 1.29e+01 1f7cA 231 1.33e+01 1f7cA a.116.1.1 19107 1kkhA 317 1.35e+01 d.14.1.5,d.58.26.3 72645,72646 1ka2A 499 1.37e+01 d.92.1.5 77305 1khdA 345 1.44e+01 a.46.2.1,c.27.1.1 77400,77401 1tffA 234 1.48e+01 d.3.1.11 106854 1cipA 353 1.54e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1mswD 883 1.58e+01 e.8.1.3 79427 1ujwB 135 1.58e+01 h.4.9.1 99472 1jk0B 345 1.62e+01 a.25.1.2 63143 1tn6A 382 1.66e+01 1p7tA 731 1.67e+01 c.1.13.1 94319 1xahA 354 1.68e+01 2bcfA 276 1.72e+01 1kl9A 182 1.73e+01 b.40.4.5 72681 1i1rB 181 1.77e+01 1i1rB a.26.1.1 61548 1or0A 160 1.91e+01 d.153.1.2 93445 2f6hX 419 1.92e+01 1go3F 107 1.92e+01 a.60.8.2 65407 1ee4A 423 1.97e+01 1ee4A a.118.1.1 19128 2c1xA 456 2.04e+01 1a5t 334 2.07e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1rm6C 161 2.09e+01 1mp1A 111 2.13e+01 a.188.1.1 91382 1io2A 213 2.24e+01 1ekeA c.55.3.1 62612 1kwfA 363 2.28e+01 a.102.1.2 73078 1x3kA 152 2.32e+01 1k87A 669 2.32e+01 a.176.1.1,c.1.23.2 77286,77287 2h58A 330 2.34e+01 2c9wA 169 2.37e+01 1uzeA 589 2.41e+01 d.92.1.5 108174 2fupA 168 2.47e+01 1svsA 353 2.51e+01 c.37.1.8 106051 1y7yA 74 2.52e+01 1odoA 408 2.52e+01 a.104.1.1 92783 2h1nA 567 2.54e+01 1vgmA 378 2.58e+01 1kb9A 431 2.61e+01 d.185.1.1,d.185.1.1 77311,77312 1ez0A 510 2.65e+01 1eyyA c.82.1.1 35385 1z67A 135 2.71e+01 1no1A 126 2.71e+01 a.179.1.1 85913 1x6iA 91 2.74e+01 1yb3A 175 2.86e+01 2ar0A 541 2.87e+01 1q35A 320 2.87e+01 c.94.1.1 95661 1y8aA 332 2.90e+01 1colA 204 2.95e+01 1a87 f.1.1.1 43378 1z3xA 238 2.96e+01 1nznA 126 2.99e+01 a.118.8.1 92382 2fug1 438 3.03e+01 1m0uA 249 3.05e+01 a.45.1.1,c.47.1.5 78359,78360 1bed 181 3.05e+01 1fvkA c.47.1.13 90330 2fuqA 747 3.07e+01 1ztuA 341 3.13e+01 1elwA 118 3.14e+01 1a17 a.118.8.1 19207 1v4xB 146 3.15e+01 a.1.1.2 108364 1keaA 221 3.16e+01 a.96.1.2 68491 1vqrA 297 3.18e+01 1lshA 1056 3.18e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1gtkA 313 3.20e+01 c.94.1.1,d.50.2.1 76346,76347 1p2xA 159 3.25e+01 a.40.1.1 104062 1xszA 356 3.28e+01 1xqoA 256 3.28e+01 1flcB 175 3.29e+01 1flcB h.3.1.1 45716 1wgzA 510 3.32e+01 1hbnA 549 3.35e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 1r31A 428 3.35e+01 d.58.20.1,d.179.1.1 96897,96898 1ew4A 106 3.35e+01 1ew4A d.82.2.1 40023 1fpoA 171 3.41e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1owcA 427 3.44e+01 a.103.1.1 104039 1xi1A 575 3.45e+01 2ah6A 208 3.49e+01 1dowA 205 3.49e+01 1dovA a.24.9.1 16626 1nd4A 264 3.58e+01 d.144.1.6 91815 1n1bA 549 3.65e+01 a.102.4.1,a.128.1.3 79799,79800 1vkuA 100 3.66e+01 a.28.1.1 108690 2a65A 519 3.76e+01 2ff4A 388 3.78e+01 1utg 70 3.88e+01 1utg a.101.1.1 18813 1zarA 282 3.88e+01 1sumB 235 3.88e+01 a.7.12.1 106025 1b3uA 588 3.96e+01 1b3uA a.118.1.2 19135 2es4D 332 3.98e+01 1gxyA 226 4.01e+01 d.166.1.3 76380 1q2zA 120 4.05e+01 a.118.19.1 95656 1s6lA 212 4.05e+01 1hq1A 105 4.06e+01 1dulA a.36.1.1 17120 2a9iA 113 4.06e+01 1gs9A 165 4.14e+01 a.24.1.1 83313 1otsA 465 4.17e+01 f.20.1.1 87415 1y9qA 192 4.29e+01 1qpcA 279 4.30e+01 1fgkA d.144.1.7 41685 1qynA 153 4.36e+01 d.33.1.1 96597 1l1eA 287 4.38e+01 c.66.1.18 73454 1f20A 435 4.49e+01 b.43.4.1,c.25.1.4 64932,64933 1kpsB 171 4.54e+01 a.118.12.1 68787 1s8nA 205 4.56e+01 c.23.1.1 105374 1ds1A 324 4.58e+01 1drtA b.82.2.2 28127 1sur 215 4.59e+01 1sur c.26.2.2 31620 1pmzA 86 4.59e+01 a.39.1.10 104195 1jkoC 52 4.62e+01 a.4.1.2 66809 1unkA 87 4.64e+01 1cei a.28.2.1 16935 1di1A 300 4.64e+01 1di1A a.128.1.4 19446 2fk8A 318 4.66e+01 1bqbA 301 4.70e+01 1hyt d.92.1.2 58962 2gf4A 100 4.76e+01 1gweA 503 4.80e+01 e.5.1.1 70667 1oaa 259 4.85e+01 1oaa c.2.1.2 29829 3pviA 157 4.90e+01 3pviA c.52.1.6 33300 1tx4A 198 4.96e+01 1tx4A a.116.1.1 19098 1u55A 188 5.01e+01 d.278.1.1 107677 1q52A 314 5.03e+01 c.14.1.3 95846 1xnfA 275 5.04e+01 1nd9A 49 5.06e+01 a.6.1.6 85575 1l8dA 112 5.07e+01 h.4.12.1 73687 1rktA 205 5.08e+01 a.4.1.9,a.121.1.1 97623,97624 1w99A 558 5.10e+01 1wwpA 119 5.11e+01 1t3qA 168 5.15e+01 a.56.1.1,d.15.4.2 106367,106368 1qyiA 384 5.16e+01 c.108.1.13 96595 2fd5A 180 5.17e+01 2a72A 146 5.20e+01 1mw5A 187 5.38e+01 d.259.1.1 91477 2a1iA 146 5.45e+01 1zwyA 185 5.49e+01 1gnwA 211 5.50e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1zymA 258 5.51e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 1tjoA 182 5.53e+01 1s9rA 410 5.69e+01 d.126.1.4 98758 1k3yA 221 5.77e+01 a.45.1.1,c.47.1.5 77245,77246 1qh8A 478 5.80e+01 1qguA c.92.2.3 35633 1f45B 197 5.80e+01 1f45B a.26.1.1 59642 1u00A 227 5.84e+01 1zs3A 182 5.86e+01 2b0jA 358 6.01e+01 1k6kA 143 6.09e+01 a.174.1.1 77274 1wa5B 530 6.11e+01 2gi3A 476 6.12e+01 1uptB 60 6.15e+01 a.193.1.1 99768 1guzA 310 6.15e+01 c.2.1.5,d.162.1.1 65586,65587 1orjA 130 6.18e+01 a.24.19.1 93456 1ux8A 132 6.21e+01 2cfuA 658 6.26e+01 1knzA 164 6.29e+01 e.34.1.1 68709 1lj9A 144 6.30e+01 a.4.5.28 78035 2bbhA 269 6.31e+01 2cbiA 594 6.34e+01 1ixcA 294 6.34e+01 a.4.5.37,c.94.1.1 83764,83765 1lm5A 214 6.51e+01 d.211.2.1 74029 1yodA 30 6.53e+01 1h5uA 842 6.55e+01 1a8i c.87.1.4 60655 1ornA 226 6.56e+01 a.96.1.1 87342 1hh8A 213 6.57e+01 1e96B a.118.8.1 61042 1tadA 324 6.62e+01 1cipA a.66.1.1,c.37.1.8 18194,32077 1i4yA 114 6.63e+01 2mhr a.24.4.1 61738 2cujA 108 6.67e+01 2cg4A 152 6.68e+01 1dk8A 147 6.71e+01 1agrE a.91.1.1 18548 1cqxA 403 6.71e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 2gpiA 91 6.74e+01 1epuA 591 6.80e+01 1dn1A e.25.1.1 43358 1vkeA 133 6.82e+01 a.152.1.2 108650 1jx6A 342 6.87e+01 c.93.1.1 67406 1iq8A 582 6.94e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1o9rA 162 6.98e+01 a.25.1.1 86706 1s4kA 120 7.02e+01 a.35.1.6 105254 1wzaA 488 7.03e+01 1upkA 341 7.09e+01 a.118.1.15 99758 1gpuA 680 7.18e+01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1zhxA 438 7.18e+01 1jmxA 494 7.19e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 2b4jC 98 7.25e+01 1bl0A 129 7.25e+01 1d5yA a.4.1.8,a.4.1.8 16053,16054 1zl8B 54 7.25e+01 1pi1A 185 7.46e+01 a.29.7.1 94699 1hw5A 210 7.50e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1xfhA 422 7.51e+01 2dbyA 368 7.53e+01 1dvoA 152 7.56e+01 1dvoA a.136.1.1 19623 2fiyA 309 7.68e+01 1oyjA 231 7.68e+01 a.45.1.1,c.47.1.5 87597,87598 1i39A 225 7.71e+01 1ekeA c.55.3.1 61585 1pszA 303 7.79e+01 1toaA c.92.2.2 35600 2f94F 350 7.97e+01 1pfvA 551 8.03e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1hl2A 297 8.04e+01 c.1.10.1 83581 1mpgA 282 8.05e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1s3cA 141 8.08e+01 1yi8A 351 8.15e+01 1quuA 250 8.16e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1ll2A 333 8.35e+01 c.68.1.14 74005 1sfkA 76 8.35e+01 a.190.1.1 105488 1jogA 146 8.36e+01 a.24.16.2 77142 1z7lA 276 8.42e+01 1nz6A 101 8.58e+01 a.2.3.1 86441 1kr7A 110 8.65e+01 a.1.1.4 72890 2g0dA 409 8.68e+01 1klxA 138 8.71e+01 a.118.18.1 77440 1e6yA 569 8.76e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 1q0gA 117 8.80e+01 a.24.22.1 104428 1h1dA 221 8.82e+01 c.66.1.1 83452 1ujcA 161 8.86e+01 1l9lA 74 8.93e+01 a.64.1.1 77827 1zx1A 231 8.94e+01