# List of top-scoring protein chains for t04-100-30-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 1.45e-02 1yn9A 169 1.12e+00 2cwyA 94 1.51e+00 1h3nA 878 2.07e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1qlnA 883 2.11e+00 1cezA e.8.1.3 43111 1w68A 390 3.19e+00 a.25.1.2 109216 1jk0A 419 3.86e+00 a.25.1.2 63142 1h0oA 390 3.88e+00 a.25.1.2 70845 1xsm 390 4.29e+00 1xsm a.25.1.2 16804 1uhgA 385 4.49e+00 e.1.1.1 88491 1ovaA 386 4.66e+00 1ovaA e.1.1.1 42619 2c3mA 1231 4.67e+00 1x8vA 455 4.76e+00 2b1eA 564 5.71e+00 1h5zA 455 6.10e+00 a.104.1.1 90622 1jhgA 101 6.49e+00 1jhgA a.4.12.1 19009 1u13A 455 6.80e+00 a.104.1.1 107578 1cuk 203 6.93e+00 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1rgeA 96 7.22e+00 1rgeA d.1.1.2 36028 1u2wA 122 7.23e+00 1vmaA 306 7.51e+00 a.24.13.1,c.37.1.10 108887,108888 1e9xA 455 7.68e+00 1ea1A a.104.1.1 18969 1lniA 96 7.73e+00 d.1.1.2 74046 1kekA 1231 7.96e+00 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1ho8A 480 8.54e+00 1ho8A a.118.1.9 61107 1g8pA 350 8.88e+00 1g8pA c.37.1.20 60376 1mun 225 8.92e+00 1mun a.96.1.2 18744 2bb6A 414 9.09e+00 1up7A 417 9.29e+00 1up6A 416 9.33e+00 c.2.1.5,d.162.1.2 107976,107977 1fpzA 212 9.49e+00 1fpzA c.45.1.1 59976 1tllA 688 1.01e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1ks8A 433 1.04e+01 a.102.1.2 77519 1pylA 97 1.09e+01 d.1.1.2 104391 1zejA 293 1.19e+01 1i4mA 108 1.20e+01 d.6.1.1 66025 1gmjA 84 1.20e+01 h.4.8.1 65310 1lrv 244 1.21e+01 1lrv a.118.1.5 19146 6gsvA 217 1.21e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1gl2C 65 1.21e+01 h.1.15.1 65280 1y7yA 74 1.26e+01 1ujwB 135 1.30e+01 h.4.9.1 99472 1r1uA 106 1.38e+01 a.4.5.5 104771 1a5t 334 1.41e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1yucA 255 1.44e+01 1mswD 883 1.46e+01 e.8.1.3 79427 2ccmA 191 1.48e+01 1w27A 714 1.49e+01 1rm6C 161 1.51e+01 1w5tA 412 1.52e+01 1tw9A 206 1.53e+01 a.45.1.1,c.47.1.5 107381,107382 1vrmA 325 1.55e+01 1mgrA 99 1.57e+01 d.1.1.2 79106 2c12A 439 1.57e+01 1s9pA 227 1.58e+01 a.123.1.1 105384 1wa8A 99 1.58e+01 1sqgA 429 1.59e+01 a.79.1.3,c.66.1.38 105912,105913 1tffA 234 1.64e+01 d.3.1.11 106854 1hm6A 346 1.66e+01 1avc a.65.1.1 18147 1wj7A 104 1.66e+01 1deeG 54 1.67e+01 1fc2C a.8.1.1 16343 1vddA 228 1.73e+01 e.49.1.1 108519 1lfkA 398 1.83e+01 a.104.1.1 77926 1pk5A 248 1.87e+01 a.123.1.1 88139 2cohA 202 1.98e+01 1f7cA 231 1.98e+01 1f7cA a.116.1.1 19107 1go3F 107 2.03e+01 a.60.8.2 65407 1x3kA 152 2.09e+01 1vgmA 378 2.09e+01 1oyzA 280 2.10e+01 a.118.1.16 93775 2bcqA 335 2.10e+01 1hg4A 279 2.25e+01 1lbd a.123.1.1 19333 1kkhA 317 2.28e+01 d.14.1.5,d.58.26.3 72645,72646 1ka2A 499 2.31e+01 d.92.1.5 77305 1khdA 345 2.33e+01 a.46.2.1,c.27.1.1 77400,77401 1kb9A 431 2.41e+01 d.185.1.1,d.185.1.1 77311,77312 1ezvA 430 2.42e+01 1be3A d.185.1.1,d.185.1.1 59541,59542 2h58A 330 2.46e+01 2c9wA 169 2.48e+01 1o86A 589 2.51e+01 d.92.1.5 81177 1jk0B 345 2.52e+01 a.25.1.2 63143 1gvhA 396 2.57e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1xahA 354 2.58e+01 1ee4A 423 2.58e+01 1ee4A a.118.1.1 19128 1d8cA 723 2.59e+01 1d8cA c.1.13.1 29325 1p7tA 731 2.61e+01 c.1.13.1 94319 2bcfA 276 2.63e+01 1uzeA 589 2.71e+01 d.92.1.5 108174 1kl9A 182 2.73e+01 b.40.4.5 72681 1t3qA 168 2.79e+01 a.56.1.1,d.15.4.2 106367,106368 1tn6A 382 2.89e+01 1i1rB 181 2.95e+01 1i1rB a.26.1.1 61548 2bjcA 62 2.99e+01 1hbnA 549 3.02e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 1mroA 548 3.04e+01 1mroA a.89.1.1,d.58.31.2 18525,39443 2c1xA 456 3.07e+01 1rztA 331 3.08e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 2f6hX 419 3.08e+01 1r31A 428 3.10e+01 d.58.20.1,d.179.1.1 96897,96898 1odoA 408 3.21e+01 a.104.1.1 92783 1yb3A 175 3.21e+01 1keaA 221 3.24e+01 a.96.1.2 68491 1io2A 213 3.25e+01 1ekeA c.55.3.1 62612 1p5sA 203 3.26e+01 a.40.1.1 94147 1nznA 126 3.33e+01 a.118.8.1 92382 1wu7A 434 3.38e+01 1vkuA 100 3.40e+01 a.28.1.1 108690 1ab4 477 3.42e+01 1ab4 e.11.1.1 43251 1elwA 118 3.60e+01 1a17 a.118.8.1 19207 1kwfA 363 3.60e+01 a.102.1.2 73078 2h1nA 567 3.69e+01 1q35A 320 3.69e+01 c.94.1.1 95661 1dowA 205 3.84e+01 1dovA a.24.9.1 16626 1fpoA 171 3.93e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1cem 363 3.93e+01 1cem a.102.1.2 18826 1ornA 226 3.98e+01 a.96.1.1 87342 2fupA 168 4.01e+01 1pda 315 4.01e+01 1pda c.94.1.1,d.50.2.1 35751,38794 1wgzA 510 4.05e+01 1gtkA 313 4.07e+01 c.94.1.1,d.50.2.1 76346,76347 1hcrA 52 4.10e+01 1hcrA a.4.1.2 16020 1m0uA 249 4.19e+01 a.45.1.1,c.47.1.5 78359,78360 1vqrA 297 4.23e+01 1rkpA 326 4.26e+01 a.211.1.2 97620 1ew4A 106 4.29e+01 1ew4A d.82.2.1 40023 1y8aA 332 4.32e+01 1orjA 130 4.36e+01 a.24.19.1 93456 1pjqA 457 4.38e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 2ar0A 541 4.42e+01 1ztuA 341 4.45e+01 2ah6A 208 4.46e+01 1j7nA 776 4.46e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1xqoA 256 4.47e+01 1fm2A 169 4.47e+01 1fm2A d.153.1.2 59877 1flcB 175 4.47e+01 1flcB h.3.1.1 45716 1avoB 140 4.48e+01 1avoB 1or0A 160 4.51e+01 d.153.1.2 93445 1xi1A 575 4.51e+01 1f20A 435 4.52e+01 b.43.4.1,c.25.1.4 64932,64933 1s8nA 205 4.52e+01 c.23.1.1 105374 1b68A 191 4.53e+01 1nfn a.24.1.1 59076 1ld8A 382 4.54e+01 a.118.6.1 73838 1s6lA 212 4.56e+01 1jkoC 52 4.72e+01 a.4.1.2 66809 1hbzA 498 4.73e+01 1cf9A e.5.1.1 60937 1jchA 551 4.78e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1no1A 126 4.80e+01 a.179.1.1 85913 2fuqA 747 4.83e+01 1owcA 427 4.89e+01 a.103.1.1 104039 1n1bA 549 4.91e+01 a.102.4.1,a.128.1.3 79799,79800 1gs9A 165 4.92e+01 a.24.1.1 83313 1colA 204 5.01e+01 1a87 f.1.1.1 43378 1w99A 558 5.03e+01 1gweA 503 5.05e+01 e.5.1.1 70667 1hq1A 105 5.08e+01 1dulA a.36.1.1 17120 1mp1A 111 5.15e+01 a.188.1.1 91382 1x6iA 91 5.16e+01 1cei 94 5.23e+01 1cei a.28.2.1 16939 1u00A 227 5.34e+01 1d8dA 377 5.42e+01 1ft1A a.118.6.1 19185 1qyiA 384 5.45e+01 c.108.1.13 96595 1qpcA 279 5.45e+01 1fgkA d.144.1.7 41685 1f2eA 201 5.50e+01 1a0fA a.45.1.1,c.47.1.5 17745,33039 1utg 70 5.53e+01 1utg a.101.1.1 18813 1z3xA 238 5.54e+01 1u55A 188 5.54e+01 d.278.1.1 107677 1cjgA 62 5.57e+01 1pru a.35.1.5 17112 1sumB 235 5.58e+01 a.7.12.1 106025 1upkA 341 5.59e+01 a.118.1.15 99758 2a65A 519 5.61e+01 1b3uA 588 5.66e+01 1b3uA a.118.1.2 19135 2gf4A 100 5.67e+01 1k3yA 221 5.73e+01 a.45.1.1,c.47.1.5 77245,77246 1q2zA 120 5.73e+01 a.118.19.1 95656 1lm5A 214 5.75e+01 d.211.2.1 74029 1epuA 591 5.79e+01 1dn1A e.25.1.1 43358 1uouA 474 5.79e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 1l1eA 287 5.94e+01 c.66.1.18 73454 1otsA 465 5.98e+01 f.20.1.1 87415 1om2A 95 6.01e+01 1om2A a.23.4.1 16520 2utgA 70 6.03e+01 1utg a.101.1.1 18814 1y9qA 192 6.08e+01 1cipA 353 6.13e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 2a72A 146 6.22e+01 1k87A 669 6.24e+01 a.176.1.1,c.1.23.2 77286,77287 1ez0A 510 6.27e+01 1eyyA c.82.1.1 35385 1z67A 135 6.31e+01 1us7B 265 6.35e+01 a.205.1.1 99858 1kpsB 171 6.39e+01 a.118.12.1 68787 1mkp 144 6.50e+01 1vhrA c.45.1.1 32654 1z7lA 276 6.57e+01 1wa5B 530 6.62e+01 1nd4A 264 6.72e+01 d.144.1.6 91815 1lshA 1056 6.81e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1yi8A 351 6.94e+01 1gxyA 226 6.94e+01 d.166.1.3 76380 1nd9A 49 6.96e+01 a.6.1.6 85575 1e6yA 569 7.00e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 1s9rA 410 7.17e+01 d.126.1.4 98758 1oaa 259 7.57e+01 1oaa c.2.1.2 29829 1dtoA 221 7.61e+01 1dtoA b.91.1.1 28405 3pviA 157 7.64e+01 3pviA c.52.1.6 33300 1jx6A 342 7.65e+01 c.93.1.1 67406 1wwpA 119 7.67e+01 1l8dA 112 7.69e+01 h.4.12.1 73687 2b5aA 77 7.73e+01 2fk8A 318 7.75e+01 1xnfA 275 7.80e+01 1zymA 258 7.80e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 1ll2A 333 7.83e+01 c.68.1.14 74005 1p2xA 159 7.85e+01 a.40.1.1 104062 2ff4A 388 7.92e+01 1yodA 30 7.95e+01 1knzA 164 7.97e+01 e.34.1.1 68709 2fug1 438 7.98e+01 1gpuA 680 7.99e+01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1b0pA 1231 8.09e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 1s4kA 120 8.23e+01 a.35.1.6 105254 1mojA 182 8.23e+01 a.25.1.1 91367 1tjoA 182 8.23e+01 1pmzA 86 8.26e+01 a.39.1.10 104195 1mw5A 187 8.33e+01 d.259.1.1 91477 1o9rA 162 8.45e+01 a.25.1.1 86706 2bbhA 269 8.56e+01 1ds1A 324 8.58e+01 1drtA b.82.2.2 28127 1zwyA 185 8.60e+01 1qh8A 478 8.76e+01 1qguA c.92.2.3 35633 1yv5A 374 8.87e+01 1f83A 425 8.88e+01 1f82A d.92.1.7 40306 2choA 716 8.90e+01 1mpgA 282 8.92e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1di1A 300 8.97e+01 1di1A a.128.1.4 19446 2b0jA 358 8.97e+01 2gi3A 476 8.98e+01 2a9iA 113 9.00e+01