# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 9.29e-03 1yn9A 169 5.29e-01 1x8vA 455 1.32e+00 1h5zA 455 1.66e+00 a.104.1.1 90622 1u13A 455 1.83e+00 a.104.1.1 107578 1e9xA 455 1.91e+00 1ea1A a.104.1.1 18969 2cwyA 94 2.09e+00 1u2wA 122 2.26e+00 1ovaA 386 2.26e+00 1ovaA e.1.1.1 42619 1uhgA 385 2.37e+00 e.1.1.1 88491 1cuk 203 2.82e+00 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1qlnA 883 3.28e+00 1cezA e.8.1.3 43111 1lniA 96 3.29e+00 d.1.1.2 74046 1rgeA 96 3.30e+00 1rgeA d.1.1.2 36028 1ka2A 499 3.30e+00 d.92.1.5 77305 2c3mA 1231 3.99e+00 2bb6A 414 4.65e+00 1xsm 390 4.69e+00 1xsm a.25.1.2 16804 1vddA 228 4.89e+00 e.49.1.1 108519 1up7A 417 4.96e+00 1rztA 331 5.10e+00 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1h3nA 878 5.28e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1w68A 390 5.42e+00 a.25.1.2 109216 2bcqA 335 5.51e+00 1vmaA 306 5.53e+00 a.24.13.1,c.37.1.10 108887,108888 1up6A 416 5.54e+00 c.2.1.5,d.162.1.2 107976,107977 2c12A 439 5.65e+00 1kekA 1231 5.91e+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 1h0oA 390 5.93e+00 a.25.1.2 70845 1oyzA 280 6.09e+00 a.118.1.16 93775 1mun 225 6.14e+00 1mun a.96.1.2 18744 1gmjA 84 6.80e+00 h.4.8.1 65310 2b1eA 564 6.87e+00 1w5tA 412 7.15e+00 1pylA 97 7.30e+00 d.1.1.2 104391 1jhgA 101 7.51e+00 1jhgA a.4.12.1 19009 1kkhA 317 7.90e+00 d.14.1.5,d.58.26.3 72645,72646 1gl2C 65 7.96e+00 h.1.15.1 65280 1r1uA 106 8.30e+00 a.4.5.5 104771 1ks8A 433 8.48e+00 a.102.1.2 77519 1lrv 244 8.62e+00 1lrv a.118.1.5 19146 1tffA 234 8.80e+00 d.3.1.11 106854 1rkpA 326 8.87e+00 a.211.1.2 97620 1vrmA 325 8.88e+00 1s9pA 227 8.92e+00 a.123.1.1 105384 1zejA 293 8.98e+00 1fpzA 212 8.98e+00 1fpzA c.45.1.1 59976 2cohA 202 9.09e+00 1g8pA 350 9.50e+00 1g8pA c.37.1.20 60376 6gsvA 217 9.52e+00 1b8xA a.45.1.1,c.47.1.5 17633,32925 1i4mA 108 9.57e+00 d.6.1.1 66025 1ho8A 480 9.67e+00 1ho8A a.118.1.9 61107 1dowA 205 9.94e+00 1dovA a.24.9.1 16626 1mgrA 99 1.05e+01 d.1.1.2 79106 1y7yA 74 1.08e+01 1w27A 714 1.15e+01 1wu7A 434 1.21e+01 1lfkA 398 1.22e+01 a.104.1.1 77926 1jk0A 419 1.23e+01 a.25.1.2 63142 1hm6A 346 1.23e+01 1avc a.65.1.1 18147 1x3kA 152 1.24e+01 1hg4A 279 1.37e+01 1lbd a.123.1.1 19333 1tw9A 206 1.43e+01 a.45.1.1,c.47.1.5 107381,107382 1fm2A 169 1.44e+01 1fm2A d.153.1.2 59877 1pjqA 457 1.45e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1or0A 160 1.45e+01 d.153.1.2 93445 1gvhA 396 1.50e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 2ccmA 191 1.55e+01 1mp1A 111 1.65e+01 a.188.1.1 91382 2c9wA 169 1.68e+01 1yucA 255 1.69e+01 1wj7A 104 1.75e+01 1r31A 428 1.84e+01 d.58.20.1,d.179.1.1 96897,96898 2fupA 168 1.90e+01 1kl9A 182 1.91e+01 b.40.4.5 72681 1z3xA 238 1.93e+01 2ah6A 208 2.02e+01 1rm6C 161 2.03e+01 1uzeA 589 2.04e+01 d.92.1.5 108174 1wgzA 510 2.08e+01 1o86A 589 2.12e+01 d.92.1.5 81177 1f7cA 231 2.27e+01 1f7cA a.116.1.1 19107 1tn6A 382 2.31e+01 2a1iA 146 2.34e+01 1xahA 354 2.36e+01 2ar0A 541 2.36e+01 1z67A 135 2.38e+01 1mswD 883 2.38e+01 e.8.1.3 79427 2f6hX 419 2.40e+01 1cem 363 2.42e+01 1cem a.102.1.2 18826 1pk5A 248 2.48e+01 a.123.1.1 88139 1k3yA 221 2.49e+01 a.45.1.1,c.47.1.5 77245,77246 1q2zA 120 2.56e+01 a.118.19.1 95656 1ab4 477 2.56e+01 1ab4 e.11.1.1 43251 1deeG 54 2.56e+01 1fc2C a.8.1.1 16343 1cipA 353 2.58e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 2c1xA 456 2.60e+01 1go3F 107 2.60e+01 a.60.8.2 65407 1colA 204 2.60e+01 1a87 f.1.1.1 43378 1vqrA 297 2.62e+01 2bjcA 62 2.62e+01 1wa8A 99 2.67e+01 1s8nA 205 2.68e+01 c.23.1.1 105374 1pmzA 86 2.72e+01 a.39.1.10 104195 1sqgA 429 2.72e+01 a.79.1.3,c.66.1.38 105912,105913 1kwfA 363 2.72e+01 a.102.1.2 73078 1k87A 669 2.79e+01 a.176.1.1,c.1.23.2 77286,77287 2bcfA 276 2.80e+01 1hcrA 52 2.84e+01 1hcrA a.4.1.2 16020 2a9iA 113 2.85e+01 1hq1A 105 2.86e+01 1dulA a.36.1.1 17120 1a5t 334 2.88e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1keaA 221 2.88e+01 a.96.1.2 68491 1p5sA 203 2.88e+01 a.40.1.1 94147 1kb9A 431 2.91e+01 d.185.1.1,d.185.1.1 77311,77312 1tx4A 198 2.92e+01 1tx4A a.116.1.1 19098 1yb3A 175 2.96e+01 1ezvA 430 2.99e+01 1be3A d.185.1.1,d.185.1.1 59541,59542 1kpsB 171 3.00e+01 a.118.12.1 68787 2h1nA 567 3.01e+01 1ujwB 135 3.03e+01 h.4.9.1 99472 1bouA 139 3.07e+01 1bouA a.88.1.1 18521 1i52A 236 3.07e+01 1i52A c.68.1.13 61767 1pi1A 185 3.13e+01 a.29.7.1 94699 1khdA 345 3.18e+01 a.46.2.1,c.27.1.1 77400,77401 1v4xB 146 3.23e+01 a.1.1.2 108364 1rzsA 61 3.36e+01 a.35.1.2 105139 1no1A 126 3.42e+01 a.179.1.1 85913 2c5kT 95 3.42e+01 1jkoC 52 3.45e+01 a.4.1.2 66809 2h58A 330 3.46e+01 1w99A 558 3.47e+01 1wzaA 488 3.50e+01 1ez0A 510 3.51e+01 1eyyA c.82.1.1 35385 1b3uA 588 3.56e+01 1b3uA a.118.1.2 19135 1l1eA 287 3.56e+01 c.66.1.18 73454 1l9lA 74 3.57e+01 a.64.1.1 77827 1nznA 126 3.57e+01 a.118.8.1 92382 1cei 94 3.57e+01 1cei a.28.2.1 16939 2cfuA 658 3.58e+01 1a0p 290 3.59e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 1gxyA 226 3.63e+01 d.166.1.3 76380 1elwA 118 3.71e+01 1a17 a.118.8.1 19207 1y8aA 332 3.75e+01 2fk8A 318 3.75e+01 1b0pA 1231 3.76e+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 1bqbA 301 3.77e+01 1hyt d.92.1.2 58962 1p7tA 731 3.82e+01 c.1.13.1 94319 1i1rB 181 3.83e+01 1i1rB a.26.1.1 61548 1b68A 191 3.86e+01 1nfn a.24.1.1 59076 1zz2A 360 3.86e+01 1d8dA 377 3.87e+01 1ft1A a.118.6.1 19185 1fjgD 209 4.01e+01 1c05A d.66.1.2 39553 1i1iP 681 4.07e+01 1i1iP d.92.1.5 40297 1bed 181 4.11e+01 1fvkA c.47.1.13 90330 1ew4A 106 4.12e+01 1ew4A d.82.2.1 40023 1tllA 688 4.15e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1ee4A 423 4.23e+01 1ee4A a.118.1.1 19128 1o9rA 162 4.25e+01 a.25.1.1 86706 1dvoA 152 4.28e+01 1dvoA a.136.1.1 19623 2fuqA 747 4.31e+01 2b8eA 273 4.33e+01 1j7nA 776 4.39e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1vgmA 378 4.40e+01 1yi8A 351 4.41e+01 1odoA 408 4.46e+01 a.104.1.1 92783 1quuA 250 4.47e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1d8cA 723 4.47e+01 1d8cA c.1.13.1 29325 1u00A 227 4.58e+01 1utg 70 4.68e+01 1utg a.101.1.1 18813 1ornA 226 4.71e+01 a.96.1.1 87342 1lj9A 144 4.72e+01 a.4.5.28 78035 1mw5A 187 4.75e+01 d.259.1.1 91477 2f6sA 201 4.86e+01 1xqoA 256 4.94e+01 2bl8A 103 4.99e+01 1k6kA 143 5.03e+01 a.174.1.1 77274 1sly 618 5.08e+01 1qsaA a.118.5.1,d.2.1.6 19184,36990 1ujcA 161 5.12e+01 1xszA 356 5.13e+01 1skvA 69 5.19e+01 a.30.5.1 105690 2cujA 108 5.19e+01 1tadA 324 5.20e+01 1cipA a.66.1.1,c.37.1.8 18194,32077 1avoB 140 5.27e+01 1avoB 2utgA 70 5.27e+01 1utg a.101.1.1 18814 1f2eA 201 5.28e+01 1a0fA a.45.1.1,c.47.1.5 17745,33039 1om2A 95 5.30e+01 1om2A a.23.4.1 16520 3pviA 157 5.30e+01 3pviA c.52.1.6 33300 1f4lA 551 5.34e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1pfvA 551 5.34e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1ld8A 382 5.38e+01 a.118.6.1 73838 1cjgA 62 5.38e+01 1pru a.35.1.5 17112 1ywrA 360 5.41e+01 1xi1A 575 5.46e+01 1nz6A 101 5.46e+01 a.2.3.1 86441 1x6iA 91 5.49e+01 1wwzA 159 5.51e+01 1nd9A 49 5.51e+01 a.6.1.6 85575 1g4yB 101 5.51e+01 1g4yB f.15.1.1 60251 1s6lA 212 5.54e+01 1vkuA 100 5.54e+01 a.28.1.1 108690 1ztuA 341 5.56e+01 1af7 274 5.63e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1qh8A 478 5.75e+01 1qguA c.92.2.3 35633 5croA 66 5.78e+01 1orc a.35.1.2 17044 1xsnA 335 5.80e+01 1xcbA 211 5.88e+01 a.4.5.38,c.2.1.12 109552,109553 2bbhA 269 5.92e+01 1ile 821 5.94e+01 1ile a.27.1.1,b.51.1.1,c.26.1.1 16924,26889,31591 2c5uA 375 5.97e+01 1gtkA 313 6.00e+01 c.94.1.1,d.50.2.1 76346,76347 1etxA 98 6.03e+01 1fipA a.4.1.12 18978 1nyhA 166 6.05e+01 h.1.23.1 86403 1gs9A 165 6.05e+01 a.24.1.1 83313 1zhxA 438 6.12e+01 1uptB 60 6.13e+01 a.193.1.1 99768 1yarA 233 6.16e+01 1bkdS 439 6.21e+01 1bkdS a.117.1.1 19111 1rw2A 152 6.24e+01 a.118.19.1 97961 1otsA 465 6.27e+01 f.20.1.1 87415 1pszA 303 6.35e+01 1toaA c.92.2.2 35600 1fpoA 171 6.40e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1wkqA 164 6.42e+01 c.97.1.2 109393 1sfkA 76 6.42e+01 a.190.1.1 105488 2ct8A 497 6.45e+01 1pda 315 6.46e+01 1pda c.94.1.1,d.50.2.1 35751,38794 2b5aA 77 6.50e+01 1uouA 474 6.57e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 1flcB 175 6.58e+01 1flcB h.3.1.1 45716 2gi3A 476 6.60e+01 1ybhA 590 6.60e+01 1zymA 258 6.61e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 1svsA 353 6.64e+01 c.37.1.8 106051 1ds1A 324 6.66e+01 1drtA b.82.2.2 28127 1zzlA 351 6.69e+01 1t3qA 168 6.69e+01 a.56.1.1,d.15.4.2 106367,106368 1bc5A 269 6.77e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1n1bA 549 6.80e+01 a.102.4.1,a.128.1.3 79799,79800 2ap3A 199 6.85e+01 1s4kA 120 6.86e+01 a.35.1.6 105254 2cp8A 54 6.90e+01 1i6xA 209 6.96e+01 a.4.5.4,b.82.3.2 83673,83674 1evyA 366 6.97e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1epuA 591 6.99e+01 1dn1A e.25.1.1 43358 1p2xA 159 7.00e+01 a.40.1.1 104062 1s9rA 410 7.03e+01 d.126.1.4 98758 1nd4A 264 7.06e+01 d.144.1.6 91815 1di1A 300 7.07e+01 1di1A a.128.1.4 19446 1sur 215 7.14e+01 1sur c.26.2.2 31620 1qmyA 167 7.16e+01 1qmyA d.3.1.2 37094 1l5wA 796 7.18e+01 c.87.1.4 73605 1vdlA 80 7.18e+01 a.5.2.1 108528 1tbfA 347 7.26e+01 a.211.1.2 106743 1dtoA 221 7.30e+01 1dtoA b.91.1.1 28405 2cxnA 557 7.32e+01 1jk0B 345 7.34e+01 a.25.1.2 63143 2cbiA 594 7.34e+01 1u0fA 564 7.35e+01 1gpuA 680 7.38e+01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1or7C 90 7.44e+01 a.180.1.1 87336 2gf4A 100 7.48e+01 1xkyA 301 7.48e+01 1hbzA 498 7.48e+01 1cf9A e.5.1.1 60937 1xqiA 195 7.49e+01 1s28A 132 7.51e+01 d.198.1.1 105223 1lm5A 214 7.54e+01 d.211.2.1 74029 1f83A 425 7.55e+01 1f82A d.92.1.7 40306 1gakA 141 7.66e+01 1gakA a.19.1.1 16415 1wljA 189 7.69e+01 1nrlA 316 7.73e+01 a.123.1.1 92091 1unkA 87 7.73e+01 1cei a.28.2.1 16935 1orjA 130 7.75e+01 a.24.19.1 93456 1vkeA 133 7.80e+01 a.152.1.2 108650 1lshA 1056 7.93e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1yv5A 374 7.96e+01 2gh0A 213 7.96e+01 1yodA 30 8.02e+01 1wwpA 119 8.02e+01 2f4mA 295 8.04e+01 2fbnA 198 8.04e+01 1iatA 557 8.04e+01 1dqrA c.80.1.2 62123 1guzA 310 8.05e+01 c.2.1.5,d.162.1.1 65586,65587 1jmxA 494 8.11e+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 1nal1 297 8.14e+01 1nal3 1io2A 213 8.25e+01 1ekeA c.55.3.1 62612 1ux8A 132 8.26e+01 1trkA 680 8.31e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31803,31804,33090 1owcA 427 8.38e+01 a.103.1.1 104039 2b4jC 98 8.40e+01 1mroA 548 8.40e+01 1mroA a.89.1.1,d.58.31.2 18525,39443 1g24A 211 8.44e+01 1g24A d.166.1.1 42270 2pviA 157 8.44e+01 3pviA c.52.1.6 33302 1hbnA 549 8.48e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 1gweA 503 8.53e+01 e.5.1.1 70667 1m0uA 249 8.58e+01 a.45.1.1,c.47.1.5 78359,78360 2comA 124 8.59e+01 1s6yA 450 8.60e+01 c.2.1.5,d.162.1.2 105314,105315 1tag 324 8.69e+01 1cipA a.66.1.1,c.37.1.8 18197,32080 1jchA 551 8.82e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1rzrA 332 8.90e+01 1knzA 164 8.99e+01 e.34.1.1 68709