# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1szoA 257 2.07e-01 1o8uA 257 2.08e-01 c.14.1.3 81194 1umgA 362 2.63e-01 1p32A 209 3.00e-01 1p32A d.25.1.1 38379 1ezwA 349 5.49e-01 1ezwA c.1.16.3 29558 1pgx 83 6.03e-01 2igd d.15.7.1 37823 1kczA 413 6.96e-01 c.1.11.2 68451 d.54.1.1 68452 1o5zA 442 7.29e-01 c.59.1.2 -7939 c.72.2.2 -8418 1ho1A 242 9.15e-01 1ho1A c.1.24.1 61097 1sx5A 244 1.04e+00 c.52.1.2 -7551 1eonA 245 1.06e+00 1rvaA c.52.1.2 33238 1kkoA 413 1.16e+00 c.1.11.2 68675 d.54.1.1 68676 1vkdA 338 1.19e+00 1igd 61 1.19e+00 2igd d.15.7.1 37822 2igd 61 1.19e+00 2igd d.15.7.1 37821 2rveA 244 1.23e+00 1rvaA c.52.1.2 33283 1rvaA 244 1.23e+00 1rvaA c.52.1.2 33240 1az3A 244 1.24e+00 1rvaA c.52.1.2 33276 1g291 372 1.29e+00 1g291 1a3gA 308 1.29e+00 1daaA e.17.1.1 43286 1tk4A 121 1.30e+00 1jkmA 358 1.31e+00 1jkmA c.69.1.2 34633 1sqzA 121 1.35e+00 a.133.1.2 -1971 1tj9A 121 1.40e+00 1fv0A 121 1.53e+00 a.133.1.2 70147 1mvfD 82 1.54e+00 b.129.1.1 85143 1p32C 209 1.55e+00 1p32A d.25.1.1 38381 1tljA 213 1.59e+00 1hx0A 496 1.68e+00 b.71.1.1 61346 c.1.8.1 61347 1g94A 448 1.69e+00 b.71.1.1 65169 c.1.8.1 65170 1su4A 994 1.83e+00 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1kpmA 121 1.87e+00 a.133.1.2 72844 1f1uA 323 1.90e+00 d.32.1.3 83200 d.32.1.3 83201 1pkoA 139 2.05e+00 b.1.1.1 88147 1f1xA 322 2.44e+00 d.32.1.3 83208 d.32.1.3 83209 1cxvA 164 2.52e+00 1ck7A d.92.1.11 40404 1i1kA 309 2.60e+00 1daaA e.17.1.1 61533 1eulA 994 2.64e+00 1eulA 1m5wA 243 2.68e+00 c.1.24.1 84836 1mumA 295 2.74e+00 c.1.12.7 85108 1p9oA 313 2.80e+00 unknown_sccs -8423 1vhh 162 2.80e+00 1vhh d.65.1.2 39550 1abrA 251 2.92e+00 1mrj d.165.1.1 42196 1vizA 240 3.00e+00 c.1.4.1 -5212 1o50A 157 3.01e+00 d.37.1.1 -9604 d.37.1.1 -9605 830cA 168 3.03e+00 1ck7A d.92.1.11 40400 1jae 471 3.14e+00 1smd b.71.1.1 27773 c.1.8.1 28760 1aqm 453 3.17e+00 1smd b.71.1.1 27717 c.1.8.1 28704 3bifA 468 3.20e+00 1bif c.37.1.7 31962 c.60.1.4 34008 2bifA 469 3.27e+00 1bif c.37.1.7 31963 c.60.1.4 34009 1vh5A 148 3.51e+00 d.38.1.5 -9677 1ck7A 631 3.51e+00 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 1psuA 140 3.70e+00 d.38.1.5 88285 1qatB 622 3.96e+00 1djxB a.39.1.7 17355 b.7.1.1 23172 c.1.18.1 29600 1vk3A 615 4.33e+00 d.79.4.1 -10416 d.79.4.1 -10417 d.139.1.1 -11154 d.139.1.1 -11155 1cnv 299 4.70e+00 1cnv c.1.8.5 28989 1lshA 1056 4.71e+00 a.118.4.1 74242 f.7.1.1 74243 f.7.1.1 74244 1iyeA 309 4.83e+00 e.17.1.1 83786 1jkmB 361 5.20e+00 1jkmA c.69.1.2 34634 1oi7A 288 5.24e+00 c.2.1.8 87049 c.23.4.1 87050 1lvwA 295 5.79e+00 c.68.1.6 84723 1s2wA 295 5.80e+00 c.1.12.7 -5577 1dp0A 1023 5.92e+00 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.5.1 24346 c.1.8.3 28845 1bif 469 6.19e+00 1bif c.37.1.7 31961 c.60.1.4 34003 1m2rA 327 6.19e+00 d.144.1.7 84760 1b25A 619 6.35e+00 1b25A a.110.1.1 19044 d.152.1.1 41796 1lpuA 332 6.71e+00 d.144.1.7 74177 1mhxA 65 6.96e+00 d.15.7.1 79134 1jysA 242 7.15e+00 c.56.2.1 77216 1iwgA 1053 7.39e+00 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1h8uA 117 7.84e+00 1h8uA d.169.1.1 60793 1hnuA 280 7.93e+00 1hnoA c.14.1.3 61096 2fcr 173 8.05e+00 1rcf c.23.5.1 31151 1no5A 114 8.27e+00 unknown_sccs -9785 1qwgA 251 8.28e+00 unknown_sccs -5678 1smd 496 8.36e+00 1smd b.71.1.1 27768 c.1.8.1 28755 2reb 352 8.36e+00 2reb c.37.1.11 32282 d.48.1.1 38767 1v7rA 186 8.41e+00 c.51.4.1 -7546 1om1A 332 8.58e+00 d.144.1.7 -11318 1lp4A 332 8.58e+00 d.144.1.7 74170 1mg7A 417 8.73e+00 d.14.1.6 84954 d.58.26.6 84955 1pymA 295 9.31e+00 1pymA c.1.12.7 29308 1pbuA 162 9.65e+00 d.58.46.1 88030 1hh1A 143 9.82e+00 1gefA c.52.1.18 61036 1n91A 108 9.87e+00 d.206.1.1 80326 1bglA 1023 9.88e+00 1bglA b.1.4.1 22097 b.1.4.1 22098 b.18.1.5 23734 b.30.5.1 24358 c.1.8.3 28857 1l2tA 235 1.01e+01 c.37.1.12 73514 1cjaA 342 1.01e+01 1cjaA d.144.1.3 41708 1lwjA 441 1.02e+01 b.71.1.1 74303 c.1.8.1 74304 1pvmA 184 1.02e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1n6aA 259 1.03e+01 b.76.2.1 80121 b.85.7.1 80122 1k0eA 453 1.12e+01 d.161.1.1 67938 1qrqA 325 1.13e+01 1qrqA c.1.7.1 28667 1exbA 332 1.14e+01 1qrqA c.1.7.1 28666 1ujxA 119 1.19e+01 b.26.1.2 -3325 1i88A 389 1.27e+01 c.95.1.2 66070 c.95.1.2 66071 1f07A 321 1.29e+01 1ezwA c.1.16.3 59560 1mnmA 100 1.29e+01 1mnmA d.88.1.1 40232 1bi5A 389 1.30e+01 1bi5A c.95.1.2 35985 c.95.1.2 35986 1edt 271 1.34e+01 2ebn c.1.8.5 28993 1t82A 155 1.35e+01 1a78A 134 1.36e+01 1c1lA b.29.1.3 24212 1vgwA 231 1.40e+01 c.68.1.13 -8237 1thm 279 1.40e+01 1gci c.41.1.1 32544 1akr 147 1.41e+01 1rcf c.23.5.1 31152 1dekA 241 1.43e+01 1dekA c.37.1.1 31842 1djxB 624 1.46e+01 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1b5tA 275 1.47e+01 1b5tA c.1.23.1 29676 1k3fA 253 1.49e+01 c.56.2.1 68105 1mx3A 347 1.55e+01 c.2.1.4 79638 c.23.12.1 79639 1v93A 296 1.55e+01 c.1.23.1 -5654 1erzA 303 1.57e+01 1erzA d.160.1.2 59498 1nq6A 302 1.61e+01 c.1.8.3 -5332 1qasA 622 1.61e+01 1djxB a.39.1.7 17340 b.7.1.1 23157 c.1.18.1 29585 1i86A 389 1.61e+01 c.95.1.2 66068 c.95.1.2 66069 1hnoA 280 1.63e+01 1hnoA c.14.1.3 61095 1vdwA 254 1.64e+01 e.7.1.1 -11868 1mxgA 435 1.66e+01 b.71.1.1 85193 c.1.8.1 85194 1g7sA 594 1.68e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1k0gA 453 1.70e+01 d.161.1.1 67940 1uf5A 303 1.71e+01 1jz8A 1023 1.76e+01 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.5.1 67833 c.1.8.3 67834 1bzyA 217 1.83e+01 1qk3A c.61.1.1 34071 2ifeA 100 1.84e+01 1tig d.68.1.1 39567 1juk 248 1.85e+01 1a53 c.1.2.4 28567 1igs 248 1.85e+01 1a53 c.1.2.4 28565 1djxA 624 1.86e+01 1djxB a.39.1.7 17342 b.7.1.1 23159 c.1.18.1 29587 1t6aA 126 1.88e+01 1d09B 153 1.89e+01 8atcB d.58.2.1 39015 g.41.7.1 45267 1o7jA 327 1.89e+01 c.88.1.1 81140 1dj8A 89 1.90e+01 1bg8A a.57.1.1 17919 2nsyA 271 1.92e+01 2nsyA c.26.2.1 31612 1nsyA 271 1.92e+01 2nsyA c.26.2.1 31614 1kqpA 271 1.92e+01 c.26.2.1 72883 1ih8A 271 1.93e+01 2nsyA c.26.2.1 62377 7at1B 154 1.94e+01 8atcB d.58.2.1 39053 g.41.7.1 45305 1egzA 291 1.95e+01 7a3hA c.1.8.3 28828 1q52A 314 1.97e+01 c.14.1.3 -6246 1b77A 228 2.02e+01 1b77A d.131.1.2 41362 d.131.1.2 41363 1l7vC 249 2.02e+01 c.37.1.12 73674 1gpmA 525 2.07e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1rj9A 304 2.13e+01 a.24.13.1 -631 c.37.1.10 -7129 1josA 128 2.13e+01 d.52.7.1 84191 1em8A 147 2.15e+01 unknown_sccs -7272 1f2tB 148 2.25e+01 1f2tB 2prd 174 2.26e+01 2prd b.40.5.1 25435 1uyrA 737 2.28e+01 c.14.1.4 -6258 c.14.1.4 -6259 1e3sA 261 2.28e+01 1e6wA c.2.1.2 59201 1uz5A 402 2.34e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1m2tA 254 2.38e+01 d.165.1.1 84761 1o2dA 371 2.40e+01 e.22.1.2 86591 1l9xA 315 2.41e+01 c.23.16.1 73762 1gvmA 136 2.42e+01 b.109.1.1 70612 1jsrA 327 2.45e+01 c.88.1.1 67237 1kolA 398 2.48e+01 b.35.1.2 77474 c.2.1.1 77475 1pzxA 289 2.55e+01 c.119.1.1 -8623 1ow4A 129 2.62e+01 a.39.2.1 -876 1oxsC 353 2.63e+01 b.40.6.3 87519 c.37.1.12 87520 1c3oG 1073 2.64e+01 a.92.1.1 18565 c.24.1.1 31494 c.30.1.1 31687 c.30.1.1 31688 d.142.1.2 41532 d.142.1.2 41533 1bli 483 2.67e+01 1bli b.71.1.1 27715 c.1.8.1 28702 1rxyA 253 2.69e+01 c.56.2.1 -7834 1d5wC 126 2.70e+01 1dbwA c.23.1.1 31101 1oxxK 353 2.70e+01 b.40.6.3 -3969 c.37.1.12 -7187 1np6A 174 2.76e+01 c.37.1.10 85954 1nls 237 2.78e+01 1nls b.29.1.1 23928 1j9eA 147 2.79e+01 c.23.5.1 62756 1bzsA 165 2.79e+01 1hfc d.92.1.11 40348 1rgxA 114 2.80e+01 1h3iA 293 2.83e+01 b.76.2.1 76635 b.85.7.1 76636 1xxaA 78 2.84e+01 1xxaA d.74.2.1 39700 1g55A 343 2.85e+01 1g55A c.66.1.26 34247 1mt6A 280 2.85e+01 b.76.2.1 79446 b.85.7.1 79447 1gxrA 337 2.88e+01 b.69.4.1 70722 1lx7A 253 2.90e+01 c.56.2.1 74329 1n3lA 372 2.91e+01 c.26.1.1 79966 1o5hA 214 2.92e+01 unknown_sccs -1078 1hfs 160 2.92e+01 1hfc d.92.1.11 40370 1h7zA 194 2.97e+01 1qhvA b.21.1.1 60733 1a79A 171 2.98e+01 1a79A c.52.2.1 33340 d.75.1.1 39739 1jslA 327 2.98e+01 c.88.1.1 67233 1i76A 163 2.99e+01 1hfc d.92.1.11 61877 1bag 425 3.01e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1f4pA 147 3.05e+01 5nul c.23.5.1 59651 1o75A 415 3.11e+01 b.1.20.1 81117 b.1.20.1 81118 b.120.1.1 81119 1ax0 239 3.19e+01 1led b.29.1.1 24042 1jxpA 186 3.21e+01 1jxpA b.47.1.3 26402 1frb 315 3.22e+01 1frb c.1.7.1 28665 1oyeA 1049 3.27e+01 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1eokA 290 3.35e+01 1eokA c.1.8.5 28991 1scs 237 3.37e+01 1nls b.29.1.1 23930 1c3oE 1073 3.37e+01 a.92.1.1 18564 c.24.1.1 31493 c.30.1.1 31685 c.30.1.1 31686 d.142.1.2 41530 d.142.1.2 41531 1e43A 483 3.39e+01 1bli b.71.1.1 59217 c.1.8.1 59218 1ktbA 405 3.42e+01 b.71.1.1 72960 c.1.8.1 72961 1bg8A 89 3.45e+01 1bg8A a.57.1.1 17925 1gjuA 637 3.48e+01 b.71.1.1 60580 c.1.8.1 60581 1h3fA 432 3.51e+01 c.26.1.1 76631 d.66.1.4 76632 1qvzA 237 3.55e+01 c.23.16.2 -6537 1g8pA 350 3.56e+01 1g8pA c.37.1.20 60376 1rw7A 243 3.56e+01 c.23.16.2 -6530 1cye 129 3.64e+01 3chy c.23.1.1 31077 1g5vA 88 3.64e+01 1g5vA b.34.9.1 60292 1b6sA 355 3.64e+01 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1guaB 81 3.65e+01 1c1yB d.15.1.5 37619 1byrA 155 3.66e+01 1byrA d.136.1.1 41450 1dysA 348 3.66e+01 1bvwA c.6.1.1 30669 1s6bB 119 3.67e+01 a.133.1.2 -1954 1esmA 316 3.75e+01 1esmA c.37.1.6 31953 2ucz 165 3.75e+01 1u9aA d.20.1.1 38330 1sayA 361 3.77e+01 1sayA c.2.1.4 30102 c.23.12.2 31362 1pjcA 361 3.80e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 1bu5A 147 3.89e+01 5nul c.23.5.1 31155 1q74A 303 3.90e+01 unknown_sccs -8121 1c3oC 1073 3.90e+01 a.92.1.1 18563 c.24.1.1 31492 c.30.1.1 31683 c.30.1.1 31684 d.142.1.2 41528 d.142.1.2 41529 1rfa 79 3.92e+01 1c1yB d.15.1.5 37620 1s3sG 127 3.95e+01 d.15.1.2 -9152 1fneA 192 3.97e+01 1iakA b.1.1.2 59896 d.19.1.1 59897 1fngA 192 3.97e+01 1iakA b.1.1.2 59904 d.19.1.1 59905 1s71A 316 3.97e+01 1sgvA 316 3.97e+01 b.122.1.1 -5120 unknown_sccs -10148 2fx2 147 3.99e+01 1rcf c.23.5.1 31158