# List of top-scoring protein chains for t04-100-30-str2 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 1guqA 348 1.03e-69 1guqA d.13.1.2 37522 d.13.1.2 37523 1kpeA 126 2.16e-24 1kpf d.13.1.1 37508 1kpf 126 6.47e-24 1kpf d.13.1.1 37507 1fit 147 2.76e-22 1fit d.13.1.1 37499 2fhi 147 6.81e-21 1fit d.13.1.1 37505 1st0A 337 1.99e-05 1iuqA 367 6.66e-02 1azsA 220 1.27e-01 1azsA d.58.29.1 39416 1k30A 368 1.53e-01 c.112.1.1 68067 1qmeA 702 2.93e-01 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1azsB 212 3.26e-01 1azsA d.58.29.1 39423 1phk 298 4.32e-01 1cdkA d.144.1.7 41635 1qz9A 416 6.64e-01 1nstA 325 7.64e-01 1nstA c.37.1.5 31951 1uyrA 737 8.26e-01 1g71A 347 8.68e-01 1g71A e.16.1.1 43268 7taa 478 8.92e-01 7taa b.71.1.1 27778 c.1.8.1 28765 1lldA 319 9.45e-01 3ldh c.2.1.5 30177 d.162.1.1 42144 1ptmA 329 1.10e+00 1ia8A 289 1.12e+00 1ia8A d.144.1.7 62112 1duvG 333 1.18e+00 1othA c.78.1.1 35228 c.78.1.1 35229 3csuA 310 1.35e+00 3csuA c.78.1.1 35094 c.78.1.1 35095 1oihA 301 1.36e+00 1px5A 349 1.36e+00 1gal 583 1.43e+00 1gpeA c.3.1.2 30386 d.16.1.1 37950 1bg0 356 1.49e+00 1qh4A a.83.1.1 18476 d.128.1.2 41211 1f2tB 148 1.49e+00 1f2tB 1m15A 357 1.54e+00 a.83.1.1 78368 d.128.1.2 78369 1hyeA 313 1.64e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 2polA 366 1.70e+00 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1hrkA 359 1.72e+00 1hrkA c.92.1.1 61228 1dfeA 37 1.86e+00 1dfeA g.42.1.1 45318 1nz0A 118 2.01e+00 d.14.1.2 86433 1qh4A 380 2.04e+00 1qh4A a.83.1.1 18462 d.128.1.2 41197 1vhmA 195 2.20e+00 1ng4A 390 2.25e+00 c.3.1.2 85666 d.16.1.3 85667 1n1tA 641 2.30e+00 b.29.1.15 79821 b.68.1.1 79822 2cmd 312 2.57e+00 2cmd c.2.1.5 30135 d.162.1.1 42102 1hw5A 210 2.58e+00 2cgpA a.4.5.4 16098 b.82.3.2 28137 1sixA 174 2.59e+00 1a0cA 438 2.75e+00 1a0cA c.1.15.3 29529 1k2xA 177 2.90e+00 1ms9A 648 3.00e+00 b.29.1.15 85088 b.68.1.1 85089 1pinA 163 3.01e+00 1pinA b.72.1.1 27802 d.26.1.1 38431 1ab8A 220 3.13e+00 1azsA d.58.29.1 39414 1ml4A 308 3.24e+00 c.78.1.1 79255 c.78.1.1 79256 1o6zA 303 3.48e+00 c.2.1.5 81107 d.162.1.1 81108 1rewC 135 3.52e+00 1f83A 425 3.80e+00 1f82A d.92.1.7 40306 1v33A 366 3.92e+00 1f5aA 513 3.99e+00 1fa0B a.160.1.1 75835 d.218.1.3 75836 d.58.16.1 39337 1pv9A 348 4.39e+00 1i7pA 274 4.49e+00 b.43.4.2 66048 c.25.1.1 66049 1ndh 272 4.72e+00 1ndh b.43.4.2 25662 c.25.1.1 31552 1k8rB 110 5.12e+00 d.15.1.5 72180 1ef8A 261 5.36e+00 1ef8A c.14.1.3 30921 1cseI 71 5.60e+00 1egpA d.40.1.1 38559 1ul7A 102 5.67e+00 1s4nA 348 5.80e+00 1rypH 205 5.81e+00 d.153.1.4 41876 1nepA 130 6.07e+00 b.1.18.7 80440 1gpeA 587 6.14e+00 1gpeA c.3.1.2 30387 d.16.1.1 37951 1rp4A 389 6.85e+00 1gwmA 153 6.90e+00 b.18.1.19 83348 1oi2A 366 7.21e+00 c.32.1.2 87039 d.79.2.2 87040 1nnwA 252 7.40e+00 d.159.1.5 80674 1mmiA 366 7.58e+00 1pvvA 315 7.72e+00 1oo2A 119 8.18e+00 1ockA 412 8.19e+00 c.117.1.1 86802 1mq7A 154 8.46e+00 b.85.4.1 79404 1hx6A 394 9.02e+00 1cjdA b.121.2.1 58995 b.121.2.1 58996 1k8kB 394 9.14e+00 c.55.1.1 68307 1jyhA 157 9.53e+00 d.60.1.3 71956 1v9fA 325 1.01e+01 1jjiA 311 1.02e+01 c.69.1.2 66766 1k3eA 156 1.03e+01 d.198.1.1 68103 1jvnA 555 1.07e+01 c.1.2.1 67355 c.23.16.1 67356 1uebA 184 1.07e+01 1g60A 260 1.08e+01 c.66.1.11 70151 1opoA 348 1.12e+01 b.121.4.7 87240 1l5aA 436 1.19e+01 c.43.1.2 75923 c.43.1.2 75924 1h8mA 140 1.21e+01 1h8mA d.110.4.1 60782 1sfsA 240 1.26e+01 1byfA 125 1.27e+01 1byfA d.169.1.1 42419 1psdA 409 1.27e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1lqtA 456 1.27e+01 c.3.1.1 74198 c.4.1.1 74199 1j1uA 306 1.30e+01 c.26.1.1 83980 1hcl 298 1.31e+01 1hcl d.144.1.7 41593 1l9xA 315 1.34e+01 c.23.16.1 73762 1gz8A 299 1.34e+01 d.144.1.7 83405 1g0oA 283 1.34e+01 1ybvA c.2.1.2 60181 1gpl 432 1.36e+01 1gpl b.12.1.2 23645 c.69.1.19 34793 1hyhA 309 1.39e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1ow1A 195 1.43e+01 1t9kA 347 1.44e+01 1o0iA 138 1.45e+01 d.38.1.5 86532 1ej1A 190 1.46e+01 1ejhA d.86.1.1 40144 4pfk 319 1.48e+01 3pfk c.89.1.1 35582 1ci3M 249 1.51e+01 1hcz b.2.6.1 22480 b.84.2.2 28266 1ap6A 198 1.52e+01 1avmA a.2.11.1 15746 d.44.1.1 38705 1dc1A 323 1.56e+01 1dc1A c.52.1.11 33321 1s0uA 408 1.57e+01 1jj2B 337 1.58e+01 1ffkB b.43.3.2 63086 1n0nA 199 1.62e+01 a.2.11.1 79750 d.44.1.1 79751 1pl4A 198 1.63e+01 1uspA 139 1.64e+01 1jmsA 381 1.66e+01 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 2cbp 96 1.73e+01 2cbp b.6.1.1 22895 1on3A 523 1.73e+01 c.14.1.4 87107 c.14.1.4 87108 1hn0A 1021 1.74e+01 a.102.3.2 83616 b.18.1.17 83617 b.24.1.1 83618 b.30.5.2 83619 1ofuX 119 1.80e+01 c.37.1.22 86976 1f1zA 273 1.81e+01 1f1zA a.4.5.27 16081 c.52.1.16 33334 1olzA 663 1.82e+01 1b35C 282 1.82e+01 1b35C 1ovlA 271 1.83e+01 a.123.1.1 87455 1dekA 241 1.90e+01 1dekA c.37.1.1 31842 1l8bA 190 1.93e+01 d.86.1.1 73683 1othA 321 1.98e+01 1othA c.78.1.1 35260 c.78.1.1 35261 1skoA 143 2.02e+01 1ukkA 142 2.07e+01 1m55A 197 2.27e+01 d.89.1.3 74469 1j96A 323 2.36e+01 c.1.7.1 71616 1g6uA 48 2.39e+01 1g6uA k.9.1.1 46425 1d5tA 433 2.39e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1g9mG 321 2.40e+01 1gc1G d.172.1.1 42492 1aisA 182 2.44e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1qm4A 396 2.44e+01 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 1k3xA 262 2.47e+01 a.156.1.2 77242 b.113.1.1 77243 g.39.1.8 77244 1kv7A 488 2.48e+01 b.6.1.3 68873 b.6.1.3 68874 b.6.1.3 68875 1prxA 224 2.52e+01 1prxA c.47.1.10 33076 1itvA 195 2.55e+01 b.66.1.1 76791 1f3uB 171 2.58e+01 1f3uB b.65.1.1 27525 1g40A 244 2.59e+01 1e5gA g.18.1.1 44823 g.18.1.1 44824 g.18.1.1 44825 g.18.1.1 44826 1o8rA 94 2.62e+01 d.234.1.1 86677 1vh5A 148 2.63e+01 1l8nA 679 2.65e+01 c.1.8.10 84564 d.92.2.2 84565 1jl0A 334 2.71e+01 1jenA d.156.1.1 63155 1e29A 135 2.71e+01 1e29A a.3.1.1 59161 1qstA 160 2.72e+01 1yghA d.108.1.1 40804 1du3A 130 2.75e+01 1d4vA g.24.1.1 44927 g.24.1.1 44928 g.24.1.1 44929 1ldg 316 2.78e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1avwB 171 2.81e+01 1wba b.42.4.1 25599 1a7j 290 2.82e+01 1a7j c.37.1.6 31952 1t2dA 322 2.86e+01 1iujA 106 2.88e+01 1jyoA 130 2.95e+01 d.198.1.1 67483 2prd 174 2.95e+01 2prd b.40.5.1 25435 1h3fA 432 3.11e+01 c.26.1.1 76631 d.66.1.4 76632 1gheA 177 3.14e+01 d.108.1.1 76222 1f3vA 179 3.14e+01 1f3vA d.58.22.1 39382 1j6wA 175 3.27e+01 1j98A d.185.1.2 62663 1hc7A 477 3.27e+01 1hc7A c.51.1.1 60938 d.68.5.1 60940 d.104.1.1 60939 1dfcA 493 3.31e+01 1dfcA b.42.5.1 25616 b.42.5.1 25617 b.42.5.1 25618 b.42.5.1 25619 1pcxA 810 3.32e+01 1n9dA 199 3.32e+01 a.26.1.1 85464 1f7lA 121 3.35e+01 1f7lA d.150.1.2 59666 1fds 327 3.35e+01 1fds c.2.1.2 29838 1vom 762 3.39e+01 1lvk b.34.3.1 24577 c.37.1.9 32174 1rypL 212 3.40e+01 d.153.1.4 41880 1huuA 90 3.43e+01 1huuA a.55.1.1 17897 1jj2E 177 3.45e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1qd1A 325 3.48e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1jtvA 327 3.51e+01 c.2.1.2 84230 1ee8A 266 3.53e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1a6o 332 3.55e+01 1a6o 1jm1A 204 3.56e+01 b.33.1.1 71745 1dozA 309 3.66e+01 1ak1 c.92.1.1 35592 1bpyA 335 3.67e+01 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1iznB 277 3.72e+01 e.43.1.2 83848 1nh8A 304 3.75e+01 c.94.1.1 80507 d.58.5.3 80508 1korA 400 3.77e+01 c.26.2.1 72824 d.210.1.1 72825 1ckv 141 3.82e+01 1ckv d.137.1.1 41452 1iy8A 267 3.85e+01 c.2.1.2 83774 1gjwA 637 3.85e+01 b.71.1.1 60582 c.1.8.1 60583 1uwsA 489 3.86e+01 1lghA 56 3.89e+01 1lghA f.3.1.1 43733 1c3mA 147 3.91e+01 1jotA b.77.3.1 27983 1r3cA 366 3.93e+01 1k8kD 300 3.94e+01 d.198.2.1 68309 d.198.2.1 68310 1eexA 554 3.96e+01 1dioA c.1.19.3 29650