# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1.31e-61 1guqA d.13.1.2 37522 d.13.1.2 37523 1kpf 126 4.88e-21 1kpf d.13.1.1 37507 1kpeA 126 9.19e-21 1kpf d.13.1.1 37508 1fit 147 8.85e-20 1fit d.13.1.1 37499 2fhi 147 8.78e-19 1fit d.13.1.1 37505 1st0A 337 8.59e-06 1iuqA 367 4.01e-02 1k30A 368 4.56e-02 c.112.1.1 68067 1azsA 220 6.09e-02 1azsA d.58.29.1 39416 1jvnA 555 9.62e-02 c.1.2.1 67355 c.23.16.1 67356 2cmd 312 3.05e-01 2cmd c.2.1.5 30135 d.162.1.1 42102 1g0oA 283 3.05e-01 1ybvA c.2.1.2 60181 1ng4A 390 3.16e-01 c.3.1.2 85666 d.16.1.3 85667 1ptmA 329 3.98e-01 1j9lA 247 7.69e-01 c.106.1.1 62762 1fsgA 233 7.78e-01 1qk3A c.61.1.1 34029 1hyhA 309 8.49e-01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1gal 583 1.25e+00 1gpeA c.3.1.2 30386 d.16.1.1 37950 1qmeA 702 1.36e+00 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1hyeA 313 1.36e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1pwxA 254 1.45e+00 1qh4A 380 1.71e+00 1qh4A a.83.1.1 18462 d.128.1.2 41197 1azsB 212 2.09e+00 1azsA d.58.29.1 39423 1uyrA 737 2.36e+00 1mmiA 366 2.52e+00 1lldA 319 2.55e+00 3ldh c.2.1.5 30177 d.162.1.1 42144 1a9xA 1058 3.00e+00 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1px5A 349 3.56e+00 1gowA 489 3.68e+00 1qvbA c.1.8.4 28981 1b35C 282 3.74e+00 1b35C 1iz0A 302 3.93e+00 b.35.1.2 83821 c.2.1.1 83822 3csuA 310 3.96e+00 3csuA c.78.1.1 35094 c.78.1.1 35095 1hrkA 359 4.31e+00 1hrkA c.92.1.1 61228 1g71A 347 4.43e+00 1g71A e.16.1.1 43268 1ten 90 4.69e+00 1ten b.1.2.1 21990 1gpeA 587 5.20e+00 1gpeA c.3.1.2 30387 d.16.1.1 37951 4pfk 319 5.35e+00 3pfk c.89.1.1 35582 2prd 174 5.82e+00 2prd b.40.5.1 25435 1q2yA 140 5.91e+00 1t2dA 322 6.13e+00 1ul7A 102 6.23e+00 1oihA 301 6.27e+00 1ab8A 220 6.38e+00 1azsA d.58.29.1 39414 2polA 366 6.54e+00 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1fgxA 288 6.55e+00 1fgxA c.68.1.2 34508 1ry6A 360 6.80e+00 1ml4A 308 7.00e+00 c.78.1.1 79255 c.78.1.1 79256 1sqhA 312 7.32e+00 1s4nA 348 7.33e+00 1ni4B 341 7.71e+00 c.36.1.7 85729 c.48.1.2 85730 1pinA 163 7.88e+00 1pinA b.72.1.1 27802 d.26.1.1 38431 1xxaA 78 8.00e+00 1xxaA d.74.2.1 39700 1lw3A 657 8.30e+00 1jyhA 157 8.44e+00 d.60.1.3 71956 1r8nA 185 8.50e+00 1hx0A 496 8.64e+00 b.71.1.1 61346 c.1.8.1 61347 1nmmB 286 8.86e+00 c.68.1.2 80662 1vh5A 148 8.99e+00 1qwnA 1045 9.24e+00 1a0cA 438 9.47e+00 1a0cA c.1.15.3 29529 1ndh 272 9.53e+00 1ndh b.43.4.2 25662 c.25.1.1 31552 1ukkA 142 9.84e+00 1j8mF 297 9.88e+00 1ng1 a.24.13.1 62742 c.37.1.10 62743 1i52A 236 1.06e+01 1i52A c.68.1.13 61767 1v0wA 506 1.07e+01 1lghA 56 1.08e+01 1lghA f.3.1.1 43733 1uwsA 489 1.14e+01 1i7pA 274 1.14e+01 b.43.4.2 66048 c.25.1.1 66049 1duvG 333 1.19e+01 1othA c.78.1.1 35228 c.78.1.1 35229 2ctc 307 1.21e+01 1aye c.56.5.1 33802 1qz9A 416 1.22e+01 1pztA 286 1.26e+01 1f0iA 504 1.27e+01 1f0iA d.136.1.2 59566 d.136.1.2 59567 1jyoA 130 1.27e+01 d.198.1.1 67483 1o5iA 249 1.38e+01 1phk 298 1.39e+01 1cdkA d.144.1.7 41635 1m4lA 307 1.40e+01 c.56.5.1 78604 1aisA 182 1.40e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1umwA 237 1.47e+01 1itvA 195 1.53e+01 b.66.1.1 76791 1smd 496 1.55e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1ldg 316 1.55e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1j8yF 297 1.61e+01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1gwmA 153 1.68e+01 b.18.1.19 83348 1e58A 249 1.69e+01 1qhfA c.60.1.1 59262 1oi2A 366 1.71e+01 c.32.1.2 87039 d.79.2.2 87040 1e3mA 800 1.74e+01 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 1jtvA 327 1.75e+01 c.2.1.2 84230 1pieA 419 1.84e+01 1korA 400 1.86e+01 c.26.2.1 72824 d.210.1.1 72825 1m4rA 151 1.88e+01 a.26.1.3 84799 1htyA 1015 1.89e+01 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 1g61A 228 1.91e+01 1g61A d.126.1.1 41126 1o7nA 449 1.94e+01 b.33.1.2 81162 d.129.3.3 81163 1r89A 437 2.02e+01 1yuiA 54 2.02e+01 1yuiA g.37.1.1 45073 1f42A 306 2.05e+01 1f42A b.1.1.4 59636 b.1.2.1 59637 b.1.2.1 59638 1cseI 71 2.13e+01 1egpA d.40.1.1 38559 1oe4A 247 2.15e+01 c.18.1.3 86895 1hj8A 222 2.18e+01 b.47.1.2 65844 1kngA 156 2.21e+01 c.47.1.10 72777 1a3c 181 2.23e+01 1a3c c.61.1.1 34095 1v33A 366 2.23e+01 1j0hA 588 2.27e+01 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 1gq6A 313 2.28e+01 c.42.1.1 70341 1ockA 412 2.28e+01 c.117.1.1 86802 1k0eA 453 2.32e+01 d.161.1.1 67938 1dfeA 37 2.33e+01 1dfeA g.42.1.1 45318 1fds 327 2.34e+01 1fds c.2.1.2 29838 1ny1A 240 2.36e+01 c.6.2.3 86395 1ci3M 249 2.37e+01 1hcz b.2.6.1 22480 b.84.2.2 28266 2tbs 222 2.48e+01 5ptp b.47.1.2 26009 1odzA 386 2.51e+01 c.1.8.3 86889 1opoA 348 2.54e+01 b.121.4.7 87240 1cmiA 85 2.56e+01 1cmiA d.39.1.1 38551 1nvmB 312 2.56e+01 c.2.1.3 86251 d.81.1.1 86252 1lvmA 229 2.59e+01 b.47.1.3 78243 1nnwA 252 2.62e+01 d.159.1.5 80674 1uebA 184 2.64e+01 1m7jA 484 2.68e+01 b.92.1.6 78732 b.92.1.6 78733 c.1.9.11 78734 1eg9A 449 2.79e+01 1ndoA b.33.1.2 24443 d.129.3.3 41322 1mc0A 368 2.81e+01 d.110.2.1 78937 d.110.2.1 78938 1qhfA 240 2.88e+01 1qhfA c.60.1.1 33960 1mugA 168 3.01e+01 1mugA c.18.1.2 31030 1mh1 186 3.03e+01 1eesA c.37.1.8 32002 1hfoA 113 3.03e+01 d.80.1.3 61006 1lucA 355 3.06e+01 1lucA c.1.16.1 29547 1rk6A 496 3.08e+01 1o5oA 221 3.14e+01 1i9gA 280 3.17e+01 c.66.1.13 62090 1hrnA 337 3.17e+01 1smrA b.50.1.2 26869 1hp5A 512 3.19e+01 1hp4A c.1.8.6 61113 d.92.2.1 61114 1jakA 512 3.38e+01 c.1.8.6 66472 d.92.2.1 66473 1oxwA 373 3.40e+01 c.19.1.3 87539 1fohA 664 3.47e+01 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1ovlA 271 3.48e+01 a.123.1.1 87455 1f2tB 148 3.49e+01 1f2tB 1geeA 261 3.57e+01 1nepA 130 3.59e+01 b.1.18.7 80440 1f0lA 535 3.60e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1h4aX 173 3.66e+01 b.11.1.1 83479 b.11.1.1 83480 1eg7A 557 3.70e+01 1eg7A c.37.1.10 32241 1ew4A 106 3.70e+01 1ew4A d.82.2.1 40023 1j1uA 306 3.82e+01 c.26.1.1 83980 1t82A 155 3.89e+01 1k3eA 156 3.95e+01 d.198.1.1 68103