# List of top-scoring protein chains for t04-100-30-bys 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 1ihrA 76 2.45e-16 1ihrA d.212.1.2 62392 1lr0A 129 3.80e-07 d.212.1.1 74213 1f5mA 180 2.18e-03 1f5mB d.110.2.1 40895 1n8jA 186 9.15e-03 c.47.1.10 85401 1h16A 759 4.76e-02 c.7.1.1 76462 1cm5A 759 6.11e-02 1cm5A c.7.1.1 30671 3cox 507 7.10e-02 1b8sA c.3.1.2 30332 d.16.1.1 37863 1iow 306 1.24e-01 1iow c.30.1.2 31713 d.142.1.1 41481 1tiiD 99 1.48e-01 1tiiD b.40.2.1 24965 2trxA 108 2.02e-01 1thx c.47.1.1 32719 1ospO 257 2.53e-01 1ospO b.76.1.1 27971 1qb5D 99 2.66e-01 b.40.2.1 88357 1qmvA 197 2.74e-01 1qq2A c.47.1.10 33066 1b6rA 355 3.84e-01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1gt1A 159 5.83e-01 b.60.1.1 -4436 5croA 66 5.96e-01 1orc a.35.1.2 17044 1hn2A 159 6.02e-01 b.60.1.1 65890 1rkuA 206 6.31e-01 unknown_sccs -6823 1o1zA 234 8.54e-01 c.1.18.3 86555 1orc 71 8.70e-01 1orc a.35.1.2 17054 1ei5A 520 9.52e-01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1obpA 159 1.29e+00 1obpA b.60.1.1 27092 1kngA 156 1.30e+00 c.47.1.10 72777 1a8l 226 1.33e+00 1a8l c.47.1.2 32777 c.47.1.2 32778 1cc1L 498 1.48e+00 1h2rL e.18.1.1 43301 1mxgA 435 1.49e+00 b.71.1.1 85193 c.1.8.1 85194 1gp1A 198 1.53e+00 1gp1A c.47.1.10 33059 1rh6A 55 1.57e+00 1fecA 490 1.69e+00 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1bh9B 89 1.72e+00 1bh9B a.22.1.3 16485 1hbq 183 1.97e+00 1aqb b.60.1.1 27078 1jfuA 186 2.20e+00 c.47.1.10 62940 1quqB 121 2.31e+00 1quqB b.40.4.3 25305 1st9A 143 2.32e+00 c.47.1.10 -7503 1aqb 183 2.43e+00 1aqb b.60.1.1 27084 1urrA 102 2.44e+00 1j08A 226 2.59e+00 c.47.1.2 83855 c.47.1.2 83856 1erzA 303 2.63e+00 1erzA d.160.1.2 59498 1kt6A 183 3.02e+00 b.60.1.1 84466 1pm6A 72 3.09e+00 a.6.1.7 -386 1fjgJ 105 3.15e+00 1fjfJ d.58.15.1 39330 1thx 115 3.21e+00 1thx c.47.1.1 32732 1mqoA 227 3.41e+00 1noyA 388 3.45e+00 1clqA c.55.3.5 33713 1f0kA 364 3.56e+00 1f0kA c.87.1.2 35465 1pj5A 830 3.67e+00 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1ou8A 111 3.74e+00 unknown_sccs -3799 1uf5A 303 3.81e+00 1n7eA 97 3.91e+00 b.36.1.1 -3745 1b8gA 429 3.99e+00 1b8gA c.67.1.4 34499 3ladA 476 4.22e+00 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1sglA 209 4.40e+00 1m7yA 435 4.46e+00 c.67.1.4 78761 1svpA 161 4.63e+00 1svpA b.47.1.3 26384 1r26A 125 4.74e+00 c.47.1.1 -7389 1nkiA 135 4.92e+00 d.32.1.2 -9544 1pvmA 184 4.98e+00 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1nt0A 286 5.02e+00 b.23.1.1 86143 b.23.1.1 86144 g.3.11.1 86145 1lqpA 135 5.06e+00 d.32.1.2 78151 1qauA 112 6.05e+00 1qauA b.36.1.1 24779 1iuhA 198 6.40e+00 d.61.1.2 83711 1skoB 130 6.67e+00 1crzA 403 6.71e+00 1crzA b.68.4.1 27629 c.51.2.1 33211 1sgvA 316 6.88e+00 b.122.1.1 -5120 unknown_sccs -10148 1oqqA 106 7.09e+00 d.15.4.1 -9191 1jhdA 396 7.10e+00 b.122.1.3 66712 c.26.1.5 66713 1js3A 486 7.13e+00 c.67.1.6 67215 2bc2A 227 7.38e+00 1a7tA d.157.1.1 42031 1nwzA 125 7.51e+00 d.110.3.1 86370 1jj2L 194 7.57e+00 1ffkI d.12.1.2 63097 3pyp 125 7.63e+00 3pyp d.110.3.1 40897 1rl4A 188 7.68e+00 d.167.1.1 -11593 1dkzA 219 7.73e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1p5tA 127 7.82e+00 b.55.1.2 -4368 1n9lA 109 8.66e+00 d.110.3.6 85468 1sh8A 154 8.76e+00 1dnlA 199 8.79e+00 1ci0A b.45.1.1 25753 1onxA 390 8.86e+00 b.92.1.7 87176 c.1.9.13 87177 1ub0A 258 9.02e+00 c.72.1.2 88394 1lngA 87 9.51e+00 d.201.1.1 74045 1q8rA 120 9.66e+00 unknown_sccs -10422 1ubkL 534 9.79e+00 e.18.1.1 88422 1xgsA 295 9.96e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 1ecsA 126 1.06e+01 1ecsA d.32.1.2 59407 1oa8A 133 1.10e+01 unknown_sccs -5142 1q0rA 298 1.11e+01 unknown_sccs -8330 1uc2A 481 1.12e+01 unknown_sccs -11725 1sdjA 310 1.12e+01 d.21.1.2 -9420 d.21.1.2 -9421 1tif 78 1.14e+01 1tif d.15.8.1 37836 1avmA 201 1.16e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 1g5cA 170 1.18e+01 1g5cA c.53.2.1 60264 1udzA 182 1.20e+01 b.51.1.1 -4307 1lkdA 297 1.24e+01 d.32.1.3 78059 d.32.1.3 78060 1gsoA 431 1.24e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1q98A 165 1.26e+01 c.47.1.10 -7499 1iazA 179 1.26e+01 1iazA b.97.1.1 62131 1iba 101 1.27e+01 1iba d.95.1.1 40567 1iloA 77 1.29e+01 c.47.1.1 66205 1avyA 74 1.29e+01 1avyB h.1.17.1 45656 1exqA 154 1.32e+01 1b9dA c.55.3.2 33646 1v2yA 105 1.35e+01 d.15.1.1 -9148 1l6rA 227 1.35e+01 c.108.1.10 77768 1lcyA 325 1.37e+01 b.36.1.4 73834 b.47.1.1 73835 1hdmA 201 1.41e+01 1iakA b.1.1.2 21583 d.19.1.1 38157 1p9yA 121 1.45e+01 unknown_sccs -8996 4fgf 146 1.45e+01 1bfg b.42.1.1 25486 1q48A 134 1.46e+01 unknown_sccs -9776 1g6gA 127 1.47e+01 1g6gA b.26.1.2 23916 1qxhA 167 1.49e+01 c.47.1.10 -7496 1bykA 255 1.52e+01 1bykA c.93.1.1 35706 1bfg 146 1.53e+01 1bfg b.42.1.1 25485 1itg 166 1.54e+01 1b9dA c.55.3.2 33661 1iwlA 182 1.54e+01 b.125.1.1 83757 1gakA 141 1.55e+01 1gakA a.19.1.1 16415 1i2kA 269 1.56e+01 e.17.1.1 -11995 1pru 56 1.60e+01 1pru a.35.1.5 17104 1ocvA 125 1.61e+01 d.17.4.3 86810 1ogoX 574 1.61e+01 unknown_sccs -3237 unknown_sccs -4783 1f89A 291 1.62e+01 d.160.1.1 64988 1e9mA 106 1.62e+01 1ayfA d.15.4.1 59397 1lvwA 295 1.65e+01 c.68.1.6 84723 1g0cA 364 1.68e+01 7a3hA c.1.8.3 60165 1p4kA 295 1.69e+01 d.153.1.5 87772 1h2rL 534 1.70e+01 1h2rL e.18.1.1 43298 1qnaA 200 1.73e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1e25A 282 1.75e+01 1e25A e.3.1.1 42731 1esiA 262 1.76e+01 1skf e.3.1.1 42682 2pii 112 1.86e+01 2pii d.58.5.1 39071 1olrA 224 1.90e+01 b.29.1.11 -3489 1h6gA 256 1.93e+01 1h6gA a.24.9.1 60669 a.24.9.1 60670 1gdoA 240 1.99e+01 1gdoA d.153.1.1 41804 1k38A 254 2.02e+01 e.3.1.1 84303 1oe1A 336 2.05e+01 b.6.1.3 86891 b.6.1.3 86892 1mo9A 523 2.08e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1ox3A 109 2.08e+01 h.1.17.1 -12938 1senA 164 2.13e+01 1p0zA 131 2.14e+01 unknown_sccs -10853 1fp3A 402 2.16e+01 1fp3A a.102.1.3 18842 1q5xA 161 2.16e+01 c.8.7.1 -6068 1c0pA 363 2.19e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1cqyA 99 2.21e+01 1b9zA b.3.1.1 22527 1a79A 171 2.24e+01 1a79A c.52.2.1 33340 d.75.1.1 39739 1s0uA 408 2.24e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1j8bA 112 2.26e+01 d.222.1.1 77101 1gqiA 708 2.26e+01 c.1.8.10 76279 d.92.2.2 76280 1dzkA 157 2.39e+01 1obpA b.60.1.1 27096 1hi9A 274 2.41e+01 1hi9A c.99.1.1 61063 1gxuA 91 2.45e+01 d.58.10.1 76378 1q7fA 286 2.47e+01 unknown_sccs -4599 1nrwA 288 2.50e+01 c.108.1.10 86128 1qyaA 307 2.50e+01 1ojjA 402 2.50e+01 b.29.1.10 -3473 1b5pA 385 2.55e+01 c.67.1.1 -8133 1vhsA 175 2.55e+01 d.108.1.1 -10794 1k6wA 426 2.56e+01 b.92.1.2 68236 c.1.9.5 68237 1o0xA 262 2.56e+01 d.127.1.1 80755 1oi2A 366 2.66e+01 c.32.1.2 87039 d.79.2.2 87040 1no5A 114 2.67e+01 unknown_sccs -9785 1op4A 159 2.69e+01 b.1.6.1 -2794 1azo 232 2.74e+01 1azo c.52.1.14 33329 1j5uA 136 2.77e+01 d.208.1.1 71584 1q18A 332 2.80e+01 1h12A 405 2.81e+01 a.102.1.2 83447 1fa8A 135 2.88e+01 1qipA d.32.1.1 38486 1lssA 140 2.92e+01 c.2.1.9 74246 1k7jA 206 2.93e+01 d.115.1.1 72103 1ri6A 343 2.93e+01 unknown_sccs -4621 1ehiA 377 2.94e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1udxA 416 2.95e+01 b.117.1.1 -3546 c.37.1.8 -7101 unknown_sccs -9009 1i2uA 44 3.08e+01 g.3.7.4 65987 3chy 128 3.09e+01 3chy c.23.1.1 31038 1cxc 124 3.10e+01 1ycc a.3.1.1 15890 1fb6A 105 3.13e+01 1thx c.47.1.1 32739 1jbeA 128 3.14e+01 3chy c.23.1.1 62845 1jfyA 311 3.16e+01 1jr7A 311 3.16e+01 b.82.2.3 63255 1a9xA 1058 3.19e+01 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 1nxiA 132 3.21e+01 d.58.47.1 86381 1pjcA 361 3.21e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 1iybA 208 3.21e+01 d.124.1.1 -10977 1qgdA 662 3.28e+01 c.36.1.6 88367 c.36.1.10 88368 c.48.1.1 88369 1f1uA 323 3.29e+01 d.32.1.3 83200 d.32.1.3 83201 1lm6A 215 3.36e+01 d.167.1.1 84628 1eso 154 3.38e+01 1yaiA b.1.8.1 22293 1hdmB 193 3.38e+01 1hdmB b.1.1.2 21584 d.19.1.1 38158 1psuA 140 3.39e+01 d.38.1.5 88285 1i4wA 353 3.45e+01 c.66.1.24 66028 1e8uA 454 3.48e+01 1e8tA b.68.1.1 59389 1vc4A 254 3.52e+01 c.1.2.4 -5172 1zfjA 491 3.60e+01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1kk1A 410 3.60e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1bw3 125 3.62e+01 1bw4 b.52.1.2 26899 2cxbA 124 3.65e+01 1ycc a.3.1.1 15891 1koiA 184 3.68e+01 b.60.1.1 68725 1jd5A 124 3.75e+01 g.52.1.1 66544 1vlbA 907 3.77e+01 1uzbA 516 3.77e+01 c.82.1.1 -8552 1jtgB 165 3.79e+01 d.98.1.1 67267 1hlrA 907 3.79e+01 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1a0cA 438 3.80e+01 1a0cA c.1.15.3 29529 1alo 907 3.88e+01 1alo 1mkaA 171 3.88e+01 1mkaA d.38.1.2 38543 1n62B 809 3.91e+01 d.41.1.1 80092 d.133.1.1 80093 1vetB 125 3.91e+01 1uslA 170 3.94e+01 c.121.1.1 -6682 1c8uA 285 3.98e+01 1c8uA d.38.1.3 38547 d.38.1.3 38548