# List of top-scoring protein chains for t04-100-30-alpha 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 1hn6A 110 2.78e-22 g.61.1.1 76721 1g5aA 628 7.74e-02 b.71.1.1 65152 c.1.8.1 65153 1tocR 120 1.51e-01 1tocR g.8.1.2 44558 g.8.1.2 44559 2eng 210 1.99e-01 2eng b.52.1.1 26895 1qgxA 357 2.97e-01 1qgxA e.7.1.1 42973 1seiA 130 4.75e-01 1seiA d.140.1.1 41463 1nu5A 370 5.99e-01 c.1.11.2 -5565 d.54.1.1 -9823 1ka1A 357 6.01e-01 e.7.1.1 68369 1oj6A 151 1.12e+00 a.1.1.2 -85 2pspA 106 1.17e+00 2pspA g.16.1.1 44730 g.16.1.1 44731 1tul 108 1.28e+00 1tul b.85.5.1 28373 1jb7B 260 1.30e+00 1otcB b.40.4.3 62839 1k12A 158 1.64e+00 b.18.1.15 71978 1bkjA 240 1.65e+00 1bkjA d.90.1.1 40243 1q1fA 151 1.93e+00 1fxoA 293 2.12e+00 1g0rA c.68.1.6 34524 1a4sA 503 2.31e+00 1bpwA c.82.1.1 35361 1jb9A 316 2.37e+00 1fnc b.43.4.2 62840 c.25.1.1 62841 5ptp 223 2.37e+00 5ptp b.47.1.2 25831 2knt 58 2.44e+00 1bpi g.8.1.1 44537 1kthA 58 2.51e+00 g.8.1.1 68863 4ptp 223 2.67e+00 1m6yA 301 3.20e+00 a.60.13.1 78716 c.66.1.23 78717 1mhnA 59 3.53e+00 b.34.9.1 84964 1sn4A 64 4.09e+00 1aho g.3.7.1 44136 1mb4A 370 4.13e+00 c.2.1.3 78908 d.81.1.1 78909 1kb9A 431 4.19e+00 d.185.1.1 77311 d.185.1.1 77312 1poc 134 4.24e+00 1poc a.133.1.1 19513 1bhtA 176 4.79e+00 1bhtA g.10.1.1 44603 g.14.1.1 44663 1ir3A 306 4.93e+00 1fmk d.144.1.7 41702 1n9bA 265 5.30e+00 e.3.1.1 85463 1ndh 272 5.35e+00 1ndh b.43.4.2 25662 c.25.1.1 31552 1eyqA 222 5.42e+00 1eypA d.36.1.1 38534 1te5A 257 5.51e+00 2hgf 97 5.54e+00 1bhtA g.10.1.1 44607 1ep3B 262 5.59e+00 1ep2B b.43.4.2 25664 c.25.1.3 31554 1e0wA 313 5.62e+00 1taxA c.1.8.3 59150 1o04A 500 5.66e+00 c.82.1.1 86508 1n7eA 97 6.10e+00 b.36.1.1 -3745 1kv7A 488 6.25e+00 b.6.1.3 68873 b.6.1.3 68874 b.6.1.3 68875 1ezvA 430 6.41e+00 1be3A d.185.1.1 59541 d.185.1.1 59542 1k4nA 192 6.85e+00 d.32.1.5 72059 1cnzA 363 7.23e+00 1cnzA c.77.1.1 35061 1pz4A 116 7.33e+00 d.106.1.1 -10780 1dusA 194 7.44e+00 1dusA c.66.1.4 34182 1lkdA 297 7.63e+00 d.32.1.3 78059 d.32.1.3 78060 1utcA 363 8.33e+00 a.118.1.4 -1568 b.69.6.1 -4612 1ka9H 200 8.36e+00 c.23.16.1 77308 1n7fA 97 8.51e+00 b.36.1.1 -3746 1jw9B 249 8.64e+00 c.111.1.1 67377 1od8A 313 8.74e+00 c.1.8.3 86838 1c5cL 214 8.83e+00 32c2A b.1.1.1 20474 b.1.1.2 21438 1dkiA 371 9.31e+00 1dkiA d.3.1.1 37090 1avpA 204 9.33e+00 1avpA d.3.1.7 37132 1k1fA 72 9.49e+00 a.147.1.1 68007 2cb5A 453 1.02e+01 3gcb d.3.1.1 37035 1v8fA 276 1.02e+01 c.26.1.4 -6618 1el5A 389 1.03e+01 1b3mA c.3.1.2 30369 d.16.1.3 37937 1igrA 478 1.04e+01 1igrA c.10.2.5 30877 c.10.2.5 30878 g.3.9.1 44188 1i7pA 274 1.05e+01 b.43.4.2 66048 c.25.1.1 66049 1qc5A 192 1.08e+01 1aoxA c.62.1.1 34147 1v7oA 165 1.08e+01 unknown_sccs -10249 1bj7 156 1.09e+01 1bj7 b.60.1.1 27113 1efnB 152 1.10e+01 1efnB d.102.1.1 40699 1a49A 530 1.13e+01 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1f3z 161 1.14e+01 1gpr b.84.3.1 28273 1nlnA 204 1.14e+01 d.3.1.7 -8897 1nw1A 429 1.15e+01 d.144.1.8 86286 1l0sA 90 1.16e+01 b.81.2.1 73408 1kv0A 66 1.19e+01 g.3.7.1 -12437 1bpoA 494 1.20e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1bbpA 173 1.20e+01 1bbpA b.60.1.1 27147 1han 297 1.25e+01 1han d.32.1.3 38506 d.32.1.3 38507 1dekA 241 1.30e+01 1dekA c.37.1.1 31842 1l6pA 125 1.31e+01 b.1.17.1 73626 1g6aA 271 1.32e+01 1btl e.3.1.1 42704 1qd6C 240 1.32e+01 1qd5A 1l8fA 207 1.35e+01 b.52.1.1 84537 1uzpA 162 1.38e+01 g.3.11.1 -12511 g.3.11.1 -12512 g.23.1.1 -12685 1qmyA 167 1.45e+01 1qmyA d.3.1.2 37094 1sxjE 354 1.46e+01 2fokA 579 1.47e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1kxoA 184 1.48e+01 b.60.1.1 84475 1p65A 73 1.49e+01 unknown_sccs -10331 1vjlA 164 1.50e+01 unknown_sccs -11117 1i1dA 161 1.52e+01 1i21A d.108.1.1 61526 1iv8A 720 1.55e+01 b.71.1.1 76842 c.1.8.1 76843 1c44A 123 1.55e+01 1qndA d.106.1.1 40795 1es7B 89 1.55e+01 1es7B g.7.1.3 44465 1g6xA 58 1.61e+01 1bpi g.8.1.1 60320 1fl2A 310 1.64e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 1m6iA 493 1.67e+01 c.3.1.5 74533 c.3.1.5 74534 d.87.1.1 74535 1u9aA 160 1.76e+01 1u9aA d.20.1.1 38333 1h5qA 265 1.81e+01 1cydA c.2.1.2 60643 1avk 638 1.88e+01 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1b3tA 147 1.92e+01 1b3tA d.58.8.1 39228 1ui7A 638 1.99e+01 b.30.2.1 -3523 d.17.2.1 -9268 d.17.2.1 -9269 1b3aA 67 2.07e+01 1b3aA d.9.1.1 37410 1i12A 160 2.09e+01 1i21A d.108.1.1 61515 1qwrA 319 2.11e+01 b.82.1.3 -4880 1a6o 332 2.13e+01 1a6o 1ui8A 638 2.14e+01 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 1gyfA 62 2.18e+01 1gyfA d.76.1.1 39749 1jb0A 755 2.20e+01 1jb0A f.29.1.1 62820 1b6g 310 2.20e+01 1b6g c.69.1.8 34661 1stfI 98 2.23e+01 1stfI d.17.1.2 38006 1gp0A 143 2.32e+01 b.64.1.1 70300 1qm4A 396 2.34e+01 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 1kdgA 546 2.35e+01 c.3.1.2 77337 d.16.1.1 77338 1i3jA 116 2.38e+01 1i3jA e.30.1.1 61594 1nxzA 246 2.40e+01 b.122.1.2 86391 c.116.1.5 86392 1nuyA 337 2.43e+01 e.7.1.1 86213 1udh 244 2.44e+01 3eugA c.18.1.1 31015 1efyA 350 2.46e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1djtA 64 2.51e+01 1aho g.3.7.1 44132 1ois 223 2.54e+01 1a36A e.15.1.1 43267 3nul 130 2.55e+01 3nul d.110.1.1 40891 1k0dA 260 2.60e+01 a.45.1.1 67930 c.47.1.5 67931 1m2rA 327 2.61e+01 d.144.1.7 84760 1air 353 2.62e+01 1air b.80.1.1 28018 1pvgA 418 2.64e+01 d.14.1.3 -9032 d.122.1.2 -10965 2plc 274 2.69e+01 2plc c.1.18.2 29614 1jj2Y 73 2.71e+01 1ffkW g.41.8.1 63110 1om1A 332 2.75e+01 d.144.1.7 -11318 2phlA 397 2.82e+01 1dgwA b.82.1.2 28082 b.82.1.2 28083 1eur 365 2.84e+01 1eut b.68.1.1 27607 1jnyA 435 2.84e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1hm6A 346 2.97e+01 1avc a.65.1.1 18147 1aho 64 2.99e+01 1aho g.3.7.1 44127 1frpA 335 3.02e+01 1frpA e.7.1.1 42875 1ig8A 486 3.10e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1bywA 110 3.11e+01 1bywA d.110.3.6 40912 1ctn 540 3.13e+01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1iqqA 200 3.21e+01 d.124.1.1 66274 1a6bB 40 3.23e+01 1a6bB g.40.1.1 45172 1vhyA 257 3.26e+01 b.122.1.2 -5129 c.116.1.5 -6705 1rewC 135 3.27e+01 g.7.1.3 -12531 1onwA 390 3.32e+01 b.92.1.7 87172 c.1.9.13 87173 1trb 320 3.34e+01 1trb c.3.1.5 30529 c.3.1.5 30530 1qdp 42 3.39e+01 1vtx g.3.6.2 44113 1ea5A 537 3.39e+01 2bce c.69.1.1 34592 1o4wA 147 3.41e+01 c.120.1.1 86629 1lehA 364 3.45e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1hx0A 496 3.50e+01 b.71.1.1 61346 c.1.8.1 61347 1f1zA 273 3.50e+01 1f1zA a.4.5.27 16081 c.52.1.16 33334 1fp1D 372 3.50e+01 1fpqA a.4.5.29 59939 c.66.1.12 59940 1o20A 427 3.50e+01 c.82.1.1 86556 1ki0A 253 3.51e+01 g.14.1.1 72493 g.14.1.1 72494 g.14.1.1 72495 1qw9A 502 3.53e+01 b.71.1.2 -4677 c.1.8.3 -5348 1ow1A 195 3.54e+01 unknown_sccs -4422 1ok8A 394 3.61e+01 b.1.18.4 -2737 f.10.1.1 -12384 1v33A 366 3.67e+01 unknown_sccs -11384 1gdoA 240 3.68e+01 1gdoA d.153.1.1 41804 1qtrA 317 3.69e+01 1qtrA c.69.1.7 34660 1o88A 353 3.70e+01 b.80.1.1 81178 1oz7A 131 3.72e+01 d.169.1.1 -11622 1ejpA 28 3.75e+01 j.80.1.1 59430 1ejeA 192 3.78e+01 1ejeA b.45.1.2 25757 1r44A 202 3.80e+01 1cjwA 166 3.82e+01 1cjwA d.108.1.1 40818 1nm2A 317 3.86e+01 c.19.1.1 80654 d.58.23.1 80655 1iqyA 638 3.86e+01 b.30.2.1 76763 d.17.2.1 76764 d.17.2.1 76765 1nh9A 87 3.95e+01 d.68.6.1 -10287 1pz7A 204 3.95e+01 b.29.1.4 -3439 1uunA 184 3.96e+01 unknown_sccs -12370