# 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 1osdA 72 3.51e-01 2hqi 72 3.70e-01 1aw0 d.58.17.1 39340 1pa4A 116 3.99e-01 d.52.7.1 -9780 1iupA 282 8.32e-01 c.69.1.10 76815 1lxyA 409 1.02e+00 unknown_sccs -10987 1s9rA 410 1.06e+00 unknown_sccs -10989 1ge9A 184 1.10e+00 1dd5A d.67.3.1 60463 1h8mA 140 1.19e+00 1h8mA d.110.4.1 60782 1josA 128 1.32e+00 d.52.7.1 84191 1v6fA 151 1.55e+00 1t95A 240 1.58e+00 1v58A 241 1.63e+00 1r26A 125 1.78e+00 c.47.1.1 -7389 1hd2A 161 1.78e+00 c.47.1.10 60962 1rro 108 1.90e+00 1a75A a.39.1.4 17195 1o6jA 150 1.93e+00 c.47.1.10 81089 1i5gA 144 2.05e+00 1ewxA c.47.1.10 61784 1howA 373 2.10e+00 1hcl d.144.1.7 41679 1cof 143 2.10e+00 1cof d.109.1.2 40860 1afi 72 2.39e+00 1aw0 d.58.17.1 39339 1eriA 276 2.75e+00 1ckqA c.52.1.1 33231 1qpsA 261 2.84e+00 1ckqA c.52.1.1 33234 1cpzA 68 3.19e+00 1aw0 d.58.17.1 39351 1mo9A 523 3.27e+00 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1ef8A 261 3.46e+00 1ef8A c.14.1.3 30921 1qc9A 276 3.65e+00 1ckqA c.52.1.1 33235 1cfyA 143 3.75e+00 1cof d.109.1.2 40858 1fp3A 402 3.76e+00 1fp3A a.102.1.3 18842 1uc2A 481 4.12e+00 unknown_sccs -11725 1cl8A 276 4.31e+00 1ckqA c.52.1.1 33230 1um0A 365 4.38e+00 1ak1 310 4.43e+00 1ak1 c.92.1.1 35594 1p9qC 256 4.47e+00 1ckqA 276 4.57e+00 1ckqA c.52.1.1 33229 1qysA 106 4.76e+00 unknown_sccs -13432 7timA 247 4.78e+00 1amk c.1.1.1 28457 1lxiA 139 4.86e+00 g.17.1.2 84735 1cnuA 137 4.96e+00 1cof d.109.1.2 40862 1o8xA 146 5.11e+00 c.47.1.10 86681 1dozA 309 5.16e+00 1ak1 c.92.1.1 35592 1psuA 140 5.33e+00 d.38.1.5 88285 1egr 85 5.35e+00 1kte c.47.1.1 32765 1i1gA 141 5.44e+00 a.4.5.32 65982 d.58.4.2 65983 1lu4A 136 5.45e+00 c.47.1.10 -7509 1ctn 540 5.77e+00 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1qk8A 146 5.80e+00 1ewxA c.47.1.10 33061 1qlaB 239 5.99e+00 1qlaB a.1.2.1 15679 d.15.4.2 37707 1r3eA 309 6.05e+00 b.122.1.1 -5118 unknown_sccs -10146 1hw8A 467 6.09e+00 1dqaA d.58.20.1 61298 d.179.1.1 61299 1m4uL 139 6.24e+00 g.17.1.2 78626 1f47B 144 6.44e+00 1f46A d.129.4.1 59645 1k3sA 113 6.44e+00 d.198.1.1 68120 1rpuA 172 6.84e+00 unknown_sccs -10738 1f46A 140 7.06e+00 1f46A d.129.4.1 59643 1i45A 248 7.07e+00 1amk c.1.1.1 61665 1gudA 288 7.45e+00 c.93.1.1 83326 2acy 98 7.54e+00 2acy d.58.10.1 39298 1ewxA 146 7.82e+00 1ewxA c.47.1.10 33062 1sxjE 354 8.35e+00 1vjpA 394 8.41e+00 c.2.1.3 -5897 d.81.1.3 -10480 1bn5 478 8.78e+00 1bn5 a.4.5.25 16224 d.127.1.1 41161 1b6a 478 8.85e+00 1bn5 a.4.5.25 16223 d.127.1.1 41160 1i58A 189 8.90e+00 1b3qA d.122.1.3 61773 1f7wA 144 9.42e+00 1f46A d.129.4.1 59679 1k38A 254 1.02e+01 e.3.1.1 84303 1kid 203 1.05e+01 1derA c.8.5.1 30771 1gehA 444 1.06e+01 c.1.14.1 65181 d.58.9.1 65182 1jksA 294 1.07e+01 d.144.1.7 71710 1iloA 77 1.08e+01 c.47.1.1 66205 1prxB 224 1.13e+01 1prxA c.47.1.10 33077 1l3iA 192 1.26e+01 c.66.1.22 77676 1n82A 331 1.28e+01 c.1.8.3 -5306 1edqA 540 1.40e+01 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 3rubS 123 1.40e+01 1rboC d.73.1.1 39616 1dqaC 467 1.43e+01 1dqaA d.58.20.1 39366 d.179.1.1 42587 1dqaA 467 1.45e+01 1dqaA d.58.20.1 39364 d.179.1.1 42585 1oz9A 150 1.51e+01 unknown_sccs -10588 1bed 181 1.52e+01 1fvkA unknown_sccs -7444 1gt6A 269 1.52e+01 c.69.1.17 76342 1b9lA 120 1.55e+01 1b9lA d.96.1.3 40665 1k9tA 540 1.57e+01 b.1.18.2 77298 c.1.8.5 77299 d.26.3.1 77300 1tib 269 1.67e+01 3tgl c.69.1.17 34738 1tx4B 178 1.68e+01 1ctqA c.37.1.8 32045 1q8yA 373 1.72e+01 d.144.1.7 -11319 1prxA 224 1.93e+01 1prxA c.47.1.10 33076 1q1lA 401 1.96e+01 unknown_sccs -11166 2scuB 388 1.97e+01 2scuB c.23.4.1 31141 d.142.1.4 41562 1qj2B 809 2.02e+01 1qj2B 1bg4 302 2.02e+01 1taxA c.1.8.3 28806 1a7tA 232 2.03e+01 1a7tA d.157.1.1 42041 1b31A 302 2.03e+01 1taxA c.1.8.3 28892 1lzlA 323 2.04e+01 c.69.1.2 78306 1fo5A 85 2.05e+01 1fo5A c.47.1.1 59922 1erv 105 2.06e+01 1erv c.47.1.1 32743 1dhpA 292 2.09e+01 1dhpA c.1.10.1 29097 1seiA 130 2.11e+01 1seiA d.140.1.1 41463 1kmqA 184 2.11e+01 c.37.1.8 84412 1r3nA 462 2.12e+01 c.56.5.4 -7872 d.58.19.1 -10096 1yprA 125 2.12e+01 3nul d.110.1.1 40888 1rpjA 288 2.17e+01 2dri c.93.1.1 35656 1qupA 222 2.19e+01 1qupA b.1.8.1 22301 d.58.17.1 39352 1nw2A 105 2.26e+01 c.47.1.1 -7380 1ceo 343 2.27e+01 1ceo c.1.8.3 28808 1fvgA 199 2.30e+01 1fvaA d.58.28.1 39408 1gnlA 544 2.36e+01 e.26.1.1 70287 1i1qB 192 2.37e+01 1qdlB c.23.16.1 61544 1j0aA 325 2.40e+01 c.79.1.1 83871 1plzA 189 2.42e+01 b.82.1.7 88160 1fb6A 105 2.45e+01 1thx c.47.1.1 32739 1fvaA 217 2.51e+01 1fvaA d.58.28.1 39409 1qjcA 158 2.60e+01 1b6tA c.26.1.3 63328 1ghsA 306 2.61e+01 1aq0A c.1.8.3 28840 1ek8A 185 2.67e+01 1ek8A d.67.3.1 59444 1qxrA 189 2.68e+01 b.82.1.7 -4834 1is1A 185 2.69e+01 d.67.3.1 83704 1jtkA 136 2.74e+01 c.97.1.1 71862 1o0pA 104 2.79e+01 d.58.7.1 86535 1mk4A 157 2.83e+01 d.108.1.1 84979 6prcH 258 2.84e+01 6prcH b.41.1.1 25457 f.23.10.1 43436 1dxrH 258 2.85e+01 6prcH b.41.1.1 25456 f.23.10.1 43433 1sr9A 644 2.87e+01 1amuA 563 2.91e+01 1amuA e.23.1.1 43351 1a3aC 148 2.92e+01 1a3aA d.112.1.1 40919 1fsz 372 2.93e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1n8jA 186 2.94e+01 c.47.1.10 85401 1v7oA 165 3.02e+01 unknown_sccs -10249 1thx 115 3.03e+01 1thx c.47.1.1 32732 1dpuA 99 3.14e+01 1dpuA a.4.5.16 16150 1b8aA 438 3.15e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1h5vA 304 3.17e+01 c.1.8.3 70898 1pysA 350 3.19e+01 1pysA d.104.1.1 40775 1rewA 114 3.19e+01 g.17.1.2 -12600 1b3jA 274 3.21e+01 1agdA b.1.1.2 20855 d.19.1.1 38319 1k75A 434 3.24e+01 c.82.1.2 68253 1b3qA 379 3.25e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1i19A 561 3.30e+01 1i19A d.58.32.3 61522 d.145.1.1 61523 1hskA 326 3.32e+01 2mbr d.145.1.2 61241 d.146.1.1 61242 1aiu 105 3.35e+01 1erv c.47.1.1 32746 1qqtA 551 3.38e+01 1qqtA a.27.1.1 16923 c.26.1.1 31590 g.41.1.1 45175 1az3A 244 3.41e+01 1rvaA c.52.1.2 33276 1n62B 809 3.41e+01 d.41.1.1 80092 d.133.1.1 80093 1ermA 263 3.45e+01 1btl e.3.1.1 42690 1f4lA 551 3.47e+01 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1odzA 386 3.48e+01 c.1.8.3 86889 1b6tA 159 3.48e+01 1b6tA c.26.1.3 31600 1qfnA 85 3.49e+01 1qfnA c.47.1.1 32768 1pfvA 551 3.52e+01 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1at3A 247 3.52e+01 1at3A b.57.1.1 27021 1rl4A 188 3.57e+01 d.167.1.1 -11593 1eucB 396 3.59e+01 2scuB c.23.4.1 31149 d.142.1.4 41570 1uwzA 136 3.60e+01 1i7pA 274 3.61e+01 b.43.4.2 66048 c.25.1.1 66049 1btl 263 3.61e+01 1btl e.3.1.1 42691 1ekfA 365 3.67e+01 1ekfA e.17.1.1 59445 2gbp 309 3.69e+01 1gca c.93.1.1 35657 1eudB 396 3.73e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1ris 101 3.84e+01 1ris d.58.14.1 39314 1kkjA 419 3.84e+01 c.67.1.4 72647 1o0yA 260 3.84e+01 c.1.10.1 80756 1rxxA 421 3.92e+01 unknown_sccs -10982 1g5rA 196 3.94e+01 1g5rA c.37.1.11 32367 1g5tA 196 3.94e+01 1g5rA c.37.1.11 32366 1fts 295 3.96e+01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1a3aA 148 3.99e+01 1a3aA d.112.1.1 40917 1ifqA 138 3.99e+01 1ifqA d.110.4.1 62350