# 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 1i1nA 226 1.28e-01 c.66.1.7 71102 1je5A 206 2.59e-01 1je5A b.40.4.7 62909 1mjfA 281 6.22e-01 c.66.1.17 79198 1bkzA 135 8.53e-01 1a3k b.29.1.3 24202 1jsdA 319 9.82e-01 b.19.1.2 63258 1kutA 230 1.11e+00 d.143.1.1 73017 1qwtA 255 1.18e+00 unknown_sccs -3329 1nykA 165 1.40e+00 b.33.1.1 86408 1uunA 184 1.78e+00 unknown_sccs -12370 1sltA 134 2.05e+00 1c1lA b.29.1.3 24186 1na3A 91 2.10e+00 k.38.1.1 85481 1v2bA 177 2.16e+00 2fha 183 2.28e+00 2fha a.25.1.1 16674 1jqeA 292 2.32e+00 c.66.1.19 71789 1h3fA 432 2.79e+00 c.26.1.1 76631 d.66.1.4 76632 1g8fA 511 3.19e+00 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 2eifA 136 3.93e+00 1bkb b.34.5.2 24607 b.40.4.5 25339 1gzwA 134 3.96e+00 b.29.1.3 -3412 1gq8A 319 4.04e+00 b.80.1.5 70350 1nwaA 203 4.40e+00 d.58.28.1 86295 1tkiA 321 4.60e+00 1tkiA d.144.1.7 41638 1mfa 247 4.76e+00 1mfa b.1.1.1 19888 b.1.1.1 19889 1hufA 140 5.10e+00 1hufA d.195.1.1 61272 1fts 295 5.18e+00 1ng1 a.24.13.1 16968 c.37.1.10 32279 1r6xA 395 5.33e+00 b.122.1.3 -5125 c.26.1.5 -6620 1qr0A 228 5.63e+00 1qr0A d.150.1.1 59038 d.150.1.1 59039 1gp1A 198 6.25e+00 1gp1A c.47.1.10 33059 2plt 98 6.86e+00 1plc b.6.1.1 22862 1kevA 351 6.90e+00 1pedA b.35.1.2 24749 c.2.1.1 29765 1gl4B 98 7.34e+00 b.1.1.4 65288 1s4nA 348 8.54e+00 unknown_sccs -8262 1c24A 263 8.64e+00 1c24A d.127.1.1 41148 1f6fB 210 8.67e+00 1axiB b.1.2.1 22033 b.1.2.1 22034 1sddA 306 8.82e+00 1mjc 69 8.94e+00 1mjc b.40.4.5 25319 1j09A 468 9.24e+00 a.97.1.1 77025 c.26.1.1 77026 1w2wA 211 9.28e+00 1ux6A 350 9.61e+00 unknown_sccs -3451 unknown_sccs -12886 1nksA 194 1.02e+01 1nksA c.37.1.1 31886 1s0yA 76 1.08e+01 d.80.1.1 -10434 1auiB 169 1.11e+01 1auiB a.39.1.5 17325 1qv9A 283 1.11e+01 unknown_sccs -6888 1bfd 528 1.21e+01 1bfd c.31.1.3 31745 c.36.1.5 31801 c.36.1.9 31802 1eluA 390 1.21e+01 1elqA c.67.1.3 34434 1kk1A 410 1.25e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1gcvB 136 1.27e+01 1cg5B a.1.1.2 15589 1jqbA 351 1.33e+01 b.35.1.2 77151 c.2.1.1 77152 1l3iA 192 1.35e+01 c.66.1.22 77676 1repC 251 1.40e+01 1repC a.4.5.10 16125 a.4.5.10 16126 1ejrB 101 1.43e+01 1ubpB b.85.3.1 28320 1d8hA 311 1.44e+01 1d8iA d.63.1.1 39544 1gmeA 151 1.47e+01 b.15.1.1 65305 1qhlA 227 1.53e+01 1qhlA c.37.1.12 32382 1elqA 390 1.56e+01 1elqA c.67.1.3 34436 1ejxB 101 1.59e+01 b.85.3.1 83183 1pmy 123 1.64e+01 1bqk b.6.1.1 22888 1n0nA 199 1.67e+01 a.2.11.1 79750 d.44.1.1 79751 1ofgA 381 1.68e+01 1ofgA c.2.1.3 30064 d.81.1.5 39979 1pn0A 665 1.70e+01 c.3.1.2 -5992 c.47.1.10 -7513 d.16.1.2 -9210 1h6dA 433 1.77e+01 c.2.1.3 65656 d.81.1.5 65657 1cuk 203 1.78e+01 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1oruA 195 1.80e+01 unknown_sccs -4390 1ap6A 198 1.80e+01 1avmA a.2.11.1 15746 d.44.1.1 38705 1fdr 248 1.83e+01 1fdr b.43.4.2 25653 c.25.1.1 31543 1ul7A 102 1.89e+01 unknown_sccs -11020 1iqcA 308 1.91e+01 a.3.1.5 66266 a.3.1.5 66267 1koe 172 1.91e+01 1koe d.169.1.5 42448 1odzA 386 2.05e+01 c.1.8.3 86889 1j9yA 385 2.06e+01 1j9yA c.1.8.3 62791 1ha3A 405 2.09e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1pl4A 198 2.10e+01 a.2.11.1 -132 d.44.1.1 -9733 1cs6A 382 2.11e+01 1cs6A b.1.1.4 21760 b.1.1.4 21761 b.1.1.4 21762 b.1.1.4 21763 1mvuB 121 2.12e+01 b.1.1.1 -2250 1s2dA 167 2.15e+01 c.23.14.1 -6469 1q8rA 120 2.18e+01 unknown_sccs -10422 1s0uA 408 2.23e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1dyoA 160 2.27e+01 1dyoA b.18.1.7 23771 1wejH 223 2.41e+01 1igtB b.1.1.1 20361 b.1.1.2 21353 1avaC 181 2.42e+01 1avaC b.42.4.1 25604 1nvmB 312 2.45e+01 c.2.1.3 86251 d.81.1.1 86252 1t9fA 187 2.55e+01 1o63A 219 2.59e+01 c.94.1.1 -8691 1iyhA 198 2.60e+01 a.45.1.1 83790 c.47.1.5 83791 1gd8A 118 2.64e+01 d.188.1.1 60445 1lslA 113 2.68e+01 g.60.1.1 78178 g.60.1.1 78179 1uumA 372 2.70e+01 c.1.4.1 -5193 1bquA 215 2.84e+01 1bquA b.1.2.1 22066 b.1.2.1 22067 1kcxA 518 2.87e+01 b.92.1.3 -5074 c.1.9.6 -5426 1d4tA 104 2.87e+01 1d4tA d.93.1.1 40537 1gnxA 479 2.89e+01 c.1.8.4 76241 1ncs 47 2.91e+01 1ncs g.37.1.1 45040 1jg1A 235 2.94e+01 c.66.1.7 66661 1lla 628 2.99e+01 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.18.3 21861 1r03A 182 3.08e+01 1np7A 489 3.15e+01 a.99.1.1 80677 c.28.1.1 80678 1exmA 405 3.15e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1sx5A 244 3.19e+01 c.52.1.2 -7551 1dseA 292 3.31e+01 1ryc a.93.1.1 59130 1j5vA 351 3.31e+01 c.72.1.1 71585 1bxoA 323 3.42e+01 2er7E b.50.1.2 26805 1oaqH 121 3.45e+01 b.1.1.1 -2287 1ogaD 215 3.52e+01 b.1.1.1 86990 b.1.1.2 86991 1q15A 503 3.52e+01 c.26.2.1 -6625 d.153.1.1 -11400 1o5uA 101 3.53e+01 b.82.1.8 -4845 1kpgA 287 3.59e+01 c.66.1.18 68735 1gln 468 3.60e+01 1gln a.97.1.1 18752 c.26.1.1 31588 1a6wH 120 3.61e+01 1mfa b.1.1.1 20253 1pba 81 3.66e+01 1pytA d.58.3.1 39067 1eg7A 557 3.68e+01 1eg7A c.37.1.10 32241 1kx5C 128 3.68e+01 a.22.1.1 77595 1eonA 245 3.69e+01 1rvaA c.52.1.2 33238 1m98A 317 3.75e+01 a.175.1.1 78866 d.17.4.6 78867 1iytA 42 3.83e+01 j.42.1.1 76974 1rl6A 177 3.86e+01 1rl6A d.141.1.1 41473 d.141.1.1 41474 1mvcA 240 3.90e+01 a.123.1.1 79499 1qnrA 344 3.92e+01 1qnoA c.1.8.3 28834 1kwmA 402 3.95e+01 c.56.5.1 73079 d.58.3.1 73080