# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-scores 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 1jt8A 102 1.58e+00 b.40.4.5 63279 1mjc 69 2.16e+00 1mjc b.40.4.5 25319 1bzyA 217 3.36e+00 1qk3A c.61.1.1 34071 1wkaA 147 3.60e+00 1vjvA 415 3.72e+00 d.3.1.9 108632 1ts3A 194 3.95e+00 1aw7A b.40.2.2,d.15.6.1 25168,37757 2ff4A 388 4.16e+00 1mwmA 320 5.31e+00 c.55.1.1,c.55.1.1 79580,79581 1vhsA 175 5.79e+00 d.108.1.1 100698 1ro7A 259 6.80e+00 c.130.1.1 97667 1gaxA 862 7.22e+00 1gaxA b.51.1.1,c.26.1.1,a.2.7.3,a.27.1.1 26893,31595,75842,75843 1l1oC 181 7.39e+00 b.40.4.3 73480 3mefA 69 7.43e+00 1mjc b.40.4.5 25320 1xn5A 146 8.02e+00 1wjnA 97 8.34e+00 3tss 194 8.42e+00 1aw7A b.40.2.2,d.15.6.1 25160,37749 1c8gA 548 8.53e+00 2cas b.121.5.2 23380 1aw7A 194 8.69e+00 1aw7A b.40.2.2,d.15.6.1 25164,37753 1csp 67 9.37e+00 1mjc b.40.4.5 25321 1ze3D 125 9.72e+00 1z7gA 217 9.81e+00 1lshA 1056 1.02e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1vdwA 254 1.11e+01 e.7.1.1 100569 1f1sA 814 1.23e+01 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 1aw9 216 1.36e+01 1gnwA a.45.1.1,c.47.1.5 17736,33030 1c9oA 66 1.42e+01 1mjc b.40.4.5 25325 1khoA 370 1.47e+01 a.124.1.1,b.12.1.3 72489,72490 1pmt 203 1.47e+01 1a0fA a.45.1.1,c.47.1.5 17740,33034 2bbvA 363 1.50e+01 2bbvA b.121.4.4 23323 1eg9A 449 1.51e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1o7nA 449 1.51e+01 b.33.1.2,d.129.3.3 81162,81163 1ndoA 449 1.51e+01 1ndoA b.33.1.2,d.129.3.3 24444,41323 1vr9A 213 1.54e+01 1mfn 185 1.55e+01 1qr4B b.1.2.1,b.1.2.1 21984,21985 2bbvC 363 1.57e+01 2bbvA b.121.4.4 23325 1sawA 225 1.62e+01 1bf2 750 1.78e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 2cas 548 1.78e+01 2cas b.121.5.2 23376 1qdlA 422 1.82e+01 1qdlA d.161.1.1 42088 2fpeA 62 2.00e+01 1mgrA 99 2.10e+01 d.1.1.2 79106 1u69A 163 2.13e+01 d.32.1.7 107699 1eguA 731 2.18e+01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1lxkA 721 2.19e+01 a.102.3.2,b.24.1.1,b.30.5.2 74331,74332,74333 1mqdA 261 2.22e+01 c.94.1.1 85049 1n7oA 721 2.28e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1m5dA 263 2.41e+01 c.94.1.1 78641 1vjlA 164 2.42e+01 d.257.1.1 100822 1mqiA 263 2.44e+01 c.94.1.1 91398 2fdiA 211 2.51e+01 1yobA 179 2.56e+01 2bcoA 350 2.56e+01 1cd1A 315 2.61e+01 1cd1A b.1.1.2,d.19.1.1 21579,38155 1ee6A 197 2.63e+01 1ee6A b.80.1.1 28024 1vbkA 307 2.69e+01 1q8rA 120 2.84e+01 d.79.6.1 96225 2f4qA 346 2.92e+01 1qba 858 2.94e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21810,22406,29009,40408 1svb 395 2.98e+01 1svb b.1.18.4,f.10.1.1 21814,43827 2fsrA 195 3.02e+01 1qk4A 233 3.05e+01 1qk3A c.61.1.1 34037 1v88A 130 3.12e+01 b.55.1.1 108423 1msk 331 3.16e+01 1msk d.173.1.1 42495 1r0rE 274 3.22e+01 c.41.1.1 96735 1brwA 433 3.23e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1yu6A 275 3.26e+01 1avt 274 3.29e+01 1gci c.41.1.1 32488 1wruA 379 3.49e+01 1c5yB 253 3.52e+01 5ptp 1gj7B 253 3.52e+01 1iawA 317 3.57e+01 c.52.1.9 62126 1zkoA 136 3.66e+01 1vc3B 97 3.67e+01 1eu3A 210 3.76e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1c7sA 858 3.80e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1h95A 79 3.82e+01 b.40.4.5 65742 1sqhA 312 3.83e+01 d.108.1.5 98966 1e79H 146 3.83e+01 1e79H a.2.10.1,b.93.1.1 15721,28438 1mb4A 370 3.84e+01 c.2.1.3,d.81.1.1 78908,78909 1kcqA 104 3.86e+01 d.109.1.1 68449 1br2A 791 3.98e+01 1lvk b.34.3.1,c.37.1.9 24558,32155 2bg9A 370 3.98e+01 1a0lA 244 3.99e+01 5ptp b.47.1.2 26286 1hmpA 217 4.11e+01 1qk3A c.61.1.1 34075 1a8q 274 4.23e+01 1brt c.69.1.12 34702 1m5eA 263 4.26e+01 c.94.1.1 78642 1dmuA 299 4.32e+01 1dmuA c.52.1.4 33294 1c0aA 585 4.41e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 1sz7A 200 4.44e+01 1n2aA 201 4.44e+01 a.45.1.1,c.47.1.5 91553,91554 1a0fA 201 4.46e+01 1a0fA a.45.1.1,c.47.1.5 17737,33031 1ev7B 317 4.46e+01 1ev7B c.52.1.9 33316 1wwzA 159 4.48e+01 1bfeA 119 4.57e+01 1pdr b.36.1.1 24775 12e8H 221 4.58e+01 1igtB b.1.1.1,b.1.1.2 20269,21269 1gr2A 279 4.62e+01 1gr2A c.94.1.1 35825 2bmoA 447 4.65e+01 1v30A 124 4.68e+01 2bf6A 449 4.80e+01 1u2xA 474 4.82e+01 c.72.1.3 107622 1ymiA 334 4.89e+01 1eaxA 241 4.93e+01 b.47.1.2 64889 1yg9A 330 4.94e+01 2dg5A 366 5.00e+01 1ryt 190 5.22e+01 1ryt a.25.1.1,g.41.5.1 16646,45245 1jqpA 438 5.23e+01 b.61.5.1,d.3.1.1 77162,77163 1h0cA 392 5.40e+01 c.67.1.3 83424 1pc0A 61 5.45e+01 b.137.1.1 94426 1nnxA 109 5.57e+01 b.40.10.1 92013 1v9tA 166 5.58e+01 b.62.1.1 108451 2rspB 124 5.60e+01 2rspB b.50.1.1 26772 1afvH 220 5.62e+01 1mfa b.1.1.1,b.1.1.2 20131,21161 1lkoA 191 5.62e+01 a.25.1.1,g.41.5.1 78063,78064 1dvbA 191 5.63e+01 1ryt a.25.1.1,g.41.5.1 16645,45244 1b71A 191 5.64e+01 1ryt a.25.1.1,g.41.5.1 16647,45246 1g5vA 88 5.70e+01 1g5vA b.34.9.1 60292 2b1xA 470 5.74e+01 1yfnA 118 5.76e+01 1gy7A 125 5.80e+01 d.17.4.2 70738 1rm6A 769 5.82e+01 1ne7A 289 5.85e+01 c.124.1.1 91833 1d9tA 289 5.91e+01 1deaA 1zdzA 302 5.98e+01 1ahk 129 6.01e+01 1a9v b.1.18.7 21945 1t2wA 145 6.09e+01 b.100.1.1 106289 1zkpA 268 6.09e+01 1uliA 460 6.12e+01 b.33.1.2,d.129.3.3 107921,107922 1ar1B 298 6.13e+01 2occB b.6.1.2,f.17.2.1 23037,43619 1o6aA 96 6.29e+01 b.139.1.1 92562 2fikA 287 6.35e+01 1tlyA 278 6.44e+01 f.4.6.1 107143 1a2q 275 6.51e+01 1gci c.41.1.1 32512 1be9A 119 6.58e+01 1pdr b.36.1.1 24774 1sup 275 6.59e+01 1gci c.41.1.1 32510 1ijaA 148 6.63e+01 1ijaA b.100.1.1 62484 2f9nA 245 6.66e+01 1qwzA 235 6.70e+01 b.100.1.1 96510 1nz0A 118 6.73e+01 d.14.1.2 86433 1fnhA 271 6.82e+01 1fnhA b.1.2.1,b.1.2.1,b.1.2.1 21976,21977,21978 1h8eH 146 6.83e+01 1e79H b.93.1.1 60757 1ng5A 215 6.83e+01 b.100.1.1 91867 1lw6E 281 6.88e+01 c.41.1.1 74293 1to2E 281 6.90e+01 1qu0A 191 6.95e+01 1dykA b.29.1.4 24225 1o54A 277 6.96e+01 c.66.1.13 92482 2mcm 112 7.08e+01 2mcm b.1.7.1 22207 1omoA 322 7.25e+01 c.2.1.13 104017 1k7yA 577 7.29e+01 a.46.1.1,c.23.6.1,d.173.1.1 68272,68273,68274 1yqtA 538 7.41e+01 1jroA 462 7.45e+01 a.56.1.1,d.15.4.2,d.87.2.1,d.145.1.3 67137,67138,67139,67140 1ir21 140 7.53e+01 2fbwA 621 7.56e+01 1as8A 343 7.58e+01 1nif b.6.1.3,b.6.1.3 23074,23075 1vplA 256 7.64e+01 1as6A 343 7.68e+01 1nif b.6.1.3,b.6.1.3 23090,23091 1ev7A 317 7.74e+01 1ev7B c.52.1.9 33315 1ojxA 263 7.77e+01 c.1.10.1 93164 1q6hA 224 7.83e+01 d.26.1.1 95975 1o1yA 239 7.84e+01 c.23.16.1 86554 1tdhA 364 7.86e+01 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1w8sA 263 8.01e+01 1pylA 97 8.21e+01 d.1.1.2 104391 1autC 250 8.36e+01 5ptp b.47.1.2 26348 1dkuA 317 8.37e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1delA 241 8.43e+01 1dekA c.37.1.1 31844 1c9fA 90 8.50e+01 1c9fA d.15.2.1 37639 1guaB 81 8.51e+01 1c1yB d.15.1.5 37619 1r0kA 388 8.62e+01 a.69.3.1,c.2.1.3,d.81.1.3 104723,104724,104725 1ua4A 455 8.68e+01 c.72.1.3 99128 1juvA 193 8.71e+01 c.71.1.1 90912 1j9qA 341 8.73e+01 1nif b.6.1.3,b.6.1.3 62765,62766 1q6uA 245 8.75e+01 d.26.1.1 95998 1q38A 89 8.78e+01 b.1.2.1 95663 1txqA 93 8.81e+01 1snrA 341 8.82e+01 b.6.1.3,b.6.1.3 105823,105824 1ox8A 107 8.85e+01 b.136.1.1 93671 1cdwA 179 8.96e+01 1ytbA d.129.1.1,d.129.1.1 41212,41213 2bfgA 503 8.96e+01 1pm4A 119 8.98e+01 b.135.1.1 94891