# List of top-scoring protein chains for t04-100-30-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 3proC 166 8.65e-01 3proC d.52.1.1,d.52.1.1 38812,38813 2gu3A 136 1.84e+00 1n91A 108 3.34e+00 d.206.1.1 80326 1kveB 77 3.98e+00 1kveB 2cnqA 306 4.85e+00 d.143.1.1 130646 1xw3A 110 5.10e+00 1obdA 306 5.48e+00 d.143.1.1 86767 1c44A 123 5.59e+00 1qndA d.106.1.1 40795 1yzsA 121 5.70e+00 1xw4X 110 5.72e+00 1i1iP 681 6.36e+00 1i1iP d.92.1.5 40297 1ylxA 103 6.47e+00 d.82.5.1 123677 1ym5A 300 7.01e+00 1vpkA 378 7.31e+00 d.131.1.1,d.131.1.1,d.131.1.1 113963,113964,113965 1s5jA 847 7.72e+00 c.55.3.5,e.8.1.1 112040,112041 1qcsA 211 7.97e+00 1qcsA b.52.2.3,d.31.1.1 26927,38461 1v74A 107 8.16e+00 d.243.1.1 100442 2g3aA 152 8.92e+00 d.108.1.1 134557 1a48 306 9.37e+00 1a48 1zbfA 142 9.52e+00 c.55.3.1 124850 1ospO 257 1.01e+01 1ospO b.76.1.1 27971 1t6sA 162 1.07e+01 a.4.5.60,a.4.5.60 112271,112272 2nr1 27 1.16e+01 1zwyA 185 1.20e+01 c.51.4.3 125753 1r8gA 372 1.38e+01 d.128.1.3 104845 1p5dX 463 1.47e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1f1xA 322 1.51e+01 d.32.1.3,d.32.1.3 83208,83209 1w53A 84 1.51e+01 a.186.1.2 109175 1sh8A 154 1.52e+01 d.38.1.5 105549 2aq4A 434 1.59e+01 1vh5A 148 1.64e+01 d.38.1.5 100642 1th5A 74 1.67e+01 d.52.8.1 119263 1iuhA 198 1.69e+01 d.61.1.2 83711 1f1uA 323 1.74e+01 d.32.1.3,d.32.1.3 83200,83201 1oivA 191 1.76e+01 c.37.1.8 93076 1tr0A 108 1.84e+01 d.58.4.4 107261 1ykdA 398 1.86e+01 1j3bA 529 1.86e+01 c.91.1.1,c.109.1.1 77071,77072 1xqoA 256 1.92e+01 a.96.1.6 115853 3pyp 125 2.00e+01 3pyp 1ifqA 138 2.01e+01 1ifqA d.110.4.1 62350 1u5uA 374 2.01e+01 e.5.1.2 113052 1k2yX 463 2.03e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1o8xA 146 2.03e+01 c.47.1.10 86681 1bywA 110 2.03e+01 1bywA d.110.3.6 40912 1mixA 206 2.06e+01 a.11.2.1,b.55.1.5 79166,79167 2afbA 351 2.12e+01 c.72.1.1 126674 1trb 320 2.23e+01 1trb 1ii2A 524 2.26e+01 c.91.1.1,c.109.1.1 66146,66147 1wq3A 322 2.29e+01 2fhi 147 2.35e+01 1fit 1s6cA 183 2.40e+01 a.39.1.5 98594 1nwzA 125 2.46e+01 d.110.3.1 86370 1ohtA 215 2.47e+01 d.118.1.1 87036 2c7hA 86 2.50e+01 1q7lA 198 2.51e+01 c.56.5.4 96044 1p4fA 293 2.52e+01 d.144.1.7 104063 2bwqA 129 2.53e+01 b.7.1.2 129380 1a0p 290 2.61e+01 1a0p 2ajrA 331 2.69e+01 c.72.1.1 126892 1914 232 2.70e+01 1914 2es7A 142 2.75e+01 c.47.1.20 132314 1squA 155 2.76e+01 d.252.1.1 98971 1e0cA 271 2.77e+01 1e0cA c.46.1.2,c.46.1.2 32717,32718 1a9xA 1058 2.80e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1lm4A 194 2.89e+01 d.167.1.1 84626 2b9hA 353 2.93e+01 1gw5S 142 2.98e+01 d.110.4.2 70633 1vkkA 154 3.11e+01 d.109.1.2 108669 1tvoA 368 3.12e+01 1em2A 229 3.12e+01 1em2A d.129.3.2 41321 2bo9A 308 3.15e+01 c.56.5.1 128897 2essA 248 3.21e+01 d.38.1.8,d.38.1.8 132346,132347 1wr2A 238 3.27e+01 2cfuA 658 3.30e+01 1qk8A 146 3.33e+01 1ewxA c.47.1.10 33061 1cs0A 1073 3.34e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1v7cA 351 3.36e+01 c.79.1.1 100446 1usuA 260 3.40e+01 d.14.1.8 99885 1z9vA 121 3.44e+01 1n9lA 109 3.44e+01 d.110.3.6 85468 1az9 457 3.47e+01 1az9 1ash 150 3.49e+01 1ash 1yewA 382 3.52e+01 1mzuA 129 3.53e+01 d.110.3.1 79714 2igd 61 3.53e+01 2igd 1v5xA 203 3.55e+01 c.1.2.4 100377 1gxrA 337 3.55e+01 b.69.4.1 70722 1ln1A 214 3.65e+01 d.129.3.2 74038 1c8cA 64 3.71e+01 1azpA b.34.13.1 59084 1mngA 203 3.76e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1xr4A 509 3.81e+01 c.124.1.2,c.124.1.2 115860,115861 1q4rA 112 3.85e+01 d.58.4.4 95823 1j5vA 351 3.86e+01 2cyjA 118 4.01e+01 c.103.1.1 131026 1phk 298 4.08e+01 1cdkA 2fclA 169 4.12e+01 d.218.1.11 133273 2ewrA 170 4.12e+01 d.218.1.11 132493 1txvA 452 4.23e+01 b.69.8.1 112783 1tn6B 437 4.29e+01 a.102.4.3 112528 2c6cA 707 4.29e+01 a.48.2.1,c.8.4.1,c.56.5.5 129989,129990,129991 1jnyA 435 4.36e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1fp1D 372 4.36e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 2gi9A 56 4.38e+01 1v3wA 173 4.39e+01 b.81.1.5 100291 1hbkA 94 4.42e+01 1aca a.11.1.1 60887 1jovA 270 4.45e+01 b.30.5.7 84192 1nscA 390 4.45e+01 2qwc b.68.1.1 27591 1z2nX 324 4.50e+01 2cunA 410 4.50e+01 1t9mA 214 4.54e+01 b.45.1.1 112364 2g0wA 296 4.56e+01 c.1.15.4 134503 2gk9A 426 4.62e+01 1ta8A 332 4.63e+01 d.142.2.2 112375 1hwxA 501 4.64e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 1k0hA 117 4.74e+01 b.106.1.2 71975 1fit 147 4.74e+01 1fit 1vl2A 421 4.79e+01 c.26.2.1,d.210.1.1 108708,108709 3erk 364 4.83e+01 1hcl 2fo3A 125 4.85e+01 d.20.1.1 133868 1jj2L 194 4.86e+01 1ffkI d.12.1.2 63097 1pguA 615 4.94e+01 b.69.4.1,b.69.4.1 88069,88070 1crzA 403 4.96e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 2dlbA 80 4.97e+01 1yduA 170 4.99e+01 b.162.1.1 123003 1gzcA 239 5.00e+01 b.29.1.1 70803 1a1x 108 5.01e+01 1a1x 1zchA 255 5.06e+01 d.90.1.1 124908 1o0pA 104 5.08e+01 d.58.7.1 86535 1r7aA 504 5.21e+01 b.71.1.1,c.1.8.1 97192,97193 2cy5A 140 5.28e+01 b.55.1.2 131018 1mjhA 162 5.33e+01 1mjhA c.26.2.4 31639 1m7xA 617 5.34e+01 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1ob8A 135 5.43e+01 c.52.1.18 111627 1zceA 155 5.45e+01 b.122.1.8 124907 830cA 168 5.46e+01 1ck7A d.92.1.11 40400 1xh9A 350 5.48e+01 1aqcA 172 5.50e+01 1x11A b.55.1.2 26983 1y6zA 263 5.51e+01 1hnnA 282 5.55e+01 c.66.1.15 65895 1jayA 212 5.64e+01 c.2.1.6 66478 2fckA 181 5.73e+01 d.108.1.1 133272 1sviA 195 5.78e+01 c.37.1.8 106048 1o26A 232 5.80e+01 d.207.1.1 86566 1iazA 179 5.83e+01 1iazA b.97.1.1 62131 1zaiA 363 5.89e+01 c.1.10.1 124828 2bvfA 459 5.94e+01 1jilA 420 5.97e+01 c.26.1.1 66745 1z5bA 469 6.07e+01 a.156.1.3,d.14.1.3,d.122.1.2 124464,124465,124466 1oxxK 353 6.08e+01 b.40.6.3,c.37.1.12 93715,93716 1a5t 334 6.10e+01 1a5t 1wqaA 455 6.16e+01 1su4A 994 6.26e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1vclA 432 6.30e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1w1kA 560 6.36e+01 d.58.32.1,d.145.1.1 109059,109060 1s1eA 224 6.36e+01 a.39.1.5 112007 1edqA 540 6.41e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1ugjA 141 6.50e+01 b.41.1.3 107826 1utcA 363 6.50e+01 a.118.1.4,b.69.6.1 99914,99915 1uanA 227 6.54e+01 c.134.1.1 99135 1oo0A 147 6.59e+01 d.232.1.1 87182 1e8gA 560 6.60e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1q7sA 117 6.61e+01 c.131.1.1 96055 1u84A 90 6.63e+01 a.230.1.1 113114 1ld8B 437 6.64e+01 a.102.4.3 73839 1dq3A 454 6.72e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1o70A 324 6.78e+01 b.118.1.1,b.118.1.1 81115,81116 2bp1A 360 6.82e+01 2a2lA 145 6.83e+01 d.110.9.1 126035 1vkyA 347 6.95e+01 e.53.1.1 108696 1oeyJ 107 6.96e+01 d.15.2.2 92804 1x7yA 400 6.99e+01 c.36.1.11 114944 1v1rA 400 7.00e+01 c.36.1.11 108272 1d1vA 444 7.02e+01 1nseA d.174.1.1 59101 2bfdA 400 7.08e+01 1ed5A 444 7.14e+01 1nseA d.174.1.1 42530 1nk4A 580 7.15e+01 c.55.3.5,e.8.1.1 91923,91924 1olsA 400 7.16e+01 c.36.1.11 93331 1h2kA 349 7.22e+01 b.82.2.6 76572 1usyA 275 7.33e+01 d.104.1.1 113422 1xhdA 173 7.34e+01 b.81.1.5 115295 2fw2A 260 7.35e+01 c.14.1.3 134231 2gu2A 312 7.36e+01 1kwaA 88 7.42e+01 1kwaA b.36.1.1 24772 1xwl 580 7.43e+01 1xwl 1v6zA 228 7.51e+01 b.122.1.2,c.116.1.5 113551,113552 1u14A 172 7.51e+01 c.51.4.3 107579 1ebfA 358 7.54e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1x47A 98 7.55e+01 d.50.1.1 121680 1dkzA 219 7.55e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1v6fA 151 7.56e+01 d.109.1.2 108395 2an3A 289 7.57e+01 c.66.1.15 127027 1iybA 208 7.60e+01 d.124.1.1 90720 2ng1 293 7.61e+01 1ng1 1pvgA 418 7.66e+01 d.14.1.3,d.122.1.2 95161,95162 1go4A 205 7.75e+01 d.135.1.1 70292 1shuX 182 7.86e+01 c.62.1.1 98882 1at0 145 7.87e+01 1at0 2f57A 317 7.88e+01 1ywqA 200 7.91e+01 d.90.1.1 124162 1l3sA 580 7.97e+01 c.55.3.5,e.8.1.1 84521,84522 1e4fT 419 8.00e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1oxsC 353 8.00e+01 b.40.6.3,c.37.1.12 87519,87520 1l1zA 274 8.23e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1apmE 350 8.25e+01 1cdkA d.144.1.7 41628 1gmiA 136 8.29e+01 b.7.1.1 65309 2fwuA 157 8.29e+01 b.1.27.1 134262 1bpoA 494 8.33e+01 1bpoA a.118.1.4,b.69.6.1 19143,27670 1s3sG 127 8.36e+01 d.15.1.2 98457 1y96B 85 8.40e+01 1yarH 217 8.42e+01 d.153.1.4 122844 2f9lA 199 8.43e+01 c.37.1.8 133166 1hjsA 332 8.48e+01 c.1.8.3 83492 1nekA 588 8.51e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1kinA 366 8.72e+01 1cdcA 99 8.82e+01 1cdcA b.1.1.1 19746 1k8tA 510 8.83e+01 e.41.1.1 68316 1ypxA 375 8.93e+01 1w96A 554 8.93e+01 b.84.2.1,c.30.1.1,d.142.1.2 114397,114398,114399 1zxzA 197 8.94e+01 1mkeA 152 8.94e+01 b.55.1.4 79231 1zatA 250 8.96e+01 b.160.1.1,d.335.1.1 124845,124846 1jksA 294 8.96e+01 d.144.1.7 71710 1wvqA 167 8.99e+01