# 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 1xngA 268 2.22e-01 1b3mA 389 5.18e-01 1b3mA 1el5A 389 5.30e-01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1l9fA 389 5.85e-01 c.3.1.2,d.16.1.3 73716,73717 1llwA 1520 9.71e-01 b.80.4.1,c.1.4.1,d.153.1.1 74017,74018,74019 1eal 127 1.33e+00 1hmt b.60.1.2 27227 1nezG 128 1.60e+00 b.1.1.1 85592 1bqhG 129 1.65e+00 1cd8 b.1.1.1 19715 1ofdA 1520 2.23e+00 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1lvwA 295 2.24e+00 c.68.1.6 84723 1ru8A 232 2.52e+00 c.26.2.1 97849 1dq3A 454 2.53e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1ekgA 127 2.94e+00 1dlxA d.82.2.1 40021 1mvfA 135 3.53e+00 b.1.1.1 85141 1rsy 152 3.62e+00 1rsy b.7.1.2 23192 2a9mL 110 3.91e+00 1f89A 291 4.07e+00 d.160.1.1 64988 1riqA 465 4.29e+00 a.203.1.1,d.104.1.1 97516,97517 1i8nA 126 4.55e+00 1i8nA g.10.1.2 61976 1cb8A 678 4.87e+00 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1goh 639 5.26e+00 1gof b.1.18.2,b.18.1.1,b.69.1.1 21809,23711,27633 2d13A 227 5.66e+00 1hm2A 700 5.97e+00 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 61083,61084,61085 1i3uA 127 6.44e+00 1gc1H b.1.1.1 61636 1yfsA 465 6.54e+00 1xzoA 174 6.60e+00 1k3iA 656 6.63e+00 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1hgxA 183 7.07e+00 1tc1A c.61.1.1 34027 1rzfL 213 7.39e+00 b.1.1.1,b.1.1.2 98152,98153 1gof 639 7.68e+00 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 2gxfA 142 7.87e+00 1i50A 1733 8.34e+00 e.29.1.2 61754 1lfo 128 8.54e+00 1hmt b.60.1.2 27223 1twfA 1733 8.61e+00 2f5tX 233 8.86e+00 1p5dX 463 9.14e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1bynA 128 9.47e+00 1rsy b.7.1.2 23193 1dgwA 178 9.60e+00 1dgwA b.82.1.2 28090 1l1jA 239 9.95e+00 b.47.1.1 84516 2c0zA 216 1.02e+01 1cojA 212 1.02e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1iloA 77 1.05e+01 c.47.1.1 66205 2cokA 113 1.20e+01 1pt1A 143 1.30e+01 b.52.2.1 95084 1upiA 225 1.38e+01 b.82.1.1 99757 1r26A 125 1.39e+01 c.47.1.1 96847 2absA 383 1.40e+01 1ly7A 121 1.51e+01 d.82.2.1 74339 1qmeA 702 1.52e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1p1jA 533 1.62e+01 c.2.1.3,d.81.1.3 87687,87688 1zvyA 136 1.65e+01 2a7yA 83 1.69e+01 1k2yX 463 1.71e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1y89A 238 1.74e+01 1x0pA 143 1.75e+01 1adqH 225 1.77e+01 1igtB b.1.1.1,b.1.1.2 20273,21273 1m4vA 204 1.78e+01 b.40.2.2,d.15.6.1 74459,74460 1xfpA 142 1.78e+01 b.1.1.1 109587 1ru4A 400 1.79e+01 b.80.1.9 97836 1z5yE 149 1.82e+01 1a6dA 545 1.82e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 1nycA 111 1.83e+01 b.61.2.2 92336 1u2fA 90 1.84e+01 1u2fA d.58.7.1 39168 1wosA 364 1.85e+01 b.44.2.1,d.250.1.1 109468,109469 1sb2A 133 1.95e+01 1dgrC 178 2.02e+01 1dgwA b.82.1.2 28100 2cavA 445 2.03e+01 1dgwA b.82.1.2,b.82.1.2 28094,28095 1pqhA 143 2.06e+01 b.52.2.1 95017 1jkfA 533 2.08e+01 c.2.1.3,d.81.1.3 71700,71701 1jkiA 533 2.12e+01 c.2.1.3,d.81.1.3 71704,71705 1aoiF 87 2.13e+01 1aoiB a.22.1.1 16471 1aoiB 87 2.15e+01 1aoiB a.22.1.1 16470 1xcbA 211 2.17e+01 a.4.5.38,c.2.1.12 109552,109553 1y0yA 353 2.20e+01 1i6uA 130 2.21e+01 d.140.1.1 61850 1gpmA 525 2.42e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1kx5B 102 2.42e+01 a.22.1.1 77594 1qk4A 233 2.46e+01 1qk3A c.61.1.1 34037 1hq3D 103 2.60e+01 1aoiB a.22.1.1 16464 1tzyD 103 2.60e+01 a.22.1.1 107533 1qtnA 164 2.64e+01 1pauA c.17.1.1 30999 1eo9A 209 2.65e+01 3pchA b.3.6.1 22731 1o0wA 252 2.67e+01 a.149.1.1,d.50.1.1 80751,80752 1io1A 398 2.67e+01 1io1A e.32.1.1 62611 2bu3A 254 2.70e+01 1kk8B 139 2.95e+01 a.39.1.5 77430 1x99A 145 2.98e+01 1zvhA 134 2.98e+01 1wu7A 434 3.03e+01 1eylA 186 3.07e+01 1wba b.42.4.1 25593 1ebdC 41 3.07e+01 1ebdC a.9.1.1 16355 1fsgA 233 3.08e+01 1qk3A c.61.1.1 34029 2pdd 43 3.12e+01 1ebdC a.9.1.1 16358 1qtfA 246 3.20e+01 1agjA b.47.1.1 25830 1wdcB 156 3.30e+01 1wdcB a.39.1.5 17302 1obdA 306 3.44e+01 d.143.1.1 86767 1tif 78 3.44e+01 1tif d.15.8.1 37836 1xfoA 357 3.55e+01 1scmB 145 3.57e+01 1wdcB a.39.1.5 17304 1hyxH 224 3.71e+01 1igtB b.1.1.1,b.1.1.2 20167,21191 1u24A 337 3.75e+01 1dkiA 371 3.79e+01 1dkiA d.3.1.1 37090 1vrmA 325 3.84e+01 1ywhA 313 3.84e+01 1zeqX 84 3.89e+01 1yc7A 124 3.96e+01 1wqsA 173 3.99e+01 1svpA 161 4.02e+01 1svpA b.47.1.3 26384 1u0qA 125 4.03e+01 2fimA 276 4.07e+01 1bymA 97 4.08e+01 1bi0 b.34.1.2 24458 1idsA 207 4.10e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 1ic7H 114 4.16e+01 1f3rB b.1.1.1 62258 1f5nA 592 4.21e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1mfgA 95 4.22e+01 b.36.1.1 79043 1asx 159 4.22e+01 1a6dA c.8.5.2 30821 1jmmA 377 4.22e+01 b.30.6.1 71749 1mxmA 254 4.34e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1qk3A 233 4.35e+01 1qk3A c.61.1.1 34031 1egxA 115 4.53e+01 1evhA b.55.1.4 27000 1dgmA 363 4.55e+01 1bx4A c.72.1.1 34936 1zmaA 118 4.58e+01 2g76A 335 4.58e+01 1vs0A 310 4.64e+01 1yezA 68 4.71e+01 1w85I 49 4.76e+01 2b95A 106 4.86e+01 1id3B 102 4.92e+01 a.22.1.1 66113 1aw8B 91 4.92e+01 1aw8B 1kn0A 212 4.94e+01 d.50.1.3 77444 2cmd 312 4.94e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 2fvgA 340 5.14e+01 2azwA 148 5.22e+01 1ass 159 5.29e+01 1a6dA c.8.5.2 30818 1crwG 333 5.29e+01 1dssG c.2.1.3,d.81.1.1 30026,39941 1a12A 413 5.33e+01 1a12A b.69.5.1 27663 1s68A 249 5.55e+01 d.142.2.4 98591 1theA 260 5.56e+01 1theB d.3.1.1 37056 1nslA 184 5.57e+01 d.108.1.1 86137 1tmcA 175 5.71e+01 1agdA d.19.1.1 38258 2aotA 292 5.71e+01 1ol0A 121 5.78e+01 b.1.1.1 93296 1jm1A 204 5.95e+01 b.33.1.1 71745 2a9mH 126 6.00e+01 3pcgA 200 6.08e+01 3pchA b.3.6.1 22647 1yu0A 381 6.09e+01 7timA 247 6.13e+01 1amk c.1.1.1 28457 1wy5A 317 6.21e+01 1dro 122 6.23e+01 1btn b.55.1.1 26954 1yoxA 250 6.30e+01 1rq6A 62 6.33e+01 1neyA 247 6.33e+01 c.1.1.1 80449 1qmuA 380 6.34e+01 1qmuA b.3.2.1,c.56.5.1 22534,33827 1bn6A 294 6.35e+01 1bn6A c.69.1.8 34678 1i45A 248 6.36e+01 1amk c.1.1.1 61665 1yu4A 381 6.36e+01 1bn7A 294 6.40e+01 1bn6A c.69.1.8 34677 1wy2A 351 6.46e+01 1po5A 476 6.51e+01 a.104.1.1 94963 1yu1A 381 6.52e+01 1yu2A 381 6.59e+01 1jqeA 292 6.62e+01 c.66.1.19 71789 1r8nA 185 6.62e+01 b.42.4.1 104851 2gfaA 119 6.71e+01 1i7oA 429 6.75e+01 1i7oA d.177.1.1,d.177.1.1 61893,61894 1yu3A 381 6.91e+01 1zt1A 277 6.95e+01 1t2jA 116 7.06e+01 1httA 423 7.14e+01 1adjA c.51.1.1,d.104.1.1 33178,40727 1y8tA 324 7.45e+01 1aqkH 226 7.45e+01 1igtB b.1.1.1,b.1.1.2 20193,21209 1w4tA 299 7.45e+01 1kqaA 203 7.48e+01 b.81.1.3 72868 1krrA 203 7.48e+01 b.81.1.3 72899 1pvyA 227 7.60e+01 d.115.1.2 95195 1snnA 227 7.67e+01 d.115.1.2 105821 1uz8B 212 7.80e+01 b.1.1.1,b.1.1.2 108168,108169 2bvpA 276 7.81e+01 2bsjA 133 7.83e+01 1gttA 429 7.91e+01 d.177.1.1,d.177.1.1 70529,70530 1w4vA 119 8.09e+01 1j1xH 114 8.11e+01 b.1.1.1 77063 1jguH 217 8.13e+01 b.1.1.1,b.1.1.2 66688,66689 1aw8E 91 8.25e+01 1aw8B 1pmzA 86 8.31e+01 a.39.1.10 104195 1hsbA 270 8.32e+01 1agdA b.1.1.2,d.19.1.1 20736,38257 1nmeA 146 8.39e+01 c.17.1.1 85874 1tjgH 237 8.57e+01 2a2pA 129 8.64e+01 1uvzA 119 8.65e+01 1rcwA 231 8.67e+01 a.132.1.4 97299 1abrA 251 8.74e+01 1mrj d.165.1.1 42196 1zud2 66 8.74e+01 1x0vA 354 8.75e+01 1ci3M 249 8.84e+01 1hcz b.2.6.1,b.84.2.2 22480,28266 1ni5A 433 8.92e+01 c.26.2.5,d.229.1.1 80533,80534