# List of top-scoring protein chains for t2k-100-30-bys-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 1moh 142 8.31e-01 1flp a.1.1.2 15012 1b0b 142 9.06e-01 2fal a.1.1.2 15010 1flp 142 9.21e-01 1flp a.1.1.2 15011 1okcA 297 1.73e+00 f.42.1.1 93248 1iomA 377 1.98e+00 a.103.1.1 83698 1qdbA 473 2.98e+00 1qdbA a.138.1.3 19688 1klxA 138 4.40e+00 a.118.18.1 77440 1rx0A 393 5.62e+00 a.29.3.1,e.6.1.1 98007,98008 1g24A 211 6.01e+00 1g24A d.166.1.1 42270 2a9kB 223 6.24e+00 1k47A 337 8.01e+00 d.14.1.5,d.58.26.4 72040,72041 2sas 185 9.29e+00 2sas a.39.1.5 17258 1e9gB 286 1.12e+01 1wgjA b.40.5.1 59394 1sglA 209 1.23e+01 d.124.1.1 105536 2cunA 410 1.23e+01 1z2iA 358 1.25e+01 1yviA 149 1.26e+01 1nr6A 473 1.32e+01 a.104.1.1 92085 1cpt 412 1.33e+01 1cpt a.104.1.1 18968 1qbjA 81 1.39e+01 1qbjA a.4.5.19 16155 1sz9A 144 1.46e+01 a.118.9.4 106139 1dk0A 188 1.46e+01 1b2vA d.35.1.1 38530 2c6qA 351 1.59e+01 1ytzT 107 1.66e+01 1e9gA 286 1.74e+01 1wgjA b.40.5.1 59393 2bznA 351 1.92e+01 1knqA 175 1.95e+01 c.37.1.17 72786 1gpjA 404 1.97e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1pa2A 306 2.00e+01 1bgp a.93.1.1 18693 1b2vA 188 2.01e+01 1b2vA d.35.1.1 38532 1fjgI 128 2.03e+01 1fjfI d.14.1.1 37559 1y1xA 191 2.09e+01 1fzcA 87 2.10e+01 1fzcA h.1.8.1 45590 1dh3A 55 2.11e+01 1a02J h.1.3.1 45546 1xvhA 129 2.13e+01 1yppA 286 2.14e+01 1wgjA b.40.5.1 25407 1hh8A 213 2.15e+01 1e96B a.118.8.1 61042 1j0mA 752 2.15e+01 a.102.3.2,b.24.1.1,b.30.5.2 83910,83911,83912 1wm5A 208 2.21e+01 1wgjA 286 2.28e+01 1wgjA b.40.5.1 25397 8prkA 287 2.30e+01 1wgjA b.40.5.1 25395 8prkB 287 2.30e+01 1wgjA b.40.5.1 25396 117eA 286 2.31e+01 1wgjA b.40.5.1 25401 1c02A 166 2.46e+01 1qspA a.24.10.2 16633 1lu4A 136 2.49e+01 c.47.1.10 91124 1kgsA 225 2.54e+01 a.4.6.1,c.23.1.1 68596,68597 1dgnA 89 2.57e+01 1dgnA a.77.1.3 18436 1x1iA 752 2.63e+01 1e96B 203 2.69e+01 1e96B a.118.8.1 19211 1eg3A 261 2.73e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1eerA 166 2.75e+01 1eerA a.26.1.2 16846 1k0dA 260 2.76e+01 a.45.1.1,c.47.1.5 67930,67931 1g6wA 261 2.77e+01 1hqoA a.45.1.1,c.47.1.5 17751,33045 1n6bA 473 2.80e+01 a.104.1.1 85359 1guxA 218 2.87e+01 1guxA a.74.1.3 18388 1dt6A 473 2.95e+01 1dt6A a.104.1.1 18977 1a26 361 3.02e+01 1a26 a.41.1.1,d.166.1.2 17412,42274 1tia 279 3.12e+01 3tgl c.69.1.17 34737 1rsy 152 3.12e+01 1rsy b.7.1.2 23192 1wwzA 159 3.14e+01 1ye8A 178 3.19e+01 2br9A 234 3.20e+01 1wpuA 147 3.32e+01 2hmzA 113 3.47e+01 2mhr a.24.4.1 16564 2acjA 66 3.49e+01 1hwwA 1015 3.54e+01 a.8.3.1,b.30.5.6,c.6.2.1 83067,83068,83069 1k78A 149 3.56e+01 a.4.1.5,a.4.1.5 68255,68256 1io1A 398 3.57e+01 1io1A e.32.1.1 62611 1wmqA 147 3.63e+01 1k6iA 352 3.65e+01 c.2.1.2 68223 1l9lA 74 3.69e+01 a.64.1.1 77827 2a11A 242 3.71e+01 1josA 128 3.75e+01 d.52.7.1 84191 1g5aA 628 3.78e+01 b.71.1.1,c.1.8.1 65152,65153 1htyA 1015 3.79e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 1efyA 350 3.82e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1qb2A 109 3.83e+01 1qb2A a.36.1.1 17125 1hxkA 1015 3.85e+01 a.8.3.1,b.30.5.6,c.6.2.1 83070,83071,83072 1udxA 416 3.85e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 2hmqA 113 3.94e+01 2mhr a.24.4.1 16568 1f3aA 222 3.95e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1i1rB 181 3.97e+01 1i1rB a.26.1.1 61548 1fkmA 396 4.01e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 2b99A 156 4.04e+01 1lj2A 110 4.06e+01 h.1.13.2 73926 1rrmA 386 4.06e+01 e.22.1.2 105081 1p68A 102 4.12e+01 k.8.1.1 94158 2bvlA 543 4.15e+01 1bynA 128 4.16e+01 1rsy b.7.1.2 23193 1qspA 165 4.17e+01 1qspA a.24.10.2 16639 1ytaA 180 4.18e+01 1dlwA 116 4.30e+01 1dlyA a.1.1.1 14982 1veaA 148 4.32e+01 d.275.1.1 108529 1x3kA 152 4.34e+01 2d2sA 235 4.37e+01 1u00A 227 4.44e+01 1bzpA 153 4.50e+01 1a6m a.1.1.2 15020 1mod 154 4.61e+01 1a6m a.1.1.2 15107 1upkA 341 4.63e+01 a.118.1.15 99758 1mym 154 4.66e+01 1a6m a.1.1.2 15054 1foeA 377 4.79e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 1rtxA 123 4.89e+01 a.1.1.1 97827 1n97A 389 4.98e+01 a.104.1.1 80335 1w27A 714 5.01e+01 102m 154 5.04e+01 1a6m a.1.1.2 15073 1pyp 285 5.05e+01 1wgjA b.40.5.1 25409 1a87 321 5.09e+01 1a87 f.1.1.1 43380 1k9uA 78 5.10e+01 a.39.1.10 84348 2cwyA 94 5.13e+01 1huw 166 5.20e+01 1huw a.26.1.1 16831 1g8pA 350 5.28e+01 1g8pA c.37.1.20 60376 1alvA 173 5.32e+01 1alvA a.39.1.8 17370 1r6uA 437 5.34e+01 c.26.1.1 97163 1qwnA 1045 5.36e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 103m 154 5.36e+01 1a6m a.1.1.2 15124 2fal 147 5.45e+01 2fal a.1.1.2 15150 1u6zA 513 5.47e+01 1kfuS 184 5.59e+01 a.39.1.8 68574 1z3xA 238 5.60e+01 1kppA 145 5.72e+01 d.20.1.2 72846 1qwlA 505 5.82e+01 e.5.1.1 96483 1ikpA 613 5.82e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 2bleA 367 5.84e+01 1wdcC 156 5.87e+01 1wdcC a.39.1.5 17317 1i5pA 633 5.89e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1a8y 367 5.95e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1t6uA 117 5.98e+01 a.24.22.1 106584 1g4uS 383 5.99e+01 1g4uS a.24.11.1,c.45.1.2 16643,32691 1kutA 230 6.03e+01 d.143.1.1 73017 1pbv 195 6.12e+01 1pbv a.118.3.1 19179 1bk5A 422 6.22e+01 1bk5A a.118.1.1 19130 2cfuA 658 6.25e+01 1s35A 214 6.27e+01 a.7.1.1,a.7.1.1 98420,98421 1y8aA 332 6.29e+01 2axtH 66 6.37e+01 1b3oA 514 6.37e+01 1ak5 c.1.5.1 28640 1ia6A 441 6.44e+01 a.102.1.2 76738 1r8sE 203 6.44e+01 a.118.3.1 97248 1g87A 614 6.48e+01 a.102.1.2,b.2.2.2 83275,83276 1mba 147 6.50e+01 2fal a.1.1.2 15149 1qgpA 77 6.55e+01 1qbjA a.4.5.19 16158 1ra6A 461 6.56e+01 e.8.1.4 104879 1olsB 342 6.67e+01 c.36.1.7,c.48.1.2 93332,93333 1f4qA 165 6.72e+01 1alvA a.39.1.8 17360 1mll 154 6.73e+01 1a6m a.1.1.2 15057 2trcP 217 6.77e+01 1b9yC c.47.1.6 33051 1bqbA 301 6.82e+01 1hyt d.92.1.2 58962 2atxA 194 6.86e+01 1xeeA 91 6.86e+01 2mgb 154 6.90e+01 1a6m a.1.1.2 15102 1gm7A 209 6.97e+01 d.153.1.2 65302 1a6g 151 6.97e+01 1a6m a.1.1.2 15021 1k8kD 300 7.04e+01 d.198.2.1,d.198.2.1 68309,68310 1si6X 282 7.05e+01 1bk6A 422 7.11e+01 1bk5A a.118.1.1 19133 1a6m 151 7.23e+01 1a6m a.1.1.2 15018 2dlbA 80 7.41e+01 1b4pA 217 7.49e+01 a.45.1.1,c.47.1.5 83158,83159 2spl 154 7.52e+01 1a6m a.1.1.2 15047 1bf5A 545 7.54e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1or7A 194 7.58e+01 a.4.13.2,a.177.1.1 87332,87333 1pnkA 209 7.59e+01 1ajqA d.153.1.2 41839 1v93A 296 7.60e+01 c.1.23.1 100532 1f74A 293 7.61e+01 1nal3 c.1.10.1 29079 1k6xA 352 7.61e+01 c.2.1.2 68238 2ahrA 259 7.65e+01 1lxyA 409 7.68e+01 d.126.1.4 91154 1axn 323 7.70e+01 1avc a.65.1.1 18149 1s7zA 117 7.70e+01 a.159.3.1 98715 1wa5B 530 7.72e+01 1s9rA 410 7.73e+01 d.126.1.4 98758 2comA 124 7.73e+01 2mgg 154 7.81e+01 1a6m a.1.1.2 15069 1ee4A 423 7.81e+01 1ee4A a.118.1.1 19128 1hqoA 258 7.84e+01 1hqoA a.45.1.1,c.47.1.5 17749,33043 2f6hX 419 7.92e+01 1mlg 154 7.96e+01 1a6m a.1.1.2 15104 1mgn 154 7.97e+01 1a6m a.1.1.2 15097 1m1jA 491 8.02e+01 h.1.8.1 74369 1p2hA 571 8.04e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1dowA 205 8.06e+01 1dovA a.24.9.1 16626 1mlo 154 8.07e+01 1a6m a.1.1.2 15085 1lrzA 426 8.10e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1ji6A 589 8.15e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 2bivA 243 8.16e+01 1ymmA 191 8.21e+01 1v9kA 228 8.32e+01 d.265.1.3 108449 1e39A 571 8.35e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1ad3A 452 8.47e+01 1ad3A c.82.1.1 35335 1ai7A 209 8.49e+01 1ajqA d.153.1.2 41845 1ezjA 115 8.54e+01 1ezjA h.1.14.1 45638 2bfdB 345 8.60e+01 1x7yB 342 8.69e+01 1jae 471 8.70e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1mbd 153 8.74e+01 1a6m a.1.1.2 15033 1yisA 478 8.75e+01 1n08A 163 8.75e+01 b.43.5.1 79730 1r71A 178 8.81e+01 a.4.14.1 104823 2d7vA 162 8.86e+01