# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 2cunA 410 3.70e-01 1qdbA 473 1.15e+00 1qdbA a.138.1.3 19688 1klxA 138 1.59e+00 a.118.18.1 77440 1cpt 412 2.17e+00 1cpt a.104.1.1 18968 2sas 185 4.13e+00 2sas a.39.1.5 17258 1josA 128 5.83e+00 d.52.7.1 84191 1b0b 142 6.87e+00 2fal a.1.1.2 15010 1qr6A 584 7.50e+00 1qr6A c.2.1.7,c.58.1.3 30293,33941 1iomA 377 7.54e+00 a.103.1.1 83698 1z3xA 238 7.59e+00 1wm5A 208 8.32e+00 1e96B 203 8.56e+00 1e96B a.118.8.1 19211 1flp 142 8.59e+00 1flp a.1.1.2 15011 1moh 142 8.59e+00 1flp a.1.1.2 15012 1hh8A 213 8.61e+00 1e96B a.118.8.1 61042 1alvA 173 9.29e+00 1alvA a.39.1.8 17370 1guxA 218 1.07e+01 1guxA a.74.1.3 18388 1ytzT 107 1.17e+01 1ad6 185 1.35e+01 1guxA a.74.1.3 18390 2a9kB 223 1.45e+01 1g8pA 350 1.53e+01 1g8pA c.37.1.20 60376 1g24A 211 1.55e+01 1g24A d.166.1.1 42270 1c02A 166 1.56e+01 1qspA a.24.10.2 16633 1eg3A 261 1.62e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1g4uS 383 1.71e+01 1g4uS a.24.11.1,c.45.1.2 16643,32691 1k0dA 260 1.72e+01 a.45.1.1,c.47.1.5 67930,67931 2b7eA 59 1.75e+01 1okcA 297 1.77e+01 f.42.1.1 93248 1b4pA 217 1.78e+01 a.45.1.1,c.47.1.5 83158,83159 2cwyA 94 1.82e+01 1g6wA 261 1.89e+01 1hqoA a.45.1.1,c.47.1.5 17751,33045 1qspA 165 1.97e+01 1qspA a.24.10.2 16639 1e9gA 286 2.16e+01 1wgjA b.40.5.1 59393 1z2iA 358 2.20e+01 1fzcA 87 2.22e+01 1fzcA h.1.8.1 45590 1gq2A 555 2.25e+01 c.2.1.7,c.58.1.3 70308,70309 2mgg 154 2.32e+01 1a6m a.1.1.2 15069 2bduA 297 2.33e+01 1knqA 175 2.39e+01 c.37.1.17 72786 1io1A 398 2.49e+01 1io1A e.32.1.1 62611 1e9gB 286 2.58e+01 1wgjA b.40.5.1 59394 1mll 154 2.58e+01 1a6m a.1.1.2 15057 1xvhA 129 2.63e+01 1mod 154 2.63e+01 1a6m a.1.1.2 15107 1b3oA 514 2.69e+01 1ak5 c.1.5.1 28640 1bzpA 153 2.74e+01 1a6m a.1.1.2 15020 1f4qA 165 2.79e+01 1alvA a.39.1.8 17360 1sz9A 144 2.93e+01 a.118.9.4 106139 102m 154 2.93e+01 1a6m a.1.1.2 15073 1hzgA 295 2.95e+01 1hzgA d.194.1.1 61436 1k94A 165 2.98e+01 a.39.1.8 68333 2spl 154 3.00e+01 1a6m a.1.1.2 15047 1n6bA 473 3.01e+01 a.104.1.1 85359 1mbd 153 3.06e+01 1a6m a.1.1.2 15033 1mgn 154 3.07e+01 1a6m a.1.1.2 15097 1hq0A 295 3.08e+01 1hzgA d.194.1.1 61122 1dh3A 55 3.12e+01 1a02J h.1.3.1 45546 1mym 154 3.16e+01 1a6m a.1.1.2 15054 1yppA 286 3.22e+01 1wgjA b.40.5.1 25407 1rx0A 393 3.24e+01 a.29.3.1,e.6.1.1 98007,98008 8prkB 287 3.26e+01 1wgjA b.40.5.1 25396 1pyp 285 3.27e+01 1wgjA b.40.5.1 25409 2b99A 156 3.28e+01 1or7A 194 3.30e+01 a.4.13.2,a.177.1.1 87332,87333 1f16A 192 3.30e+01 1f16A f.1.4.1 43400 1u6zA 513 3.32e+01 1f3aA 222 3.39e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1mlg 154 3.40e+01 1a6m a.1.1.2 15104 8prkA 287 3.40e+01 1wgjA b.40.5.1 25395 2trcP 217 3.43e+01 1b9yC c.47.1.6 33051 2mgb 154 3.46e+01 1a6m a.1.1.2 15102 2spo 154 3.49e+01 1a6m a.1.1.2 15053 1mlo 154 3.50e+01 1a6m a.1.1.2 15085 1dt6A 473 3.53e+01 1dt6A a.104.1.1 18977 1a6m 151 3.59e+01 1a6m a.1.1.2 15018 103m 154 3.62e+01 1a6m a.1.1.2 15124 117eA 286 3.66e+01 1wgjA b.40.5.1 25401 169lA 164 3.70e+01 1l92 d.2.1.3 36963 1veaA 148 3.76e+01 d.275.1.1 108529 1e7wA 291 3.87e+01 c.2.1.2 59373 1o5zA 442 4.03e+01 c.59.1.2,c.72.2.2 92530,92531 1tia 279 4.08e+01 3tgl c.69.1.17 34737 1wpuA 147 4.22e+01 1a6g 151 4.23e+01 1a6m a.1.1.2 15021 1upkA 341 4.23e+01 a.118.1.15 99758 1uw4B 248 4.32e+01 a.118.1.14 100072 192l 164 4.33e+01 1l92 d.2.1.3 36815 1dkvA 699 4.34e+01 1dkvA 171l 164 4.37e+01 1l92 d.2.1.3 36962 1bynA 128 4.37e+01 1rsy b.7.1.2 23193 1sglA 209 4.38e+01 d.124.1.1 105536 1wgjA 286 4.41e+01 1wgjA b.40.5.1 25397 1hqoA 258 4.43e+01 1hqoA a.45.1.1,c.47.1.5 17749,33043 1necA 216 4.44e+01 1vfrA d.90.1.1 40249 1kfuS 184 4.57e+01 a.39.1.8 68574 1nxcA 478 4.59e+01 a.102.2.1 92293 1exnB 290 4.71e+01 1exnA a.60.7.1,c.120.1.2 18089,33359 1i4sA 147 4.75e+01 a.149.1.1 66026 1efyA 350 4.78e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1nr6A 473 4.83e+01 a.104.1.1 92085 1ikpA 613 4.85e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1l9lA 74 4.90e+01 a.64.1.1 77827 1i1rB 181 4.99e+01 1i1rB a.26.1.1 61548 1dowA 205 5.02e+01 1dovA a.24.9.1 16626 2ezl 99 5.07e+01 2ezk a.4.1.2 16026 1rsy 152 5.10e+01 1rsy b.7.1.2 23192 1p68A 102 5.13e+01 k.8.1.1 94158 1a26 361 5.19e+01 1a26 a.41.1.1,d.166.1.2 17412,42274 1q6hA 224 5.22e+01 d.26.1.1 95975 1t6uA 117 5.32e+01 a.24.22.1 106584 1cipA 353 5.33e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1fjgI 128 5.38e+01 1fjfI d.14.1.1 37559 2g09A 297 5.41e+01 1yviA 149 5.41e+01 1l5wA 796 5.42e+01 c.87.1.4 73605 1y9qA 192 5.43e+01 1xfiA 367 5.45e+01 e.50.1.1 109584 1k47A 337 5.47e+01 d.14.1.5,d.58.26.4 72040,72041 1a87 321 5.54e+01 1a87 f.1.1.1 43380 1ofcX 304 5.62e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1k6iA 352 5.63e+01 c.2.1.2 68223 1exnA 290 5.65e+01 1exnA a.60.7.1,c.120.1.2 18088,33358 1gpjA 404 5.71e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1xo1A 291 5.78e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1v97A 1332 5.79e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 2ezk 99 5.95e+01 2ezk a.4.1.2 16027 1mrzA 293 5.97e+01 b.43.5.1,c.26.1.3 91452,91453 2cfuA 658 5.99e+01 1as0 353 6.00e+01 1cipA a.66.1.1,c.37.1.8 18212,32095 1ixmA 192 6.02e+01 1ixmA d.123.1.1 41114 1zeeA 403 6.05e+01 1fiqB 350 6.08e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 2c6qA 351 6.09e+01 1aipC 196 6.10e+01 1tfe a.5.2.2,d.43.1.1 58930,58931 1xszA 356 6.14e+01 1dk0A 188 6.24e+01 1b2vA d.35.1.1 38530 1b2vA 188 6.25e+01 1b2vA d.35.1.1 38532 2c4jA 218 6.26e+01 1q6uA 245 6.27e+01 d.26.1.1 95998 1yi8A 351 6.31e+01 1fo4A 1332 6.38e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 1ee4A 423 6.40e+01 1ee4A a.118.1.1 19128 1j0mA 752 6.44e+01 a.102.3.2,b.24.1.1,b.30.5.2 83910,83911,83912 1ut8A 291 6.50e+01 a.60.7.1,c.120.1.2 99908,99909 1wmqA 147 6.51e+01 2fm9A 215 6.55e+01 1qv1A 195 6.55e+01 a.39.1.5 96347 1ji6A 589 6.61e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1bkdS 439 6.62e+01 1bkdS a.117.1.1 19111 1hwwA 1015 6.65e+01 a.8.3.1,b.30.5.6,c.6.2.1 83067,83068,83069 1ff9A 450 6.65e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1z9fA 153 6.67e+01 1ixmB 192 6.72e+01 1ixmA d.123.1.1 41115 2auaA 224 6.73e+01 2bb6A 414 6.91e+01 1htyA 1015 6.92e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 1hxkA 1015 6.97e+01 a.8.3.1,b.30.5.6,c.6.2.1 83070,83071,83072 104lA 166 7.06e+01 1l92 d.2.1.3 36969 1r6uA 437 7.06e+01 c.26.1.1 97163 1xssA 225 7.07e+01 1wa5B 530 7.14e+01 1drqA 131 7.14e+01 1drmA 1y7rA 133 7.18e+01 1dlwA 116 7.30e+01 1dlyA a.1.1.1 14982 1xg7A 250 7.30e+01 1p2hA 571 7.36e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 2d2sA 235 7.38e+01 1kfuL 699 7.39e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1qo7A 394 7.42e+01 1qo7A c.69.1.11 34697 1ois 223 7.43e+01 1a36A e.15.1.1 43267 1qbjA 81 7.47e+01 1qbjA a.4.5.19 16155 128l 164 7.50e+01 1l92 d.2.1.3 36634 1i5pA 633 7.53e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1r71A 178 7.57e+01 a.4.14.1 104823 2gh1A 301 7.58e+01 109l 164 7.65e+01 1l92 d.2.1.3 36781 2al1A 436 7.67e+01 2cy7A 396 7.68e+01 1fslA 143 7.68e+01 2gdm a.1.1.2 15229 1e39A 571 7.71e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1ytaA 180 7.74e+01 1n08A 163 7.76e+01 b.43.5.1 79730 5csmA 256 7.76e+01 5csmA a.130.1.2 19494 2d7vA 162 7.85e+01 1jfzA 154 7.90e+01 a.149.1.1 66655 1ktpA 162 7.90e+01 a.1.1.3 72990 1qwnA 1045 7.92e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1aii 323 7.99e+01 1avc a.65.1.1 18150 1bsmA 201 8.05e+01 1avmA a.2.11.1,d.44.1.1 15780,38743 1avmA 201 8.10e+01 1avmA a.2.11.1,d.44.1.1 15782,38745 1utuA 108 8.12e+01 1f6dA 376 8.15e+01 1f6dA c.87.1.3 35467 1h8mA 140 8.18e+01 1h8mA d.110.4.1 60782 1fkmA 396 8.28e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 1pa2A 306 8.28e+01 1bgp a.93.1.1 18693 2al2A 436 8.31e+01 1myf 153 8.31e+01 1a6m a.1.1.2 15147 1oneA 436 8.59e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1lu4A 136 8.62e+01 c.47.1.10 91124 1rjdA 334 8.64e+01 c.66.1.37 97558 1csmA 256 8.70e+01 5csmA a.130.1.2 19495 163l 164 8.78e+01 1l92 d.2.1.3 36658 1s7zA 117 8.79e+01 a.159.3.1 98715 1m1jA 491 8.81e+01 h.1.8.1 74369 1binA 143 8.84e+01 2gdm a.1.1.2 15231 2oneA 436 8.88e+01 4enl c.1.11.1,d.54.1.1 29203,38847 1mla 309 8.90e+01 1mla c.19.1.1,d.58.23.1 31031,39383 1ewqA 765 8.92e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1q9iA 571 8.96e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 4enl 436 8.98e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1y0pA 571 8.98e+01