# List of top-scoring protein chains for t06-100-30-str2-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 2gkeA 274 1.60e-06 1gqzA 274 2.09e-06 d.21.1.1,d.21.1.1 83311,83312 1sdjA 310 1.42e-02 d.21.1.2,d.21.1.2 98807,98808 1xubA 298 3.31e-02 1qyaA 307 2.04e-01 d.21.1.2,d.21.1.2 104653,104654 1o97D 320 4.06e-01 c.26.2.3,c.31.1.2 81233,81234 1lj5A 379 1.03e+00 e.1.1.1 73928 1erjA 393 1.37e+00 1erjA b.69.4.1 27660 1hzdA 272 1.40e+00 c.14.1.3 65969 1bkb 136 1.98e+00 1bkb b.34.5.2,b.40.4.5 24609,25341 1oe4A 247 2.58e+00 c.18.1.3 86895 1dhkB 223 3.17e+00 1led b.29.1.1 24157 1o17A 345 3.90e+00 a.46.2.1,c.27.1.1 80765,80766 1gteA 1025 4.11e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1josA 128 4.58e+00 d.52.7.1 84191 1mqoA 227 4.68e+00 d.157.1.1 103846 1ca1 370 4.92e+00 1ca1 a.124.1.1,b.12.1.3 19340,23648 1ejxC 567 5.11e+00 b.92.1.1,c.1.9.2 83184,83185 1gjwA 637 5.28e+00 b.71.1.1,c.1.8.1 60582,60583 1crzA 403 5.60e+00 1crzA b.68.4.1,c.51.2.1 27629,33211 1e4mM 501 5.97e+00 1e70M c.1.8.4 59226 1bupA 386 6.56e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1hdkA 141 6.64e+00 b.29.1.3 65807 1vdkA 466 6.68e+00 a.127.1.1 100561 1hl9A 449 6.93e+00 b.71.1.3,c.1.8.11 90650,90651 1tg7A 971 6.94e+00 1yg9A 330 7.38e+00 1oxdA 227 7.99e+00 d.22.1.1 93687 1iz6A 138 8.02e+00 b.34.5.2,b.40.4.5 76976,76977 1omrA 201 8.34e+00 a.39.1.5 93349 1nnsA 326 9.03e+00 c.88.1.1 85910 1v7wA 807 9.07e+00 a.102.1.4,b.30.5.3 108411,108412 1gk9B 557 9.47e+00 1ryaA 160 9.78e+00 d.113.1.5 105122 1d2sA 170 1.02e+01 1d2sA b.29.1.4 24221 1jofA 365 1.09e+01 b.69.10.1 71775 1mh1 186 1.15e+01 1eesA c.37.1.8 32002 1n9pA 207 1.15e+01 b.1.18.16 80343 1i2aA 219 1.17e+01 e.24.1.1 90660 1fonA 240 1.18e+01 5ptp b.47.1.2 26231 1lm4A 194 1.22e+01 d.167.1.1 84626 1sk4A 163 1.29e+01 d.118.1.1 105664 1w6uA 302 1.37e+01 1q79A 514 1.41e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1p4uA 153 1.46e+01 b.1.10.2 87780 1sg4A 260 1.48e+01 2bjqA 345 1.49e+01 1d3bA 75 1.49e+01 1d3bA b.38.1.1 24798 1gtzA 156 1.52e+01 c.23.13.1 70539 1x82A 190 1.55e+01 1guzA 310 1.57e+01 c.2.1.5,d.162.1.1 65586,65587 1t0pB 86 1.57e+01 1avbA 226 1.57e+01 1led b.29.1.1 24158 1mqvA 125 1.58e+01 a.24.3.2 79415 1xe7A 203 1.63e+01 1v58A 241 1.64e+01 c.47.1.9,d.17.3.1 108371,108372 1m93B 245 1.64e+01 1pjxA 314 1.69e+01 b.68.6.1 104167 1h4aX 173 1.71e+01 b.11.1.1,b.11.1.1 83479,83480 1js8A 394 1.78e+01 a.86.1.1,b.112.1.1 67219,67220 1kv7A 488 1.79e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 2sli 679 1.89e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1ut1A 148 1.94e+01 b.2.3.6 108014 1gvhA 396 1.94e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1oa4A 222 1.96e+01 b.29.1.11 86731 1ep3B 262 2.06e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1g291 372 2.06e+01 1g291 1feuA 206 2.09e+01 1feuA b.53.1.1 59801 1x6zA 123 2.10e+01 1g5cA 170 2.10e+01 1g5cA c.53.2.1 60264 1cl8A 276 2.18e+01 1ckqA c.52.1.1 33230 1pgs 314 2.23e+01 1pgs b.121.1.1,b.121.1.1 23653,23654 1hyvA 166 2.35e+01 1b9dA c.55.3.2 61424 1iq6A 134 2.35e+01 d.38.1.4 76755 1qwtA 255 2.38e+01 b.26.1.3 96501 1tafB 70 2.39e+01 1tafB a.22.1.3 16482 1mo9A 523 2.39e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1b12A 248 2.43e+01 1b12A b.87.1.2 28388 1j48A 110 2.45e+01 b.1.7.1 84112 1lm8V 160 2.45e+01 b.3.3.1 74035 1mrzA 293 2.48e+01 b.43.5.1,c.26.1.3 91452,91453 1oygA 447 2.54e+01 b.67.2.2 93726 1rtu 114 2.55e+01 9rnt d.1.1.4 36139 1b6a 478 2.55e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1g0sA 209 2.65e+01 1g0sA d.113.1.1 60187 1t6cA 315 2.66e+01 c.55.1.8,c.55.1.8 106558,106559 1kid 203 2.68e+01 1derA c.8.5.1 30771 2blnA 305 2.70e+01 1suwA 249 2.74e+01 e.52.1.1 106027 1kdgA 546 2.76e+01 c.3.1.2,d.16.1.1 77337,77338 1ogoX 574 2.80e+01 b.133.1.1,b.80.1.10 92925,92926 1r7lA 110 2.86e+01 d.277.1.1 104837 1e2wA 251 2.88e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 1r5mA 425 2.93e+01 1ekjA 221 2.96e+01 1ekjB c.53.2.1 33364 1n26A 325 3.00e+01 b.1.1.4,b.1.2.1,b.1.2.1 79850,79851,79852 1fobA 334 3.03e+01 c.1.8.3 83255 1kfwA 435 3.09e+01 c.1.8.5,d.26.3.1 77376,77377 1kshB 152 3.10e+01 b.1.18.8 72915 1whi 122 3.16e+01 1whi b.39.1.1 24810 1gmuA 143 3.19e+01 b.107.1.1,d.58.38.1 65335,65336 1rzuA 485 3.21e+01 c.87.1.8 105140 1o0xA 262 3.29e+01 d.127.1.1 80755 1kr7A 110 3.34e+01 a.1.1.4 72890 1a8d 452 3.38e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1sz2A 332 3.40e+01 1lf6A 684 3.43e+01 a.102.1.5,b.30.5.5 77918,77919 1q7sA 117 3.46e+01 c.131.1.1 96055 1hx0A 496 3.49e+01 b.71.1.1,c.1.8.1 61346,61347 1qmyA 167 3.55e+01 1qmyA d.3.1.2 37094 1n2eA 300 3.61e+01 c.26.1.4 85268 1pq4A 291 3.66e+01 c.92.2.2 94995 1ej8A 140 3.67e+01 1qupA b.1.8.1 22300 1epfA 191 3.67e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 1kmqA 184 3.67e+01 c.37.1.8 84412 1nzyA 269 3.68e+01 1nzyA c.14.1.3 30903 1ghpA 258 3.68e+01 1btl e.3.1.1 60520 1gqeA 365 3.72e+01 e.38.1.1 70351 1aym2 261 3.81e+01 1aym2 1kmtA 141 3.86e+01 b.1.18.8 77442 1j5pA 253 3.87e+01 d.81.1.3,c.2.1.3 71577,83092 1es9A 232 3.88e+01 1wab c.23.10.3 31340 1hxhA 253 3.88e+01 c.2.1.2 76725 1mp9A 198 3.96e+01 d.129.1.1,d.129.1.1 91385,91386 1gr3A 160 4.01e+01 b.22.1.1 65476 1hbnC 248 4.05e+01 1mroC d.58.31.1 60902 1tdzA 272 4.07e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1h0hB 214 4.15e+01 d.58.1.5 76437 1pyoA 167 4.17e+01 c.17.1.1 95370 1h65A 270 4.23e+01 c.37.1.8 65640 1e42A 258 4.24e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1vrmA 325 4.26e+01 1hjsA 332 4.29e+01 c.1.8.3 83492 1dp4A 435 4.31e+01 1dp4A c.93.1.1 35710 1qi9A 556 4.32e+01 1qhbA a.111.1.2 19053 1e6uA 321 4.32e+01 1bsvA c.2.1.2 29805 1o8bA 219 4.36e+01 c.124.1.4,d.58.40.1 81180,81181 1jcfA 344 4.44e+01 c.55.1.1,c.55.1.1 62878,62879 1prxA 224 4.47e+01 1prxA c.47.1.10 33076 1pzsA 208 4.49e+01 b.1.8.1 104397 1cojA 212 4.54e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 2nlrA 234 4.56e+01 2nlrA b.29.1.11 24344 1ng2A 193 4.67e+01 b.34.2.1,b.34.2.1 85660,85661 1ftrA 296 4.68e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1ejfA 125 4.69e+01 1ejfA b.15.1.2 23683 1exqA 154 4.70e+01 1b9dA c.55.3.2 33646 1hmt 132 4.79e+01 1hmt b.60.1.2 27169 1ok7A 366 4.93e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1k12A 158 4.96e+01 b.18.1.15 71978 1ri5A 298 4.98e+01 c.66.1.34 97502 1dykA 394 5.02e+01 1dykA b.29.1.4,b.29.1.4 24223,24224 1ckmA 330 5.07e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1kk1A 410 5.13e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2bhuA 602 5.17e+01 1ry9A 145 5.22e+01 d.198.1.1 98094 1tg0A 68 5.25e+01 1m2xA 223 5.28e+01 d.157.1.1 84764 1tyv 542 5.30e+01 1tyv b.80.1.6 28038 1drw 273 5.35e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1q25A 432 5.41e+01 b.64.1.1,b.64.1.1,b.64.1.1 104493,104494,104495 1bw3 125 5.48e+01 1bw4 b.52.1.2 26899 1v54F 98 5.57e+01 g.41.5.3 100327 2sak 121 5.57e+01 2sak d.15.5.1 37711 1ee8A 266 5.64e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1mldA 314 5.65e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1amuA 563 5.73e+01 1amuA e.23.1.1 43351 1gyvA 120 5.73e+01 b.1.10.2 70790 1sr8A 298 5.73e+01 e.54.1.1 105959 1qwkA 317 5.80e+01 c.1.7.1 96482 1r5eA 115 5.81e+01 1s1dA 331 5.90e+01 b.67.3.1 98344 1sr4C 166 5.90e+01 b.42.2.1 105950 1dzkA 157 5.90e+01 1obpA b.60.1.1 27096 1k77A 260 5.93e+01 c.1.15.5 72096 1pjcA 361 5.98e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1mxmA 254 6.00e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1smd 496 6.07e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1pujA 282 6.09e+01 c.37.1.8 88294 1c4rA 182 6.09e+01 1c4rA b.29.1.4 24229 1nt2A 210 6.29e+01 c.66.1.3 86149 2bo9B 222 6.39e+01 1e7uA 961 6.39e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1wp5A 323 6.42e+01 1cjcA 460 6.42e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1mkaA 171 6.53e+01 1mkaA d.38.1.2 38543 1roaA 122 6.53e+01 d.17.1.2 105024 1o7nB 194 6.54e+01 d.17.4.4 81164 1nlnA 204 6.55e+01 d.3.1.7 91962 1b93A 152 6.55e+01 1b93A c.24.1.2 31507 1yfqA 342 6.56e+01 1s12A 94 6.57e+01 1kq3A 376 6.58e+01 e.22.1.2 68790 1pwxA 254 6.69e+01 c.2.1.2 95262 1nn6A 228 6.70e+01 b.47.1.2 85893 1wz8A 264 6.71e+01 1i1nA 226 6.75e+01 c.66.1.7 71102 1gweA 503 6.75e+01 e.5.1.1 70667 1f3uB 171 6.87e+01 1f3uB b.65.1.1 27525 1ju3A 583 6.90e+01 b.18.1.13,c.69.1.21 67300,67301 1ly2A 130 7.03e+01 g.18.1.1,g.18.1.1 74335,74336 1i4uA 181 7.05e+01 b.60.1.1 61732 1ltqA 301 7.16e+01 c.108.1.9,c.37.1.1 78208,78209 1fuxA 166 7.16e+01 1fjjA b.17.1.2 60034 1ogsA 497 7.18e+01 b.71.1.2,c.1.8.3 86997,86998 1p5vA 235 7.19e+01 b.1.11.1,b.7.2.1 87812,87813 1r44A 202 7.23e+01 d.65.1.4 104787 1qxyA 252 7.25e+01 d.127.1.1 96565 1szoA 257 7.32e+01 c.14.1.3 106164 2gfaA 119 7.32e+01 1grj 158 7.33e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1h30A 422 7.36e+01 b.29.1.4,b.29.1.4 76604,76605 1tq5A 242 7.49e+01 1gzcA 239 7.65e+01 b.29.1.1 70803 1h6kA 757 7.82e+01 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 2gkpA 167 7.83e+01 1a99A 344 7.89e+01 1pot c.94.1.1 35812 1gegA 256 7.97e+01 1ybvA c.2.1.2 29888 1q2bA 434 7.98e+01 b.29.1.10 95624 1ab8A 220 8.04e+01 1azsA d.58.29.1 39414 1iicA 422 8.08e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1ry6A 360 8.15e+01 c.37.1.9 98090 1gkmA 509 8.19e+01 a.127.1.2 70228 1mpp 361 8.32e+01 2rmpA b.50.1.2 26856 1qnaA 200 8.36e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1kl9A 182 8.38e+01 b.40.4.5 72681 1u5xA 140 8.42e+01 1sg6A 393 8.44e+01 e.22.1.1 105522 1uebA 184 8.52e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1fh0A 221 8.56e+01 1cs8A d.3.1.1 59832 1tuhA 156 8.58e+01 d.17.4.11 107345 1rc6A 261 8.61e+01 b.82.1.11 97287 1jf9A 408 8.62e+01 1c0nA c.67.1.3 62931 1ncwH 222 8.66e+01 b.1.1.1,b.1.1.2 85555,85556 1ti6B 274 8.68e+01 b.3.5.1,d.58.1.5 106976,106977 1te5A 257 8.69e+01 d.153.1.1 106795 1fi4A 416 8.73e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 1m8uA 173 8.73e+01 b.11.1.1,b.11.1.1 91233,91234 1at0 145 8.82e+01 1at0 b.86.1.1 28374 1qz9A 416 8.84e+01 c.67.1.3 96621 1jbkA 195 8.86e+01 c.37.1.20 71631 1rqpA 299 8.95e+01 b.141.1.1,c.132.1.1 97754,97755