# List of top-scoring protein chains for t04-100-30-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 1u1wA 298 2.01e-03 1xubA 298 3.11e-03 1tm0A 350 9.40e-03 d.21.1.3 107147 1t6kA 278 1.25e-02 1ym5A 300 6.74e-02 2gkeA 274 6.78e-02 1u9yA 284 1.39e-01 1gqzA 274 2.49e-01 d.21.1.1,d.21.1.1 83311,83312 1oe4A 247 2.67e-01 c.18.1.3 86895 1bwzA 274 2.82e-01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1hzdA 272 2.92e-01 c.14.1.3 65969 1w61A 414 3.13e-01 1xtqA 177 6.97e-01 1zcjA 463 6.98e-01 1bupA 386 7.24e-01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1kay 381 9.07e-01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1ycoA 279 9.51e-01 1ycdA 243 1.12e+00 1wc3A 219 1.39e+00 2acfA 182 1.63e+00 1o0pA 104 1.69e+00 d.58.7.1 86535 1z5hA 780 1.86e+00 1d0iA 156 2.47e+00 2dhqA c.23.13.1 31383 1tx4B 178 2.82e+00 1ctqA c.37.1.8 32045 1o97D 320 2.98e+00 c.26.2.3,c.31.1.2 81233,81234 1yuwA 554 3.43e+00 2b3nA 159 3.49e+00 1gtzA 156 3.52e+00 c.23.13.1 70539 1dkmA 410 3.81e+00 1dklA c.60.1.2 34000 1sr8A 298 3.93e+00 e.54.1.1 105959 1gz6A 319 3.94e+00 c.2.1.2 76410 1x6vA 630 4.87e+00 2b61A 377 5.18e+00 1nnsA 326 5.24e+00 c.88.1.1 85910 1sk4A 163 5.51e+00 d.118.1.1 105664 1vjrA 271 5.70e+00 c.108.1.14 100832 1zbqA 327 5.75e+00 1vdkA 466 5.91e+00 a.127.1.1 100561 1dkqA 410 5.92e+00 1dklA c.60.1.2 33998 1mqvA 125 6.07e+00 a.24.3.2 79415 2b4rO 345 6.48e+00 1dp4A 435 6.48e+00 1dp4A c.93.1.1 35710 1josA 128 6.66e+00 d.52.7.1 84191 1j5pA 253 6.98e+00 d.81.1.3,c.2.1.3 71577,83092 2blnA 305 7.39e+00 1o17A 345 7.47e+00 a.46.2.1,c.27.1.1 80765,80766 1tafB 70 8.27e+00 1tafB a.22.1.3 16482 1gmuA 143 9.40e+00 b.107.1.1,d.58.38.1 65335,65336 1w19A 160 9.46e+00 2b25A 336 9.52e+00 2aioA 269 9.67e+00 2cxcA 144 1.00e+01 1hr6B 443 1.02e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1atiA 505 1.02e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1ghpA 258 1.07e+01 1btl e.3.1.1 60520 1wab 232 1.15e+01 1wab c.23.10.3 31341 1wekA 217 1.21e+01 1w77A 228 1.24e+01 1k3tA 359 1.28e+01 c.2.1.3,d.81.1.1 72022,72023 2gm3A 175 1.31e+01 1wznA 252 1.31e+01 1m6sA 347 1.33e+01 c.67.1.1 78701 1jg8A 347 1.33e+01 1jg8A c.67.1.1 62946 1pmmA 466 1.34e+01 c.67.1.6 94901 1lox 662 1.36e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1o8bA 219 1.38e+01 c.124.1.4,d.58.40.1 81180,81181 1smlA 269 1.40e+01 1smlA d.157.1.1 42053 1lp8A 254 1.45e+01 d.165.1.1 91082 2ax3A 502 1.50e+01 1i2aA 219 1.53e+01 e.24.1.1 90660 2fw2A 260 1.55e+01 1lkkA 105 1.61e+01 1lckA d.93.1.1 40412 1pfsA 78 1.62e+01 1pfsA b.40.4.7 25391 2af4C 333 1.63e+01 1sdjA 310 1.66e+01 d.21.1.2,d.21.1.2 98807,98808 1sg4A 260 1.70e+01 1es9A 232 1.70e+01 1wab c.23.10.3 31340 1vi6A 208 1.74e+01 c.23.15.1 100736 1rzuA 485 1.77e+01 c.87.1.8 105140 1pzsA 208 1.79e+01 b.1.8.1 104397 1jcfA 344 1.80e+01 c.55.1.1,c.55.1.1 62878,62879 1wycA 392 1.83e+01 1q7bA 244 1.86e+01 c.2.1.2 96026 1v5wA 343 1.90e+01 c.37.1.11 108387 1su4A 994 1.93e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1cl8A 276 1.95e+01 1ckqA c.52.1.1 33230 2c0zA 216 1.97e+01 1xhlA 297 1.97e+01 c.2.1.2 109591 1rl0A 255 2.01e+01 1nbwA 607 2.01e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1tueB 218 2.02e+01 b.91.1.1 107324 1t6cA 315 2.03e+01 c.55.1.8,c.55.1.8 106558,106559 1h65A 270 2.16e+01 c.37.1.8 65640 1y791 680 2.17e+01 1jc9A 269 2.18e+01 d.171.1.1 66490 1nt2A 210 2.20e+01 c.66.1.3 86149 1i1nA 226 2.25e+01 c.66.1.7 71102 1mxmA 254 2.26e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1yckA 175 2.29e+01 1g5cA 170 2.31e+01 1g5cA c.53.2.1 60264 1e3pA 757 2.35e+01 1e3hA a.4.9.1,b.40.4.5,d.14.1.4,d.14.1.4,d.52.3.1,d.101.1.1,d.101.1.1 16258,25328,37574,37575,38811,40697,40698 1eulA 994 2.37e+01 1eulA 2fbmA 291 2.38e+01 1u0kA 288 2.38e+01 d.21.1.2,d.21.1.2 107547,107548 1r5eA 115 2.39e+01 1u6zA 513 2.47e+01 1lyqA 104 2.51e+01 b.1.18.17 78302 1oa8A 133 2.54e+01 b.145.1.1 92698 1ogsA 497 2.59e+01 b.71.1.2,c.1.8.3 86997,86998 1rsy 152 2.60e+01 1rsy b.7.1.2 23192 1uteA 313 2.60e+01 1uteA d.159.1.1 42078 1v58A 241 2.68e+01 c.47.1.9,d.17.3.1 108371,108372 1u7nA 336 2.69e+01 c.77.1.4 107726 2azpA 318 2.77e+01 1kr7A 110 2.81e+01 a.1.1.4 72890 1ek4A 418 2.93e+01 1dd8A c.95.1.1,c.95.1.1 59436,59437 1yt5A 258 2.95e+01 1evhA 112 2.98e+01 1evhA b.55.1.4 26997 2a35A 215 2.98e+01 1b93A 152 3.00e+01 1b93A c.24.1.2 31507 1jg1A 235 3.03e+01 c.66.1.7 66661 1drw 273 3.07e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1m5yA 408 3.11e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 2bywA 418 3.11e+01 2cx7A 130 3.20e+01 1wybA 392 3.26e+01 1fobA 334 3.27e+01 c.1.8.3 83255 1guzA 310 3.28e+01 c.2.1.5,d.162.1.1 65586,65587 1rypE 242 3.32e+01 1rypE d.153.1.4 41936 1v8hA 107 3.34e+01 1i6iA 366 3.37e+01 1bg2 c.37.1.9 61844 1uf3A 228 3.40e+01 d.159.1.6 99317 1fmtA 314 3.40e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 2fr2A 172 3.41e+01 2f62A 161 3.41e+01 1pyoA 167 3.44e+01 c.17.1.1 95370 1pq4A 291 3.60e+01 c.92.2.2 94995 1olmA 403 3.64e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1n2eA 300 3.73e+01 c.26.1.4 85268 2a0kA 161 3.77e+01 2f2tA 161 3.77e+01 1vh5A 148 3.79e+01 d.38.1.5 100642 1xizA 159 3.79e+01 1tag 324 3.84e+01 1cipA a.66.1.1,c.37.1.8 18197,32080 2cb2A 318 3.85e+01 1kpf 126 3.89e+01 1kpf d.13.1.1 37507 1z41A 338 3.92e+01 1hp1A 516 4.00e+01 d.114.1.1,d.159.1.2 70976,70977 2afwA 329 4.01e+01 1yljA 263 4.02e+01 1ru0A 105 4.03e+01 1nkqA 259 4.05e+01 d.177.1.1 103862 1tq8A 163 4.06e+01 c.26.2.4 107204 1npsA 88 4.06e+01 1prs b.11.1.1 23622 1w6uA 302 4.07e+01 1q79A 514 4.10e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 2ae2A 260 4.12e+01 1bdb c.2.1.2 29945 1wtaA 275 4.22e+01 1j0aA 325 4.23e+01 c.79.1.1 83871 2bvbA 137 4.23e+01 1h2rL 534 4.26e+01 1h2rL e.18.1.1 43298 2bv5A 282 4.28e+01 2a84A 300 4.30e+01 1o6uA 403 4.33e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1rm4A 337 4.38e+01 c.2.1.3,d.81.1.1 105000,105001 1kkcA 221 4.38e+01 a.2.11.1,d.44.1.1 68660,68661 1wpgA 994 4.39e+01 1k77A 260 4.41e+01 c.1.15.5 72096 1zvnA 99 4.41e+01 1ubkL 534 4.43e+01 e.18.1.1 88422 1oj6A 151 4.46e+01 a.1.1.2 93088 1wuiL 534 4.47e+01 1m4jA 142 4.48e+01 d.109.1.2 78602 1r5jA 337 4.50e+01 c.77.1.5 97097 1ewqA 765 4.60e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1pwxA 254 4.64e+01 c.2.1.2 95262 1ri5A 298 4.65e+01 c.66.1.34 97502 1kid 203 4.66e+01 1derA c.8.5.1 30771 1xvsA 126 4.68e+01 1dpgA 485 4.69e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1whxA 111 4.79e+01 1ass 159 4.87e+01 1a6dA c.8.5.2 30818 1kfwA 435 4.99e+01 c.1.8.5,d.26.3.1 77376,77377 1l0wA 580 5.01e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1nnxA 109 5.19e+01 b.40.10.1 92013 1y8qB 640 5.19e+01 1gy8A 397 5.21e+01 c.2.1.2 83376 1hyuA 521 5.22e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1uisA 231 5.22e+01 d.22.1.1 99431 1oo0A 147 5.29e+01 d.232.1.1 87182 1n0wA 243 5.39e+01 c.37.1.11 79772 2lhb 149 5.39e+01 2fal a.1.1.2 15597 2g6yA 217 5.39e+01 1qx4A 274 5.43e+01 b.43.4.2,c.25.1.1 104624,104625 2b6eA 146 5.47e+01 1snzA 344 5.51e+01 b.30.5.4 98930 2b3yA 888 5.57e+01 2arsA 262 5.60e+01 1iznB 277 5.60e+01 e.43.1.2 83848 2aliA 158 5.61e+01 1bebA 162 5.67e+01 1bebA b.60.1.1 27115 1f2rI 100 5.70e+01 1c9fA d.15.2.1 37641 1us0A 316 5.71e+01 c.1.7.1 99850 1esc 306 5.71e+01 1esc c.23.10.1 31334 1q15A 503 5.73e+01 c.26.2.1,d.153.1.1 95538,95539 2a8yA 270 5.76e+01 1kq3A 376 5.80e+01 e.22.1.2 68790 1okjA 251 5.81e+01 c.55.1.9,c.55.1.9 103998,103999 1lm6A 215 5.89e+01 d.167.1.1 84628 1udxA 416 5.91e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1hbnC 248 5.99e+01 1mroC d.58.31.1 60902 1zynA 202 6.00e+01 2dhqA 146 6.01e+01 2dhqA c.23.13.1 31382 1tv8A 340 6.01e+01 c.1.28.3 107352 1i9gA 280 6.07e+01 c.66.1.13 62090 1i1iP 681 6.11e+01 1i1iP d.92.1.5 40297 1i7pA 274 6.13e+01 b.43.4.2,c.25.1.1 66048,66049 1jf9A 408 6.14e+01 1c0nA c.67.1.3 62931 2gtrA 261 6.23e+01 1kmqA 184 6.24e+01 c.37.1.8 84412 2a6aA 218 6.25e+01 2aneA 125 6.27e+01 1auvA 311 6.31e+01 1auvA c.30.1.5,d.142.1.3 31723,41558 1izmA 184 6.32e+01 a.199.1.1 90725 1wteA 272 6.38e+01 1h8eD 482 6.39e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1q7sA 117 6.44e+01 c.131.1.1 96055 1zmtA 254 6.46e+01 1p7gA 222 6.47e+01 a.2.11.1,d.44.1.1 94223,94224 1ixlA 131 6.49e+01 d.38.1.5 90717 2etvA 346 6.50e+01 1s50A 259 6.50e+01 1ab8A 220 6.58e+01 1azsA d.58.29.1 39414 1yozA 116 6.58e+01 1dazC 99 6.66e+01 1hvc b.50.1.1 26501 1yzhA 214 6.69e+01 1ur4A 399 6.72e+01 1s12A 94 6.77e+01 1q87A 221 6.79e+01 e.47.1.1 96192 1o70A 324 6.79e+01 b.118.1.1,b.118.1.1 81115,81116 1ukkA 142 6.87e+01 d.227.1.1 99491 1je5A 206 6.91e+01 1je5A b.40.4.7 62909 1n4xH 120 6.93e+01 b.1.1.1 85324 1r3eA 309 6.95e+01 b.122.1.1,d.265.1.2 96907,96908 1o0iA 138 6.98e+01 d.38.1.5 86532 3proC 166 6.98e+01 3proC d.52.1.1,d.52.1.1 38812,38813 2cmd 312 7.00e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1dwkA 156 7.05e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 2f8mA 244 7.06e+01 1szoA 257 7.07e+01 c.14.1.3 106164 1r3sA 367 7.08e+01 c.1.22.1 96963 1srqA 341 7.10e+01 e.55.1.1 105967 2fuvA 549 7.20e+01 1wudA 89 7.21e+01 1on3A 523 7.22e+01 c.14.1.4,c.14.1.4 87107,87108 1ry6A 360 7.27e+01 c.37.1.9 98090 1uroA 367 7.27e+01 1uroA c.1.22.1 29675 1vliA 385 7.30e+01 b.85.1.1,c.1.10.6 108830,108831 1ng2A 193 7.30e+01 b.34.2.1,b.34.2.1 85660,85661 1yzfA 195 7.32e+01 1o6sB 105 7.32e+01 b.1.6.1 81096 1jbkA 195 7.41e+01 c.37.1.20 71631 2g84A 197 7.41e+01 2aeeA 211 7.51e+01 1eexA 554 7.54e+01 1dioA c.1.19.3 29650 1ecfA 504 7.56e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1obpA 159 7.58e+01 1obpA b.60.1.1 27092 1ztdA 133 7.60e+01 1hn2A 159 7.60e+01 b.60.1.1 65890 1gt1A 159 7.60e+01 b.60.1.1 90515 1qi7A 253 7.65e+01 1qi7A d.165.1.1 42210 1uz5A 402 7.68e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1jug 125 7.75e+01 3lzt d.2.1.2 36587 1wc9A 169 7.76e+01 2cw8A 537 7.77e+01 1wz8A 264 7.87e+01 1g7sA 594 7.88e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 2ghsA 326 7.89e+01 1jogA 146 7.93e+01 a.24.16.2 77142 1nepA 130 7.93e+01 b.1.18.7 80440 1th8A 145 7.93e+01 d.122.1.3 106908 1a8i 842 7.94e+01 1a8i c.87.1.4 35490 1iicA 422 7.98e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 2bw8A 227 7.98e+01 1ualA 274 8.04e+01 c.116.1.4 88383 2bjdA 101 8.05e+01 2bgkA 278 8.06e+01 2c8mA 262 8.11e+01 1yqfA 203 8.14e+01 1gv3A 248 8.16e+01 a.2.11.1,d.44.1.1 70585,70586 1ofuX 119 8.18e+01 c.37.1.22 86976 2b0tA 738 8.18e+01 1psuA 140 8.20e+01 d.38.1.5 88285 2a50B 168 8.25e+01 2ex4A 241 8.32e+01 1uqrA 154 8.32e+01 c.23.13.1 99779 1o2dA 371 8.34e+01 e.22.1.2 86591 1h7wA 1025 8.38e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1rypD 241 8.38e+01 1rypD d.153.1.4 41935 1ym0A 238 8.38e+01 1vfsA 386 8.40e+01 b.49.2.2,c.1.6.1 108584,108585 1d8wA 426 8.45e+01 1de5A c.1.15.2 29394 1s4bP 674 8.45e+01 d.92.1.5 105252 1ash 150 8.47e+01 1ash a.1.1.2 15622 2fs2A 151 8.49e+01 1ekjA 221 8.51e+01 1ekjB c.53.2.1 33364 2c26A 260 8.52e+01 1dtoA 221 8.53e+01 1dtoA b.91.1.1 28405 1iz0A 302 8.59e+01 b.35.1.2,c.2.1.1 83821,83822 1rw7A 243 8.67e+01 c.23.16.2 97963 1h05A 146 8.68e+01 c.23.13.1 76433 1qz9A 416 8.73e+01 c.67.1.3 96621 2c4xA 260 8.76e+01 1yphC 131 8.80e+01 1ox6A 555 8.80e+01 c.1.2.1,c.23.16.1 87505,87506 1d8cA 723 8.81e+01 1d8cA c.1.13.1 29325 1mldA 314 8.82e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1rzhL 281 8.89e+01 f.26.1.1 98164 1qjtA 99 8.92e+01 1eh2 a.39.1.6 17335 1zd9A 188 8.94e+01