# 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 1bf2 750 8.40e-01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1vjvA 415 1.06e+00 d.3.1.9 108632 1mwmA 320 1.39e+00 c.55.1.1,c.55.1.1 79580,79581 1eu3A 210 1.60e+00 1an8 b.40.2.2,d.15.6.1 25206,37795 1gj7B 253 1.69e+00 1c8uA 285 1.69e+00 1c8uA d.38.1.3,d.38.1.3 38547,38548 1wkaA 147 1.73e+00 1n7oA 721 1.79e+00 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1xwvA 129 2.68e+00 2fpeA 62 2.98e+00 1q8rA 120 3.16e+00 d.79.6.1 96225 1el6A 219 3.20e+00 1el6B d.182.1.1 42606 1x82A 190 3.25e+00 2cw8A 537 3.35e+00 1gy7A 125 3.37e+00 d.17.4.2 70738 1xn5A 146 3.65e+00 1wwzA 159 3.77e+00 1q6uA 245 3.78e+00 d.26.1.1 95998 2f9nA 245 4.03e+00 1m1zA 513 4.42e+00 c.26.2.1,d.153.1.1 78457,78458 2anyA 241 4.59e+00 1jsdA 319 5.19e+00 b.19.1.2 63258 1sawA 225 5.42e+00 2fsrA 195 5.71e+00 1a3aA 148 6.01e+00 1a3aA d.112.1.1 40917 2fytA 340 6.14e+00 2fomB 185 6.78e+00 1bia 321 7.12e+00 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1wruA 379 7.17e+00 1brwA 433 7.38e+00 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1avaC 181 7.50e+00 1avaC b.42.4.1 25604 1c9oA 66 7.52e+00 1mjc b.40.4.5 25325 1y1oA 203 7.96e+00 1rcqA 357 7.99e+00 b.49.2.2,c.1.6.1 104882,104883 1vkdA 338 8.09e+00 b.67.2.4 108644 1n62C 288 8.18e+00 d.87.2.1,d.145.1.3 80094,80095 1os8A 223 8.37e+00 b.47.1.1 93481 1b0uA 262 8.38e+00 1b0uA c.37.1.12 32370 1a8q 274 8.56e+00 1brt c.69.1.12 34702 2evbA 74 9.03e+00 1tdhA 364 9.08e+00 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1i8aA 189 9.86e+00 1i82A b.1.9.2 61951 1c7sA 858 1.00e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1ahsA 126 1.00e+01 1ahsA b.19.1.1 23794 1fjrA 195 1.02e+01 1fjrA b.102.1.1 59855 1wkrA 340 1.02e+01 b.50.1.2 109395 2bwqA 129 1.12e+01 1vqoU 66 1.19e+01 2b3gA 123 1.21e+01 1t9fA 187 1.21e+01 b.42.6.1 106710 1txqA 93 1.22e+01 1vhsA 175 1.23e+01 d.108.1.1 100698 1o6aA 96 1.25e+01 b.139.1.1 92562 1snrA 341 1.28e+01 b.6.1.3,b.6.1.3 105823,105824 1o54A 277 1.32e+01 c.66.1.13 92482 1mpp 361 1.34e+01 2rmpA b.50.1.2 26856 1ogoX 574 1.37e+01 b.133.1.1,b.80.1.10 92925,92926 1g4mA 393 1.37e+01 b.1.18.11,b.1.18.11 65143,65144 1f3lA 321 1.40e+01 1g6q2 c.66.1.6 59630 1se8A 301 1.42e+01 b.40.4.3 105448 1ze3D 125 1.44e+01 1kk1A 410 1.44e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1hpi 71 1.46e+01 1ckuA g.35.1.1 44995 3tss 194 1.47e+01 1aw7A b.40.2.2,d.15.6.1 25160,37749 1vr9A 213 1.49e+01 2mcm 112 1.50e+01 2mcm b.1.7.1 22207 1khoA 370 1.53e+01 a.124.1.1,b.12.1.3 72489,72490 4dpvZ 584 1.53e+01 2cas b.121.5.2 23377 1ykwA 435 1.54e+01 1ts9A 102 1.55e+01 2bhgA 209 1.57e+01 1gkpA 458 1.57e+01 b.92.1.3,c.1.9.6 70231,70232 1vj0A 380 1.60e+01 b.35.1.2,c.2.1.1 100786,100787 1lshA 1056 1.60e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1tkiA 321 1.61e+01 1tkiA d.144.1.7 41638 1v5vA 401 1.61e+01 1inlA 296 1.61e+01 c.66.1.17 66220 2f91A 237 1.62e+01 2b3wA 168 1.66e+01 1vjlA 164 1.67e+01 d.257.1.1 100822 1qwzA 235 1.72e+01 b.100.1.1 96510 1m4iA 181 1.73e+01 d.108.1.1 74457 1is3A 135 1.76e+01 b.29.1.3 76773 2f8mA 244 1.78e+01 1jsmA 325 1.78e+01 b.19.1.2 63264 1iq6A 134 1.81e+01 d.38.1.4 76755 2f9cA 334 1.86e+01 1zlqA 502 1.87e+01 1z5bA 469 1.89e+01 1vq0A 302 1.90e+01 1om1A 332 1.92e+01 d.144.1.7 93347 1uc2A 481 1.94e+01 d.261.1.1 99161 1g7sA 594 1.97e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1nz0A 118 1.97e+01 d.14.1.2 86433 2d0oB 125 1.98e+01 1q6hA 224 1.99e+01 d.26.1.1 95975 1xovA 326 1.99e+01 1rm6A 769 2.03e+01 1umgA 362 2.03e+01 d.280.1.1 107956 1r4xA 275 2.04e+01 b.1.10.3,d.105.1.2 97054,97055 1wdtA 665 2.09e+01 1rz1A 161 2.10e+01 b.45.1.2 98124 1qg3A 195 2.17e+01 1qg3A b.1.2.1,b.1.2.1 21993,21994 2c1iA 431 2.18e+01 1x9iA 302 2.25e+01 1ad2 228 2.25e+01 1ad2 e.24.1.1 43353 1t1gA 364 2.25e+01 c.41.1.2 106246 1qcsA 211 2.26e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1z7gA 217 2.26e+01 2a1kA 233 2.26e+01 1um5L 219 2.27e+01 1bdfA 235 2.28e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1eaiC 61 2.28e+01 1eaiC g.22.1.1 44894 1lr7A 74 2.28e+01 g.3.11.3,g.68.1.1 84679,84680 1wosA 364 2.37e+01 b.44.2.1,d.250.1.1 109468,109469 1vkyA 347 2.39e+01 e.53.1.1 108696 1pgl2 370 2.45e+01 1s55A 156 2.47e+01 1c1yB 77 2.49e+01 1c1yB d.15.1.5 37618 1ymiA 334 2.51e+01 1gpc 218 2.55e+01 1gpc b.40.4.7 25393 1f53A 84 2.56e+01 1f53A b.11.1.4 23632 1gcqC 70 2.57e+01 1gcpA b.34.2.1 60436 1jb7A 495 2.57e+01 1otcA b.40.4.3,b.40.4.3,b.40.4.3 62836,62837,62838 1ne7A 289 2.60e+01 c.124.1.1 91833 1v6pA 62 2.61e+01 1pylA 97 2.67e+01 d.1.1.2 104391 1ev7A 317 2.69e+01 1ev7B c.52.1.9 33315 1ym0A 238 2.73e+01 1jovA 270 2.77e+01 b.30.5.7 84192 1yphE 97 2.78e+01 1bywA 110 2.80e+01 1bywA d.110.3.6 40912 1qwrA 319 2.82e+01 b.82.1.3 96491 1dwkA 156 2.83e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1txoA 237 2.84e+01 1sluA 142 2.87e+01 1sluA b.16.1.1 23685 1zhrA 238 2.87e+01 1te5A 257 2.89e+01 d.153.1.1 106795 1udzA 182 2.90e+01 b.51.1.1 99239 1knwA 425 2.92e+01 b.49.2.3,c.1.6.1 90969,90970 1f06A 320 2.97e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1mzyA 333 2.98e+01 b.6.1.3,b.6.1.3 103848,103849 1vgjA 184 3.04e+01 2ff4A 388 3.04e+01 1p42A 270 3.05e+01 d.14.1.7,d.14.1.7 87754,87755 1cqxA 403 3.08e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1n2aA 201 3.09e+01 a.45.1.1,c.47.1.5 91553,91554 1kcqA 104 3.11e+01 d.109.1.1 68449 1tu5A 746 3.14e+01 1a2yA 107 3.15e+01 8fabA b.1.1.1 19926 1wj9A 211 3.20e+01 1tl2A 236 3.22e+01 1tl2A b.67.1.1 27541 4pgaA 337 3.23e+01 4pgaA c.88.1.1 35565 1t6lA 290 3.23e+01 d.131.1.2,d.131.1.2 106574,106575 2fikA 287 3.23e+01 1d4xG 126 3.25e+01 1d0nA d.109.1.1 59109 1sz7A 200 3.30e+01 1y7xA 113 3.31e+01 1vdwA 254 3.34e+01 e.7.1.1 100569 1cv8 174 3.35e+01 1cv8 d.3.1.1 37089 1elt 236 3.35e+01 5ptp b.47.1.2 26281 1q74A 303 3.40e+01 c.134.1.1 96019 1t92A 116 3.42e+01 1yifA 533 3.43e+01 2c4xA 260 3.50e+01 2gf6A 135 3.51e+01 2fp7B 172 3.51e+01 1hx0A 496 3.55e+01 b.71.1.1,c.1.8.1 61346,61347 1wy7A 207 3.56e+01 2g1lA 104 3.57e+01 1sqhA 312 3.59e+01 d.108.1.5 98966 1w9iA 770 3.62e+01 1gtzA 156 3.62e+01 c.23.13.1 70539 1o1yA 239 3.69e+01 c.23.16.1 86554 1ootA 60 3.75e+01 b.34.2.1 93386 2apr 325 3.78e+01 2er7E b.50.1.2 26819 1xqbA 247 3.79e+01 1gk9B 557 3.82e+01 1kgcD 206 3.83e+01 b.1.1.1,b.1.1.2 77384,77385 1xrtA 467 3.87e+01 2asuB 234 3.88e+01 1xs1A 193 3.92e+01 1tygB 87 3.95e+01 d.15.3.2 107455 1ddjA 247 3.96e+01 5ptp b.47.1.2 26362 1a8s 273 3.97e+01 1brt c.69.1.12 34710 1j79A 347 3.97e+01 1j79A c.1.9.4 62675 1fs5A 266 3.98e+01 c.124.1.1 65044 1mj5A 302 3.99e+01 c.69.1.8 91285 1w2lA 99 3.99e+01 1rtu 114 4.00e+01 9rnt d.1.1.4 36139 1w8sA 263 4.00e+01 1dg6A 191 4.04e+01 1d4vB b.22.1.1 23883 1ois 223 4.04e+01 1a36A e.15.1.1 43267 1lkoA 191 4.04e+01 a.25.1.1,g.41.5.1 78063,78064 1y4wA 518 4.07e+01 1euwA 152 4.08e+01 1dupA b.85.4.1 28349 1g4wR 383 4.12e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 2g5dA 422 4.13e+01 1vjqA 79 4.18e+01 k.43.1.1 100830 1uyrA 737 4.20e+01 c.14.1.4,c.14.1.4 100188,100189 1w2xA 758 4.28e+01 c.14.1.4,c.14.1.4 109134,109135 1sddA 306 4.30e+01 b.6.1.3,b.6.1.3 105431,105432 1u8vA 490 4.30e+01 1epxA 370 4.39e+01 1fbaA c.1.10.1 29150 1x0lA 333 4.40e+01 2ai4A 119 4.41e+01 1ebfA 358 4.46e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1g31A 111 4.49e+01 1g31A b.35.1.1 24656 1pzxA 289 4.51e+01 c.119.1.1 95484 1o7nA 449 4.52e+01 b.33.1.2,d.129.3.3 81162,81163 1f20A 435 4.55e+01 b.43.4.1,c.25.1.4 64932,64933 1wzoA 246 4.63e+01 1zx8A 136 4.64e+01 1eaxA 241 4.68e+01 b.47.1.2 64889 2a72A 146 4.68e+01 1pv5A 264 4.68e+01 d.251.1.1 95150 1w07A 659 4.70e+01 1ma3A 253 4.73e+01 c.31.1.5 78883 1vqoS 85 4.73e+01 1cr5A 189 4.74e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1n08A 163 4.75e+01 b.43.5.1 79730 1vmoA 163 4.75e+01 1vmoA b.77.1.1 27974 2fbwA 621 4.82e+01 1ozjA 144 4.83e+01 d.164.1.1 93846 1kopA 223 4.87e+01 2cba b.74.1.1 27966 1twiA 434 4.89e+01 b.49.2.3,c.1.6.1 107399,107400 1p1mA 406 4.90e+01 b.92.1.4,c.1.9.9 87696,87697 1iz6A 138 4.93e+01 b.34.5.2,b.40.4.5 76976,76977 1juvA 193 4.96e+01 c.71.1.1 90912 7taa 478 4.97e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1bdo 80 4.97e+01 1bdo b.84.1.1 28214 1bqsA 209 5.00e+01 1bqsA b.1.1.4,b.1.1.4 21704,21705 1spjA 238 5.06e+01 1whzA 70 5.09e+01 1rurL 217 5.10e+01 b.1.1.1,b.1.1.2 97881,97882 1umzA 278 5.12e+01 b.29.1.2 99639 2c6cA 707 5.12e+01 2fiuA 99 5.15e+01 1v30A 124 5.16e+01 1j1tA 233 5.20e+01 b.29.1.18 90771 1vi4A 174 5.21e+01 c.8.7.1 100731 1mhnA 59 5.21e+01 b.34.9.1 84964 2arpF 152 5.29e+01 1ncwL 219 5.30e+01 b.1.1.1,b.1.1.2 85557,85558 1d0dA 60 5.32e+01 1kigI g.8.1.2 44566 1quqB 121 5.32e+01 1quqB b.40.4.3 25305 1zvkA 358 5.37e+01 1s4bP 674 5.39e+01 d.92.1.5 105252 1yfsA 465 5.39e+01 1mo9A 523 5.42e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1w18A 493 5.44e+01 1qzgA 187 5.45e+01 b.40.4.3 96643 1fnlA 175 5.53e+01 2fcbA b.1.1.4,b.1.1.4 21783,21784 1bcpD 110 5.53e+01 1bcpD b.40.2.1 25132 1oa2A 218 5.55e+01 b.29.1.11 86721 2axtB 510 5.59e+01 1yb5A 351 5.61e+01 2gfaA 119 5.63e+01 1n0uA 842 5.67e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1t2wA 145 5.67e+01 b.100.1.1 106289 1ri9A 102 5.69e+01 b.34.2.1 97506 2bf6A 449 5.81e+01 1yb3A 175 5.82e+01 1dkuA 317 5.83e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1ugmA 125 5.84e+01 d.15.1.3 107827 1ji6A 589 5.86e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1i8kA 107 5.86e+01 b.1.1.1 71130 1vquA 374 5.88e+01 1ijaA 148 5.92e+01 1ijaA b.100.1.1 62484 1uxtA 501 5.94e+01 c.82.1.1 108125 2fuqA 747 5.97e+01 1gtkA 313 5.99e+01 c.94.1.1,d.50.2.1 76346,76347 1kxvC 121 5.99e+01 b.1.1.1 73190 1mjuL 219 6.02e+01 b.1.1.1,b.1.1.2 91304,91305 1p7tA 731 6.10e+01 c.1.13.1 94319 1szwA 379 6.21e+01 d.265.1.4 99047 1jb0D 138 6.21e+01 1jb0D d.187.1.1 62823 2ch4A 320 6.22e+01 1rutX 188 6.23e+01 2fhpA 187 6.23e+01 1fd3A 41 6.27e+01 1fd3A g.9.1.1 44572 1mgrA 99 6.27e+01 d.1.1.2 79106 1yg9A 330 6.31e+01 1vqoA 240 6.31e+01 1vp6A 138 6.34e+01 1i1qA 520 6.35e+01 1qdlA d.161.1.1 61543 1d7qA 143 6.42e+01 1d7qA b.40.4.5 25331 1iyeA 309 6.44e+01 e.17.1.1 83786 1dgwA 178 6.46e+01 1dgwA b.82.1.2 28090 1p4kA 295 6.46e+01 d.153.1.5 87772 1o7iA 119 6.47e+01 b.40.4.3 86642 1fyhB 229 6.47e+01 1jrhI b.1.2.1,b.1.2.1 22055,22056 1i60A 278 6.47e+01 c.1.15.4 71118 1ki1B 352 6.51e+01 a.87.1.1,b.55.1.1 72497,72498 1i2aA 219 6.51e+01 e.24.1.1 90660 1jyhA 157 6.51e+01 d.60.1.3 71956 2f4lA 297 6.57e+01 2bw4A 340 6.59e+01 1jtdB 273 6.59e+01 b.69.5.2 67265 1w44A 331 6.62e+01 1elvA 333 6.63e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1oapA 109 6.65e+01 d.79.7.1 92706 1rc6A 261 6.68e+01 b.82.1.11 97287 1q4gA 553 6.68e+01 a.93.1.2,g.3.11.1 95789,95790 1xxlA 239 6.74e+01 1wpuA 147 6.79e+01 1wmqA 147 6.79e+01 1wxrA 1048 6.82e+01 1nr4A 71 6.91e+01 d.9.1.1 92077 2a46A 238 6.91e+01 1tg0A 68 6.93e+01 1wnyA 186 6.95e+01 1zanL 214 6.98e+01 1s3eA 520 7.01e+01 c.3.1.2,d.16.1.5 98426,98427 1w61A 414 7.08e+01 1xf1A 926 7.09e+01 1vcdA 126 7.11e+01 1go3E 187 7.17e+01 b.40.4.5,d.230.1.1 83054,83055 1h54A 754 7.21e+01 a.102.1.4,b.30.5.3 60634,60635 1whi 122 7.23e+01 1whi b.39.1.1 24810 1ewkA 490 7.24e+01 1ewkA c.93.1.1 35712 2aneA 125 7.28e+01 2as9A 210 7.31e+01 1tlyA 278 7.33e+01 f.4.6.1 107143 1gy6A 127 7.41e+01 d.17.4.2 70736 2cxaA 256 7.42e+01 2fdiA 211 7.43e+01 1wxcB 134 7.44e+01 1tedA 393 7.46e+01 c.95.1.2 106807 1y8oB 128 7.50e+01 1g94A 448 7.50e+01 b.71.1.1,c.1.8.1 65169,65170 1zlmA 58 7.52e+01 1k3sA 113 7.53e+01 d.198.1.1 68120 1va4A 279 7.55e+01 c.69.1.12 108458 1y791 680 7.56e+01 1mfgA 95 7.56e+01 b.36.1.1 79043 1r4pB 70 7.58e+01 b.40.2.1 97026 1npk 154 7.60e+01 1npk d.58.6.1 39099 2cfuA 658 7.62e+01 1lniA 96 7.65e+01 d.1.1.2 74046 1u69A 163 7.66e+01 d.32.1.7 107699 2bx6A 350 7.68e+01 1j96A 323 7.71e+01 c.1.7.1 71616 1h8eH 146 7.73e+01 1e79H b.93.1.1 60757 1mngA 203 7.74e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1wyxA 69 7.74e+01 1rds 105 7.77e+01 9rnt d.1.1.4 36236 1fsgA 233 7.79e+01 1qk3A c.61.1.1 34029 2fp7A 54 7.80e+01 1svpA 161 7.80e+01 1svpA b.47.1.3 26384 1oruA 195 7.81e+01 b.58.1.2 93464 2b1xA 470 7.82e+01 1ks8A 433 7.87e+01 a.102.1.2 77519 2bc4B 211 7.96e+01 1h2wA 710 8.02e+01 b.69.7.1,c.69.1.4 76596,76597 1o0iA 138 8.04e+01 d.38.1.5 86532 1wekA 217 8.07e+01 1j3mA 129 8.13e+01 d.129.7.1 103836 1mo1A 87 8.15e+01 d.94.1.1 91363 1z0nA 96 8.17e+01 2cw5A 255 8.19e+01 1p2hA 571 8.23e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1dcoA 104 8.28e+01 1dcpA d.74.1.1 39680 1pkoA 139 8.28e+01 b.1.1.1 88147 2a4vA 159 8.34e+01 1a78A 134 8.38e+01 1c1lA b.29.1.3 24212 2bfxA 284 8.40e+01 1ruwA 69 8.41e+01 1shxA 138 8.43e+01 2b3hA 329 8.50e+01 1zxtA 76 8.51e+01 2dg5B 190 8.52e+01 1l1oC 181 8.55e+01 b.40.4.3 73480 1g1cA 99 8.65e+01 b.1.1.4 65078 1zxuA 217 8.69e+01 1hkyA 86 8.75e+01 g.10.1.3 76714 1tl9A 339 8.79e+01 2f4pA 147 8.80e+01 1gpr 162 8.81e+01 1gpr b.84.3.1 28267 1f39A 101 8.84e+01 1umuA b.87.1.1 28386 1va0A 239 8.88e+01 1b65A 375 8.90e+01 1b65A d.154.1.1 42020 2crvA 120 8.95e+01