# List of top-scoring protein chains for t06-80-60-80-str2+near-backbone-11-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 2fhqA 141 2.59e-10 1dnlA 199 2.12e-09 1ci0A b.45.1.1 25753 1g79A 218 3.86e-09 1ci0A b.45.1.1 25752 1ty9A 222 6.19e-09 1nrgA 261 1.17e-08 b.45.1.1 80694 1rfeA 162 1.47e-08 2arzA 247 7.82e-08 2fg9A 178 2.45e-07 1vl7A 157 5.28e-07 b.45.1.1 108732 2furA 209 7.10e-07 2asfA 137 1.19e-06 1xhnA 184 1.75e-06 2aq6A 147 2.12e-05 1w9aA 147 2.10e-04 1flmA 122 1.31e-03 1axj b.45.1.1 25747 1w3oA 216 3.42e-03 2gjgA 248 5.72e-02 1ejeA 192 7.43e-02 1ejeA b.45.1.2 25757 1rz1A 161 1.19e-01 b.45.1.2 98124 1yoaA 159 1.80e-01 2dcnA 311 2.16e-01 1jw9B 249 2.21e-01 c.111.1.1 67377 1i0rA 169 2.25e-01 1i0rA b.45.1.2 61489 2d37A 176 2.66e-01 2gfgA 193 3.13e-01 2amhA 207 3.14e-01 1gt1A 159 4.12e-01 b.60.1.1 90515 2cxvA 219 4.60e-01 1ytqA 204 5.00e-01 1w6sA 599 5.30e-01 1qipA 183 5.51e-01 1qipA d.32.1.1 38470 2cwsA 237 5.51e-01 1wr2A 238 6.31e-01 1vgjA 184 6.79e-01 1wj9A 211 7.50e-01 1zh5A 195 7.66e-01 1umwA 237 8.37e-01 d.223.1.2,d.223.1.2 99631,99632 1pvmA 184 8.37e-01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1g291 372 8.54e-01 1g291 2bbkH 355 9.32e-01 2bbkH b.69.2.1 27634 1uxy 340 9.70e-01 2mbr d.145.1.2,d.146.1.1 41748,41761 1ylnA 252 1.00e+00 3sil 379 1.05e+00 3sil b.68.1.1 27542 1vqoD 177 1.09e+00 2cxcA 144 1.12e+00 1q7fA 286 1.13e+00 b.68.9.1 96036 1vyfA 135 1.17e+00 b.60.1.2 108902 1nlfA 279 1.21e+00 c.37.1.11 85850 1g55A 343 1.24e+00 1g55A c.66.1.26 34247 1l3kA 196 1.25e+00 d.58.7.1,d.58.7.1 73539,73540 1zud1 251 1.38e+00 2bkrA 212 1.39e+00 1o7dE 126 1.51e+00 2fy6A 143 1.53e+00 1rv9A 259 1.58e+00 d.194.1.2 105105 1zd7A 159 1.60e+00 1yr2A 741 1.67e+00 1y12A 165 1.71e+00 1rypB 250 1.73e+00 1rypB d.153.1.4 41933 2bvcA 486 1.93e+00 1gy7A 125 1.94e+00 d.17.4.2 70738 1rypH 205 1.95e+00 d.153.1.4 41876 1pjxA 314 1.95e+00 b.68.6.1 104167 7ahlA 293 2.03e+00 7ahlA f.6.1.1 43812 2cc3A 150 2.13e+00 1jhdA 396 2.23e+00 b.122.1.3,c.26.1.5 66712,66713 2bkyX 89 2.25e+00 1vheA 373 2.27e+00 b.49.3.1,c.56.5.4 100669,100670 1uscA 178 2.29e+00 b.45.1.2 99860 1oz2A 331 2.43e+00 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 1r2zA 274 2.51e+00 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 2gdjA 264 2.52e+00 1tdzA 272 2.57e+00 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1e30A 155 2.65e+00 1rcy b.6.1.1 23016 1r6xA 395 2.67e+00 b.122.1.3,c.26.1.5 97167,97168 1cv8 174 2.67e+00 1cv8 d.3.1.1 37089 1cruA 454 2.72e+00 1c9uA b.68.2.1 27617 1vggA 161 2.73e+00 1wp5A 323 2.73e+00 1e4fT 419 2.74e+00 1e4fT c.55.1.1,c.55.1.1 33453,33454 2acaA 189 2.81e+00 1h2wA 710 2.84e+00 b.69.7.1,c.69.1.4 76596,76597 1at0 145 2.88e+00 1at0 b.86.1.1 28374 2ebn 289 2.90e+00 2ebn c.1.8.5 28990 2cxhA 217 2.98e+00 1mw7A 240 3.05e+00 e.39.1.1 79557 2a1fA 247 3.07e+00 1bdfA 235 3.11e+00 1bdfA d.74.3.1,d.181.1.1 39727,42602 1ye8A 178 3.18e+00 2bv2A 83 3.22e+00 1oacA 727 3.29e+00 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1ik9A 213 3.31e+00 b.59.1.1,h.1.11.1 66176,66177 2b4yA 271 3.41e+00 1m8uA 173 3.42e+00 b.11.1.1,b.11.1.1 91233,91234 2erfA 209 3.45e+00 1uj6A 227 3.46e+00 c.124.1.4,d.58.40.1 107898,107899 1al3 324 3.46e+00 1al3 c.94.1.1 35835 2fp8A 322 3.47e+00 1tuhA 156 3.48e+00 d.17.4.11 107345 2calA 154 3.51e+00 2d13A 227 3.65e+00 1npuA 117 3.65e+00 b.1.1.1 92038 1pbyB 337 3.81e+00 b.69.2.2 94422 1rypJ 204 3.92e+00 d.153.1.4 41878 2aneA 125 3.95e+00 1azo 232 3.96e+00 1azo c.52.1.14 33329 1npeA 267 4.10e+00 b.68.5.1 92032 2trcP 217 4.12e+00 1b9yC c.47.1.6 33051 2bj0A 203 4.13e+00 1j31A 262 4.24e+00 d.160.1.2 90808 1d1gA 168 4.35e+00 1d1gA c.71.1.1 34889 1pxvA 183 4.45e+00 d.3.1.1 95301 1x31C 206 4.47e+00 1xv2A 237 4.47e+00 1vloA 381 4.52e+00 b.44.2.1,d.250.1.1 108838,108839 1cg2A 393 4.55e+00 1cg2A c.56.5.4,d.58.19.1 33844,39360 1w07A 659 4.55e+00 1jwqA 179 4.63e+00 c.56.5.6 90921 1wn5A 130 4.65e+00 1vlyA 338 4.68e+00 b.44.2.1,d.250.1.1 108871,108872 2bu3A 254 4.91e+00 1xzwA 426 5.23e+00 1yavA 159 5.27e+00 1c93A 265 5.38e+00 2ebn c.1.8.5 28998 1feuA 206 5.42e+00 1feuA b.53.1.1 59801 1w8oA 601 5.47e+00 1vr9A 213 5.49e+00 1k32A 1045 5.65e+00 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1mzbA 136 5.76e+00 a.4.5.42 91497 1rloA 271 5.77e+00 2h1tA 188 5.87e+00 1dbwA 126 5.90e+00 1dbwA c.23.1.1 31095 1srvA 145 6.01e+00 1derA c.8.5.1 30817 1zwyA 185 6.20e+00 1bu8A 452 6.24e+00 1gpl b.12.1.2,c.69.1.19 23647,34795 1iukA 140 6.41e+00 c.2.1.8 83712 1twyA 290 6.59e+00 1ijqA 316 6.69e+00 1ijqA b.68.5.1,g.3.11.1 62506,62507 2b18A 164 6.74e+00 2gc9A 179 7.01e+00 1a62 130 7.16e+00 1a62 a.140.3.1,b.40.4.5 64708,64709 1gotB 340 7.18e+00 1tbgA b.69.4.1 27648 1v3yA 192 7.25e+00 1ryaA 160 7.30e+00 d.113.1.5 105122 1ybdA 239 7.34e+00 1gsa 316 7.35e+00 1gsa c.30.1.3,d.142.1.1 31718,41477 1vjvA 415 7.36e+00 d.3.1.9 108632 1dpe 507 7.42e+00 1dpe c.94.1.1 35799 1x0oA 119 7.43e+00 1pvgA 418 7.44e+00 d.14.1.3,d.122.1.2 95161,95162 1y08A 323 7.56e+00 1h4aX 173 7.60e+00 b.11.1.1,b.11.1.1 83479,83480 1t5rA 284 7.80e+00 f.6.1.1 106465 1l0wA 580 7.81e+00 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 2b4wA 315 7.91e+00 1f9zA 135 7.95e+00 1qipA d.32.1.1 38484 2c9wA 169 7.96e+00 1i1qB 192 8.09e+00 1qdlB c.23.16.1 61544 1wouA 123 8.09e+00 c.47.1.16 109471 2f51A 118 8.11e+00 1ckmA 330 8.11e+00 1ckmA b.40.4.6,d.142.2.3 25358,41585 1erjA 393 8.16e+00 1erjA b.69.4.1 27660 1rypK 198 8.17e+00 d.153.1.4 41879 2g8lA 299 8.34e+00 1w6gA 646 8.46e+00 1rjoA 646 8.46e+00 1ysjA 404 8.51e+00 1snnA 227 8.66e+00 d.115.1.2 105821 2aa4A 289 8.67e+00 1ihkA 174 8.67e+00 1bfg b.42.1.1 62384 2afbA 351 8.76e+00 1rkiA 102 8.87e+00 2bjfA 329 8.88e+00 1yt5A 258 9.13e+00 1zavA 180 9.13e+00 1vfvA 366 9.16e+00 c.37.1.9 108592 1n0wA 243 9.23e+00 c.37.1.11 79772 1guiA 155 9.24e+00 b.18.1.14 76351 1zboA 210 9.25e+00 1dfmA 223 9.29e+00 1d2iA c.52.1.5 33295 1xd3A 230 9.31e+00 1u94A 356 9.36e+00 c.37.1.11,d.48.1.1 107743,107744 1vjfA 180 9.46e+00 d.116.1.1 100809 1k8kC 372 9.48e+00 b.69.4.1 68308 1l3iA 192 9.50e+00 c.66.1.22 77676 1nr0A 611 9.55e+00 b.69.4.1,b.69.4.1 86078,86079 1uyjA 296 9.85e+00 f.8.1.2 108143 1rwiA 270 9.88e+00 b.68.9.1 97987 2f46A 156 9.90e+00 1jmxB 349 9.98e+00 b.69.2.2 66906 1sdjA 310 1.00e+01 d.21.1.2,d.21.1.2 98807,98808 1n1tA 641 1.01e+01 b.29.1.15,b.68.1.1 79821,79822 1vfjA 116 1.01e+01 1e0tA 470 1.02e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1rgzA 363 1.02e+01 e.3.1.1 97457 1jkgA 140 1.03e+01 d.17.4.2 66795 1a8y 367 1.04e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1lu4A 136 1.05e+01 c.47.1.10 91124 1zybA 232 1.05e+01 1xp8A 366 1.06e+01 1rypD 241 1.07e+01 1rypD d.153.1.4 41935 1d4oA 184 1.07e+01 1d4oA c.31.1.4 31748 2fvgA 340 1.07e+01 1gs5A 258 1.07e+01 c.73.1.2 70395 1qyaA 307 1.08e+01 d.21.1.2,d.21.1.2 104653,104654 1clc 639 1.09e+01 1clc a.102.1.2,b.1.18.2 18835,21872 1w15A 153 1.10e+01 b.7.1.2 109041 1mai 131 1.10e+01 1mai b.55.1.1 26951 1ri6A 343 1.12e+01 b.69.11.1 97503 1yrbA 262 1.12e+01 2bneA 241 1.14e+01 1rq2A 382 1.14e+01 c.32.1.1,d.79.2.1 105048,105049 1tv8A 340 1.14e+01 c.1.28.3 107352 1v0wA 506 1.15e+01 d.136.1.2,d.136.1.2 108220,108221 1uwzA 136 1.15e+01 c.97.1.1 108081 2fdiA 211 1.16e+01 1wekA 217 1.17e+01 1dkiA 371 1.20e+01 1dkiA d.3.1.1 37090 1meoA 209 1.22e+01 c.65.1.1 79035 1wosA 364 1.23e+01 b.44.2.1,d.250.1.1 109468,109469 1y7bA 542 1.24e+01 2eveA 157 1.26e+01 1ryp1 222 1.26e+01 1ryp1 1cr1A 296 1.27e+01 1cr1A c.37.1.11 32286 1p4kA 295 1.27e+01 d.153.1.5 87772 2a13A 166 1.27e+01 1edt 271 1.27e+01 2ebn c.1.8.5 28993 1jalA 363 1.27e+01 c.37.1.8,d.15.10.2 84138,84139 1rfs 139 1.27e+01 1rfs b.33.1.1 24434 1jx4A 352 1.27e+01 d.240.1.1,e.8.1.7 90378,90379 1ugiA 84 1.28e+01 1ugiA d.17.5.1 38125 1r75A 141 1.28e+01 b.134.1.1 97189 1j98A 157 1.29e+01 1j98A d.185.1.2 62755 1c0pA 363 1.29e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1yc5A 246 1.29e+01 1kb9D 246 1.30e+01 a.3.1.3,f.23.11.1 77317,77318 1f06A 320 1.30e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1st9A 143 1.31e+01 c.47.1.10 98987 1j5pA 253 1.31e+01 d.81.1.3,c.2.1.3 71577,83092 1nnwA 252 1.31e+01 d.159.1.5 80674 1u02A 239 1.32e+01 c.108.1.15 107538 1x0pA 143 1.33e+01 1y8xB 98 1.34e+01 1v37A 177 1.35e+01 1fxlA 167 1.35e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1rkuA 206 1.35e+01 c.108.1.11 97627 2ai4A 119 1.35e+01 2sak 121 1.36e+01 2sak d.15.5.1 37711 1dyr 206 1.37e+01 1aoeA c.71.1.1 34916 1e5pA 151 1.37e+01 1bj7 b.60.1.1 59272 1nhkL 144 1.38e+01 1npk d.58.6.1 39142 2bh1A 250 1.38e+01 1m1zA 513 1.38e+01 c.26.2.1,d.153.1.1 78457,78458 1gwyA 175 1.38e+01 b.97.1.1 83356 1iv3A 152 1.38e+01 d.79.5.1 76828 1zxxA 319 1.39e+01 1mwpA 96 1.40e+01 1mwpA d.170.2.1 42453 1ym3A 215 1.42e+01 1qynA 153 1.42e+01 d.33.1.1 96597 1n3lA 372 1.42e+01 c.26.1.1 79966 1mkmA 249 1.43e+01 a.4.5.33,d.110.2.2 79242,79243 1di6A 195 1.43e+01 1di6A c.57.1.1 33863 1w9gA 104 1.43e+01 1ewfA 456 1.43e+01 1bp1 d.83.1.1,d.83.1.1 40024,40025 2fpmA 322 1.45e+01 2gu3A 136 1.45e+01 1v4pA 157 1.46e+01 1amx 180 1.46e+01 1amx b.2.3.1 22410 1uv4A 293 1.46e+01 1vkiA 181 1.47e+01 d.116.1.1 108664 1y4hA 188 1.48e+01 1ryp2 233 1.49e+01 1ryp2 1lbvA 252 1.49e+01 e.7.1.1 73813 1om4A 422 1.51e+01 d.174.1.1 87067 1iuqA 367 1.51e+01 c.112.1.1 90703 1xs0A 136 1.53e+01 1ytlA 174 1.56e+01 1ujcA 161 1.56e+01 1nofA 383 1.56e+01 b.71.1.2,c.1.8.3 92020,92021 1gg4A 452 1.57e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 4pgaA 337 1.57e+01 4pgaA c.88.1.1 35565 1nar 290 1.58e+01 1nar c.1.8.5 28988 1jfuA 186 1.59e+01 c.47.1.10 62940 1uf3A 228 1.60e+01 d.159.1.6 99317 1vknA 351 1.60e+01 c.2.1.3,d.81.1.1 108676,108677 1vgyA 393 1.61e+01 c.56.5.4,d.58.19.1 100620,100621 1jqnA 883 1.61e+01 c.1.12.3 77159 1xfjA 261 1.62e+01 d.194.1.2 109585 1gy6A 127 1.62e+01 d.17.4.2 70736 1y43B 173 1.62e+01 1o7nB 194 1.64e+01 d.17.4.4 81164 1x1iA 752 1.65e+01 1z90A 469 1.67e+01 2cn3A 737 1.68e+01 1l7dA 384 1.68e+01 c.2.1.4,c.23.12.2 77774,77775 1m98A 317 1.69e+01 a.175.1.1,d.17.4.6 78866,78867 1tzlA 622 1.71e+01 1vcaA 202 1.71e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1ed8A 449 1.71e+01 1b8jA c.76.1.1 34988 1lk5A 229 1.72e+01 c.124.1.4,d.58.40.1 73960,73961 1vdc 333 1.72e+01 1trb c.3.1.5,c.3.1.5 30545,30546 1wwzA 159 1.72e+01 1o69A 394 1.73e+01 c.67.1.4 92560 1qtnA 164 1.73e+01 1pauA c.17.1.1 30999 2a1vA 144 1.75e+01 1jk7A 323 1.76e+01 1auiA d.159.1.3 63144 1wznA 252 1.77e+01 2bklA 695 1.77e+01 1o7eA 276 1.80e+01 e.3.1.1 92622 1uldA 150 1.80e+01 b.29.1.3 99545 1vbuA 328 1.81e+01 1gdhA 320 1.81e+01 1gdhA c.2.1.4,c.23.12.1 30095,31355 2b0aA 186 1.81e+01 1ei6A 406 1.82e+01 c.76.1.4 90443 1okiA 210 1.86e+01 b.11.1.1,b.11.1.1 93255,93256 1ddjA 247 1.86e+01 5ptp b.47.1.2 26362 2f4nA 273 1.86e+01 1wcuA 153 1.87e+01 1zirA 173 1.87e+01 1sxvA 172 1.87e+01 1ykiA 217 1.88e+01 1xtzA 264 1.89e+01 1gtkA 313 1.89e+01 c.94.1.1,d.50.2.1 76346,76347 1ysrA 150 1.91e+01 1s3cA 141 1.92e+01 1vhoA 346 1.93e+01 b.49.3.1,c.56.5.4 100694,100695 1rocA 155 1.93e+01 b.1.22.1 97673 1t77A 414 1.94e+01 1y8tA 324 1.96e+01 1s5pA 235 1.96e+01 c.31.1.5 98569 1ej0A 180 1.97e+01 1ej0A c.66.1.2 34179 2fsqA 243 1.98e+01 1rd5A 262 1.99e+01 1rlmA 271 2.00e+01 1jubA 311 2.01e+01 c.1.4.1 90908 1nsj 205 2.01e+01 1nsj c.1.2.4 28560 1e9rA 437 2.02e+01 c.37.1.11 64827 2g0wA 296 2.03e+01 2cwkA 160 2.05e+01 1go4A 205 2.06e+01 d.135.1.1 70292 1kk1A 410 2.09e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1tt0A 623 2.09e+01 1f1xA 322 2.10e+01 d.32.1.3,d.32.1.3 83208,83209 2fp4B 395 2.11e+01 1x6vA 630 2.11e+01 1nf2A 268 2.12e+01 c.108.1.10 91849 1ifc 132 2.13e+01 b.60.1.2 27173 1oxwA 373 2.16e+01 c.19.1.3 87539 1rttA 193 2.16e+01 c.23.5.4 105098 1rhs 296 2.17e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1qwlA 505 2.17e+01 e.5.1.1 96483 1dzkA 157 2.17e+01 1obpA b.60.1.1 27096 1kyfA 247 2.20e+01 b.1.10.1,d.105.1.1 73220,73221 1zceA 155 2.21e+01 1mxgA 435 2.22e+01 b.71.1.1,c.1.8.1 85193,85194 1b56 135 2.23e+01 1hmt b.60.1.2 27183 1x88A 359 2.24e+01 1v8aA 265 2.25e+01 c.72.1.2 100494 1j27A 102 2.27e+01 d.58.50.1 90778 2a1rA 430 2.28e+01 1ttzA 87 2.28e+01 c.47.1.1 107309 2fp3A 316 2.30e+01 1z0wA 207 2.31e+01 1vcc 77 2.33e+01 1vcc d.121.1.1 41092 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