# 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 2fe5A 94 2.31e-17 2fneA 117 5.88e-17 1g9oA 91 7.75e-17 1pdr b.36.1.1 60400 1tp5A 119 2.07e-16 1qavA 90 4.75e-16 1qauA b.36.1.1 24777 2fcfA 103 5.44e-16 1n7eA 97 3.08e-15 b.36.1.1 91691 1n7fA 97 5.47e-15 b.36.1.1 91692 1ihjA 98 6.53e-15 1pdr b.36.1.1 62382 1q3oA 109 1.01e-14 b.36.1.1 95700 2h2bA 107 1.04e-14 1mfgA 95 4.44e-14 b.36.1.1 79043 2h3lA 103 5.52e-14 1kwaA 88 7.03e-14 1kwaA b.36.1.1 24772 1nf3C 128 9.62e-14 b.36.1.1 85596 2f0aA 98 1.26e-13 2f5yA 91 1.63e-13 1qauA 112 4.25e-13 1qauA b.36.1.1 24779 1wf7A 103 1.44e-12 1r6jA 82 4.69e-12 b.36.1.1 97151 1fc6A 388 1.22e-08 1fc6A b.36.1.3,c.14.1.2 64738,64739 1te0A 318 1.72e-07 1lcyA 325 1.97e-07 b.36.1.4,b.47.1.1 73834,73835 1y8tA 324 1.56e-06 1zn8A 180 6.58e-01 2brfA 110 7.49e-01 1kk1A 410 9.56e-01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2d4pA 141 1.52e+00 2fe7A 166 1.69e+00 2bsyA 278 1.74e+00 2bhoA 130 1.84e+00 2bsjA 133 1.94e+00 1qb7A 236 2.01e+00 1qb7A c.61.1.1 34087 1yg9A 330 2.04e+00 2c5qA 240 2.50e+00 1y9wA 140 2.53e+00 1x3mA 415 2.56e+00 1k32A 1045 2.60e+00 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1mkmA 249 3.55e+00 a.4.5.33,d.110.2.2 79242,79243 1hh1A 143 3.70e+00 1gefA c.52.1.18 61036 1fxlA 167 3.95e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 1vj0A 380 4.26e+00 b.35.1.2,c.2.1.1 100786,100787 2bw3A 534 4.26e+00 1ugmA 125 4.49e+00 d.15.1.3 107827 1g57A 217 4.75e+00 1g57A d.115.1.2 60253 1xewX 182 5.22e+00 1vkmA 297 5.52e+00 c.138.1.1 108670 1t6t1 118 5.60e+00 1xdnA 277 5.97e+00 1yloA 348 6.15e+00 1p42A 270 6.24e+00 d.14.1.7,d.14.1.7 87754,87755 2fvgA 340 6.37e+00 1rutX 188 6.49e+00 1a62 130 7.02e+00 1a62 a.140.3.1,b.40.4.5 64708,64709 1ym5A 300 7.06e+00 1xebA 150 7.25e+00 1fr3A 67 7.32e+00 1fr3A b.40.6.1 25436 2aefA 234 7.38e+00 1t44G 147 7.60e+00 d.109.1.1 106395 1se8A 301 7.66e+00 b.40.4.3 105448 1h3gA 601 7.72e+00 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1fdr 248 7.94e+00 1fdr b.43.4.2,c.25.1.1 25653,31543 1r62A 160 8.07e+00 d.122.1.3 104816 1d4xG 126 8.07e+00 1d0nA d.109.1.1 59109 1eexA 554 8.40e+00 1dioA c.1.19.3 29650 1cliA 345 8.59e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 2bh8A 101 8.81e+00 1yvcA 70 8.85e+00 2gwnA 452 8.97e+00 1q52A 314 9.18e+00 c.14.1.3 95846 1rypH 205 9.65e+00 d.153.1.4 41876 1dg6A 191 9.81e+00 1d4vB b.22.1.1 23883 1zh1A 163 9.84e+00 2f9dA 125 1.08e+01 1bx4A 345 1.09e+01 1bx4A c.72.1.1 34935 1o6dA 163 1.15e+01 c.116.1.3 92567 1jnyA 435 1.15e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2cu5A 129 1.17e+01 1vhxA 150 1.17e+01 c.55.3.8 100712 1ti6A 875 1.18e+01 b.52.2.2,c.81.1.1 106974,106975 1vheA 373 1.19e+01 b.49.3.1,c.56.5.4 100669,100670 1hw7A 255 1.22e+01 1i7fA d.193.1.1 61297 2fl4A 149 1.26e+01 1yqfA 203 1.31e+01 1o50A 157 1.34e+01 d.37.1.1,d.37.1.1 92478,92479 2avtA 378 1.39e+01 1xs1A 193 1.40e+01 1xnzA 264 1.43e+01 2ggcA 263 1.46e+01 1fjgQ 105 1.52e+01 1fjfQ b.40.4.5 25352 1jmuB 666 1.54e+01 1f20A 435 1.57e+01 b.43.4.1,c.25.1.4 64932,64933 1u0mA 382 1.57e+01 c.95.1.2,c.95.1.2 107557,107558 1bo4A 168 1.61e+01 1bo4A d.108.1.1 40798 1uc2A 481 1.70e+01 d.261.1.1 99161 1q1rA 431 1.70e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1euwA 152 1.78e+01 1dupA b.85.4.1 28349 2cxaA 256 1.79e+01 1y791 680 1.80e+01 1uheA 97 1.80e+01 1g2qA 187 1.83e+01 c.61.1.1 65117 1zhhB 242 1.87e+01 1avaC 181 1.90e+01 1avaC b.42.4.1 25604 1vc3B 97 1.93e+01 1vcaA 202 1.95e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 2f4wA 187 2.00e+01 1p7tA 731 2.03e+01 c.1.13.1 94319 1dy9A 187 2.04e+01 1jxpA b.47.1.3 26400 2bs3A 656 2.05e+01 1sdjA 310 2.10e+01 d.21.1.2,d.21.1.2 98807,98808 1whi 122 2.12e+01 1whi b.39.1.1 24810 1gpr 162 2.19e+01 1gpr b.84.3.1 28267 2b3hA 329 2.19e+01 2fb5A 205 2.22e+01 3fib 249 2.25e+01 3fib d.171.1.1 42455 1mo1A 87 2.28e+01 d.94.1.1 91363 1rypL 212 2.35e+01 d.153.1.4 41880 1n6aA 259 2.36e+01 b.76.2.1,b.85.7.1 80121,80122 1oalA 151 2.42e+01 b.1.8.1 86739 1qzzA 374 2.43e+01 a.4.5.29,c.66.1.12 96719,96720 1hzdA 272 2.43e+01 c.14.1.3 65969 2f51A 118 2.44e+01 1iyhA 198 2.45e+01 a.45.1.1,c.47.1.5 83790,83791 1g8aA 227 2.46e+01 c.66.1.3 90506 1vkcA 158 2.49e+01 1w94A 156 2.57e+01 2cvdA 198 2.58e+01 1fjrA 195 2.67e+01 1fjrA b.102.1.1 59855 1vplA 256 2.72e+01 1zkkA 167 2.94e+01 1uadC 99 2.94e+01 b.1.18.18 88379 1kolA 398 2.97e+01 b.35.1.2,c.2.1.1 77474,77475 1um0A 365 2.99e+01 d.258.1.1 107942 2a19A 175 3.05e+01 1s29A 92 3.06e+01 a.4.5.46 98373 1gtmA 419 3.09e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 2g8oA 264 3.10e+01 1y0yA 353 3.13e+01 1g7sA 594 3.15e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1qfhA 212 3.18e+01 1qfhA b.1.18.10,b.1.18.10 21893,21894 1kt6A 183 3.18e+01 b.60.1.1 84466 1h30A 422 3.21e+01 b.29.1.4,b.29.1.4 76604,76605 2g8mA 264 3.25e+01 1yllA 200 3.29e+01 1pzxA 289 3.33e+01 c.119.1.1 95484 1yhfA 115 3.36e+01 1h9oA 112 3.37e+01 1qadA d.93.1.1 60837 2cw8A 537 3.41e+01 1vraB 215 3.45e+01 1zh5A 195 3.54e+01 1qqqA 264 3.60e+01 1bkpA d.117.1.1 40931 1koe 172 3.61e+01 1koe d.169.1.5 42448 1o4rA 108 3.62e+01 d.93.1.1 92469 1gvhA 396 3.73e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1r26A 125 3.77e+01 c.47.1.1 96847 1j71A 334 3.79e+01 1eagA b.50.1.2 62669 1iz5A 249 3.82e+01 d.131.1.2,d.131.1.2 83834,83835 1nulA 152 3.83e+01 1nulA c.61.1.1 34011 1ypvA 313 3.85e+01 1nqjA 119 3.86e+01 b.23.2.1 86031 1oq1A 223 3.89e+01 b.29.1.17 93408 1suuA 312 3.90e+01 b.68.10.1 99006 1y07A 128 3.90e+01 1p2hA 571 3.92e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1lkkA 105 3.93e+01 1lckA d.93.1.1 40412 1o12A 376 3.94e+01 b.92.1.5,c.1.9.10 80758,80759 1w9gA 104 3.95e+01 1cq3A 233 3.95e+01 1cq3A b.27.1.1 23923 1y7bA 542 3.98e+01 1h72C 296 4.02e+01 d.14.1.5,d.58.26.1 60712,60713 1qyaA 307 4.05e+01 d.21.1.2,d.21.1.2 104653,104654 1q2yA 140 4.07e+01 d.108.1.1 95655 2d8aA 348 4.14e+01 1g31A 111 4.18e+01 1g31A b.35.1.1 24656 1bywA 110 4.21e+01 1bywA d.110.3.6 40912 1voqa 90 4.22e+01 1u09A 476 4.22e+01 e.8.1.4 107545 2g3aA 152 4.25e+01 1c9oA 66 4.29e+01 1mjc b.40.4.5 25325 1xg0A 76 4.32e+01 2exnA 136 4.32e+01 1g8sA 230 4.36e+01 c.66.1.3 90507 1fm0E 150 4.38e+01 1fmaE d.41.5.1 38629 1zdnA 158 4.42e+01 1kw4A 89 4.43e+01 a.60.1.2 73077 2gdjA 264 4.47e+01 1llnA 262 4.54e+01 d.165.1.1 84625 1eyqA 222 4.56e+01 1eypA d.36.1.1 38534 1bb9 115 4.59e+01 1bb9 b.34.2.1 24554 1ok7A 366 4.60e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 2f69A 261 4.61e+01 1l2tA 235 4.70e+01 c.37.1.12 73514 1yd0A 96 4.70e+01 1uc7A 125 4.73e+01 c.47.1.1 99163 1r0vA 305 4.74e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1wyzA 242 4.79e+01 1lvoA 302 4.87e+01 b.47.1.4 74284 1o63A 219 4.97e+01 c.94.1.1 92540 1z85A 234 4.97e+01 1yb3A 175 4.98e+01 2cy2A 174 5.00e+01 1ojhA 65 5.06e+01 a.214.1.1 103976 1bdfA 235 5.07e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 2anuA 255 5.13e+01 1x6oA 174 5.18e+01 b.34.5.2,b.40.4.5 109493,109494 1t9fA 187 5.21e+01 b.42.6.1 106710 1eceA 358 5.25e+01 1eceA c.1.8.3 28813 1vlpA 441 5.25e+01 d.41.2.2,d.41.2.3 108840,108841 1ikpA 613 5.26e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1g6hA 257 5.29e+01 1gajA c.37.1.12 60318 1trb 320 5.30e+01 1trb c.3.1.5,c.3.1.5 30529,30530 1rwzA 245 5.31e+01 d.131.1.2,d.131.1.2 98005,98006 1l0bA 229 5.34e+01 c.15.1.3,c.15.1.3 73391,73392 2fhqA 141 5.34e+01 1sixA 174 5.37e+01 b.85.4.1 98892 1y0gA 191 5.37e+01 1wwzA 159 5.38e+01 1xxqA 161 5.40e+01 1o91A 178 5.43e+01 b.22.1.1 92656 1kb0A 677 5.54e+01 a.3.1.6,b.70.1.1 68378,68379 1vybA 238 5.54e+01 d.151.1.1 108897 1ex2A 189 5.57e+01 1ex2A c.51.4.2 33225 1zpdA 568 5.57e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1olmA 403 5.58e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1qwrA 319 5.60e+01 b.82.1.3 96491 1x67A 146 5.64e+01 1y8oB 128 5.69e+01 1wl4A 397 5.69e+01 1y7rA 133 5.69e+01 1fy7A 278 5.70e+01 1fy7A d.108.1.1 40817 2g6fX 59 5.70e+01 2awkA 228 5.71e+01 1uwfA 158 5.77e+01 1t6eX 381 5.81e+01 b.50.1.2 106564 1t3qB 788 5.82e+01 d.41.1.1,d.133.1.1 106369,106370 1nkqA 259 5.84e+01 d.177.1.1 103862 1p0zA 131 5.97e+01 d.110.6.1 93882 1n0qA 93 6.00e+01 k.37.1.1 79754 2fxqA 264 6.02e+01 1qsmA 152 6.05e+01 1qsmA d.108.1.1 40808 1vqqA 646 6.11e+01 2fwhA 134 6.21e+01 1e0tA 470 6.22e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 2gu2A 312 6.24e+01 2fa1A 160 6.25e+01 1fqtA 112 6.32e+01 1fqtA b.33.1.1 24441 1oqvA 192 6.32e+01 d.24.1.2 87320 1w99A 558 6.33e+01 2abwA 227 6.38e+01 1l1dA 152 6.48e+01 b.88.1.3 73452 1to2I 64 6.56e+01 1g2hA 61 6.67e+01 1g2hA a.4.1.12 60224 2ceyA 306 6.67e+01 1kmvA 186 6.85e+01 c.71.1.1 72757 1zybA 232 6.85e+01 1ppfE 218 6.85e+01 1a7s b.47.1.2 26234 2ghpA 292 6.86e+01 1i52A 236 6.87e+01 1i52A c.68.1.13 61767 1vmeA 410 6.89e+01 c.23.5.1,d.157.1.3 108893,108894 1z96A 40 6.97e+01 1yu0A 381 7.12e+01 1ttwA 138 7.23e+01 d.198.1.1 107308 1umzA 278 7.25e+01 b.29.1.2 99639 1bu6O 501 7.26e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1sflA 238 7.28e+01 1iieA 75 7.29e+01 1iieA a.109.1.1 19039 1qhlA 227 7.33e+01 1qhlA c.37.1.12 32382 1r7lA 110 7.39e+01 d.277.1.1 104837 2fpmA 322 7.51e+01 2dddA 225 7.68e+01 1vi4A 174 7.70e+01 c.8.7.1 100731 1h8eA 510 7.74e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 2f15A 96 7.75e+01 1tc5A 194 7.79e+01 c.110.1.1 106752 1y96A 86 7.83e+01 1tygB 87 7.85e+01 d.15.3.2 107455 2ahqA 76 7.88e+01 2eveA 157 7.90e+01 1yrkA 126 7.93e+01 1d4oA 184 7.94e+01 1d4oA c.31.1.4 31748 1o59A 355 7.95e+01 b.18.1.22,b.18.1.22 92495,92496 1aop 497 7.97e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1bouA 139 8.01e+01 1bouA a.88.1.1 18521 1w07A 659 8.08e+01 1pvmA 184 8.19e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1hm9A 468 8.21e+01 b.81.1.4,c.68.1.5 65866,65867 1uc8A 280 8.22e+01 c.30.1.6,d.142.1.7 99165,99166 1l1qA 186 8.30e+01 c.61.1.1 77653 1wvhA 134 8.55e+01 1o9yA 84 8.65e+01 b.139.1.1 92692 1fl2A 310 8.71e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1tif 78 8.71e+01 1tif d.15.8.1 37836 1luzA 88 8.73e+01 b.40.4.5 74271 1wruA 379 8.74e+01 1zj8A 566 8.76e+01 1pqhA 143 8.78e+01 b.52.2.1 95017 2hc1A 291 8.80e+01 1bolA 222 8.83e+01 1bolA d.124.1.1 41120