# 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 1g9oA 91 2.35e-22 1pdr b.36.1.1 60400 2fe5A 94 9.96e-21 1tp5A 119 2.26e-20 2fneA 117 6.49e-20 2fcfA 103 6.77e-20 1qavA 90 1.04e-19 1qauA b.36.1.1 24777 1n7eA 97 4.71e-19 b.36.1.1 91691 1n7fA 97 7.18e-19 b.36.1.1 91692 1q3oA 109 1.87e-18 b.36.1.1 95700 2f5yA 91 1.30e-17 1kwaA 88 3.03e-17 1kwaA b.36.1.1 24772 1mfgA 95 7.58e-17 b.36.1.1 79043 1nf3C 128 1.17e-16 b.36.1.1 85596 1qauA 112 1.47e-16 1qauA b.36.1.1 24779 1ihjA 98 1.68e-16 1pdr b.36.1.1 62382 2f0aA 98 3.25e-16 1r6jA 82 4.58e-16 b.36.1.1 97151 1wf7A 103 5.15e-16 1fc6A 388 7.08e-13 1fc6A b.36.1.3,c.14.1.2 64738,64739 1te0A 318 9.02e-10 1lcyA 325 1.55e-09 b.36.1.4,b.47.1.1 73834,73835 1y8tA 324 1.56e-09 1fxlA 167 8.02e-02 1b7fA d.58.7.1,d.58.7.1 39183,39184 1zn8A 180 7.16e-01 1zh1A 163 9.14e-01 2bw3A 534 1.01e+00 1ugmA 125 1.14e+00 d.15.1.3 107827 2bsyA 278 1.27e+00 1gvhA 396 1.30e+00 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1k32A 1045 1.33e+00 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 2brfA 110 1.33e+00 1h3gA 601 1.66e+00 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1x3mA 415 1.75e+00 1t6t1 118 1.78e+00 1mkmA 249 1.87e+00 a.4.5.33,d.110.2.2 79242,79243 1ypvA 313 1.87e+00 1mo1A 87 1.88e+00 d.94.1.1 91363 1bx4A 345 1.95e+00 1bx4A c.72.1.1 34935 1g8aA 227 1.96e+00 c.66.1.3 90506 1vhxA 150 1.97e+00 c.55.3.8 100712 1p7tA 731 2.10e+00 c.1.13.1 94319 1zhhB 242 2.12e+00 1vj0A 380 2.13e+00 b.35.1.2,c.2.1.1 100786,100787 2g8oA 264 2.20e+00 2g8mA 264 2.27e+00 1g57A 217 2.30e+00 1g57A d.115.1.2 60253 1p42A 270 2.48e+00 d.14.1.7,d.14.1.7 87754,87755 1qqqA 264 2.50e+00 1bkpA d.117.1.1 40931 1eexA 554 2.56e+00 1dioA c.1.19.3 29650 1vkmA 297 2.69e+00 c.138.1.1 108670 1yg9A 330 2.75e+00 1xdnA 277 2.84e+00 1yloA 348 2.94e+00 2bh8A 101 3.21e+00 1fr3A 67 3.27e+00 1fr3A b.40.6.1 25436 1rypB 250 3.47e+00 1rypB d.153.1.4 41933 1j5wA 298 3.60e+00 d.104.1.1 71589 1ti6A 875 4.17e+00 b.52.2.2,c.81.1.1 106974,106975 1r2jA 366 4.36e+00 a.29.3.1,e.6.1.1 96869,96870 1o50A 157 4.53e+00 d.37.1.1,d.37.1.1 92478,92479 1um0A 365 4.69e+00 d.258.1.1 107942 1xewX 182 4.80e+00 1a62 130 5.18e+00 1a62 a.140.3.1,b.40.4.5 64708,64709 1y9wA 140 5.43e+00 2bhoA 130 5.69e+00 2d4pA 141 5.84e+00 1hm9A 468 5.85e+00 b.81.1.4,c.68.1.5 65866,65867 2cw8A 537 5.88e+00 2bsjA 133 5.95e+00 1whi 122 6.23e+00 1whi b.39.1.1 24810 1hh1A 143 6.59e+00 1gefA c.52.1.18 61036 1uc2A 481 6.67e+00 d.261.1.1 99161 1kzlA 208 6.93e+00 b.43.4.3,b.43.4.3 77635,77636 1rutX 188 7.16e+00 1zsyA 357 7.70e+00 2cxaA 256 7.78e+00 1jhfA 202 8.01e+00 a.4.5.2,b.87.1.1 63057,63058 1s29A 92 8.36e+00 a.4.5.46 98373 2fl4A 149 8.44e+00 1rgzA 363 8.59e+00 e.3.1.1 97457 1vheA 373 8.63e+00 b.49.3.1,c.56.5.4 100669,100670 1g6hA 257 9.03e+00 1gajA c.37.1.12 60318 2aefA 234 9.18e+00 1p2hA 571 9.32e+00 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1q1rA 431 9.52e+00 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 2bc4B 211 9.75e+00 1ex2A 189 1.05e+01 1ex2A c.51.4.2 33225 1qfhA 212 1.06e+01 1qfhA b.1.18.10,b.1.18.10 21893,21894 1iyhA 198 1.07e+01 a.45.1.1,c.47.1.5 83790,83791 1h72C 296 1.07e+01 d.14.1.5,d.58.26.1 60712,60713 1l1dA 152 1.10e+01 b.88.1.3 73452 1zkpA 268 1.10e+01 2cvdA 198 1.11e+01 1xreA 217 1.13e+01 1fjrA 195 1.14e+01 1fjrA b.102.1.1 59855 1yb3A 175 1.14e+01 2fe7A 166 1.14e+01 1e2wA 251 1.19e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 2fa1A 160 1.27e+01 1a9xA 1058 1.30e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 2anuA 255 1.30e+01 1x47A 98 1.32e+01 1rgyA 360 1.34e+01 e.3.1.1 97456 2c5qA 240 1.36e+01 1t3qB 788 1.38e+01 d.41.1.1,d.133.1.1 106369,106370 1fdr 248 1.39e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1pzxA 289 1.41e+01 c.119.1.1 95484 1vie 62 1.43e+01 1vie b.34.4.1 24592 1cs0A 1073 1.45e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1vc3B 97 1.47e+01 1l2tA 235 1.53e+01 c.37.1.12 73514 1yllA 200 1.55e+01 1llnA 262 1.60e+01 d.165.1.1 84625 1xebA 150 1.64e+01 1ye8A 178 1.65e+01 1kqfA 1015 1.67e+01 b.52.2.2,c.81.1.1 72871,72872 1kw4A 89 1.70e+01 a.60.1.2 73077 1x67A 146 1.72e+01 2c9wA 169 1.76e+01 1vplA 256 1.78e+01 1nepA 130 1.79e+01 b.1.18.7 80440 2f6rA 281 1.85e+01 1t9fA 187 1.87e+01 b.42.6.1 106710 2bs3A 656 1.88e+01 1o6dA 163 1.93e+01 c.116.1.3 92567 1rypH 205 1.93e+01 d.153.1.4 41876 1cq3A 233 1.94e+01 1cq3A b.27.1.1 23923 1qb7A 236 1.95e+01 1qb7A c.61.1.1 34087 1d4xG 126 1.97e+01 1d0nA d.109.1.1 59109 2abwA 227 1.99e+01 1sdjA 310 2.05e+01 d.21.1.2,d.21.1.2 98807,98808 1c9oA 66 2.13e+01 1mjc b.40.4.5 25325 2f9dA 125 2.14e+01 1lkkA 105 2.20e+01 1lckA d.93.1.1 40412 2ghpA 292 2.21e+01 1y96A 86 2.24e+01 1xg0A 76 2.25e+01 1rypL 212 2.34e+01 d.153.1.4 41880 1h8eA 510 2.36e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 2b3hA 329 2.40e+01 1uheA 97 2.49e+01 2cwsA 237 2.50e+01 1qyaA 307 2.55e+01 d.21.1.2,d.21.1.2 104653,104654 1qzzA 374 2.56e+01 a.4.5.29,c.66.1.12 96719,96720 1t6eX 381 2.59e+01 b.50.1.2 106564 2ffyA 358 2.62e+01 1zn6A 227 2.67e+01 1gu7A 364 2.68e+01 b.35.1.2,c.2.1.1 83321,83322 2ck3A 510 2.68e+01 1uc7A 125 2.72e+01 c.47.1.1 99163 1f20A 435 2.72e+01 b.43.4.1,c.25.1.4 64932,64933 2fvgA 340 2.74e+01 1g6sA 427 2.77e+01 1eps d.68.2.2 39584 1vqqA 646 2.82e+01 1r6vA 671 2.83e+01 1l0bA 229 2.84e+01 c.15.1.3,c.15.1.3 73391,73392 1o12A 376 2.84e+01 b.92.1.5,c.1.9.10 80758,80759 1rm6B 324 2.85e+01 1zh5A 195 2.88e+01 1vdmA 153 2.89e+01 1i52A 236 2.94e+01 1i52A c.68.1.13 61767 2f4wA 187 2.99e+01 1o4rA 108 3.16e+01 d.93.1.1 92469 1tc5A 194 3.16e+01 c.110.1.1 106752 2fuqA 747 3.16e+01 1fl2A 310 3.18e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 2awpA 198 3.18e+01 1rxdA 159 3.21e+01 2b18A 164 3.31e+01 1zpdA 568 3.34e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1g2qA 187 3.41e+01 c.61.1.1 65117 1ojhA 65 3.47e+01 a.214.1.1 103976 1z96A 40 3.54e+01 1h2bA 359 3.55e+01 b.35.1.2,c.2.1.1 90543,90544 1c1dA 355 3.59e+01 1bw9A c.2.1.7,c.58.1.1 30270,33918 1cqxA 403 3.59e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1wyzA 242 3.59e+01 1vraB 215 3.63e+01 1jnyA 435 3.64e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2g3aA 152 3.64e+01 1kb0A 677 3.67e+01 a.3.1.6,b.70.1.1 68378,68379 1zkjA 359 3.72e+01 1voqa 90 3.76e+01 2cu5A 129 3.79e+01 1h9oA 112 3.81e+01 1qadA d.93.1.1 60837 1jp4A 308 3.84e+01 1jp4A e.7.1.1 63223 1hw7A 255 3.86e+01 1i7fA d.193.1.1 61297 1vpkA 378 3.91e+01 1f0lA 535 3.97e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1bouA 139 3.97e+01 1bouA a.88.1.1 18521 1dekA 241 3.99e+01 1dekA c.37.1.1 31842 1wjuA 100 3.99e+01 1kk1A 410 4.00e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1csh 435 4.03e+01 1csh a.103.1.1 18880 1oqvA 192 4.03e+01 d.24.1.2 87320 2gshA 414 4.09e+01 1x65A 89 4.15e+01 1o8bA 219 4.20e+01 c.124.1.4,d.58.40.1 81180,81181 1r62A 160 4.23e+01 d.122.1.3 104816 1pvmA 184 4.24e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1sfp 114 4.26e+01 1sfp b.23.1.1 23895 1g2hA 61 4.33e+01 1g2hA a.4.1.12 60224 3prn 289 4.35e+01 3prn f.4.3.1 43761 1v7wA 807 4.35e+01 a.102.1.4,b.30.5.3 108411,108412 1koe 172 4.36e+01 1koe d.169.1.5 42448 1q52A 314 4.38e+01 c.14.1.3 95846 2avtA 378 4.39e+01 2d1eA 248 4.43e+01 1qfgA 725 4.46e+01 1by5A f.4.3.3 43803 1xnzA 264 4.48e+01 1gtmA 419 4.49e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 2ckiA 262 4.50e+01 2f51A 118 4.55e+01 1ptf 88 4.58e+01 1ptf d.94.1.1 40549 1xxqA 161 4.65e+01 1o9yA 84 4.70e+01 b.139.1.1 92692 3ezmA 101 4.75e+01 3ezmA b.89.1.1 28395 1f28A 297 4.77e+01 1bkpA d.117.1.1 59608 1sflA 238 4.82e+01 1khxA 227 4.83e+01 b.26.1.1 68631 1v1aA 309 4.84e+01 c.72.1.1 100249 1vlpA 441 4.86e+01 d.41.2.2,d.41.2.3 108840,108841 1aop 497 4.91e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1l3kA 196 4.92e+01 d.58.7.1,d.58.7.1 73539,73540 1lvaA 258 4.93e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1wmhB 86 4.93e+01 1y791 680 4.99e+01 2ahqA 76 5.00e+01 1pqhA 143 5.02e+01 b.52.2.1 95017 1euvA 221 5.13e+01 1euvA d.3.1.7 37133 1fqtA 112 5.13e+01 1fqtA b.33.1.1 24441 1wruA 379 5.19e+01 1iz5A 249 5.25e+01 d.131.1.2,d.131.1.2 83834,83835 2fdoA 94 5.26e+01 1yqbA 100 5.26e+01 1j0pA 108 5.26e+01 a.138.1.1 90743 1f35A 162 5.27e+01 1f35A b.94.1.1 59628 2fojA 155 5.29e+01 1kwiA 101 5.35e+01 d.17.1.3 77564 1pmi 440 5.37e+01 1pmi b.82.1.3 28114 1g7sA 594 5.43e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1xk5A 204 5.45e+01 1u09A 476 5.51e+01 e.8.1.4 107545 2bkfA 87 5.58e+01 1n0qA 93 5.61e+01 k.37.1.1 79754 1wspA 84 5.61e+01 1r5tA 142 5.66e+01 c.97.1.1 104812 1bb9 115 5.67e+01 1bb9 b.34.2.1 24554 1p7gA 222 5.68e+01 a.2.11.1,d.44.1.1 94223,94224 3fib 249 5.68e+01 3fib d.171.1.1 42455 1ugxA 133 5.69e+01 1fjgQ 105 5.73e+01 1fjfQ b.40.4.5 25352 1ikpA 613 5.74e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1cvrA 435 5.74e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1to2I 64 5.81e+01 1w94A 156 5.82e+01 1yvcA 70 5.82e+01 1tljA 213 5.84e+01 d.282.1.1 107126 1olmA 403 5.88e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1yhfA 115 5.89e+01 1eyqA 222 5.89e+01 1eypA d.36.1.1 38534 1qznA 173 5.93e+01 b.2.2.2 104669 1xneA 113 5.95e+01 1v93A 296 5.96e+01 c.1.23.1 100532 1tygB 87 5.96e+01 d.15.3.2 107455 1vqoT 120 5.98e+01 1se8A 301 5.99e+01 b.40.4.3 105448 1ww7A 160 6.00e+01 1qb5D 99 6.01e+01 b.40.2.1 88357 1nu0A 138 6.04e+01 c.55.3.8 92165 1ym5A 300 6.05e+01 1kk8B 139 6.08e+01 a.39.1.5 77430 1g31A 111 6.09e+01 1g31A b.35.1.1 24656 1z2mA 155 6.11e+01 1wvhA 134 6.12e+01 1f8fA 371 6.12e+01 b.35.1.2,c.2.1.1 83246,83247 2g6fX 59 6.13e+01 1iukA 140 6.14e+01 c.2.1.8 83712 2d2eA 250 6.20e+01 1ny4A 82 6.22e+01 b.40.4.5 92316 1qhlA 227 6.24e+01 1qhlA c.37.1.12 32382 1uc8A 280 6.27e+01 c.30.1.6,d.142.1.7 99165,99166 2d9rA 104 6.27e+01 1iq8A 582 6.32e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1w99A 558 6.37e+01 1iieA 75 6.40e+01 1iieA a.109.1.1 19039 1yd0A 96 6.43e+01 1js8A 394 6.44e+01 a.86.1.1,b.112.1.1 67219,67220 1jmuB 666 6.44e+01 1yf3A 259 6.51e+01 1fit 147 6.52e+01 1fit d.13.1.1 37499 1o5hA 214 6.54e+01 a.191.1.1 92497 2gaiA 633 6.54e+01 1b25A 619 6.58e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1kolA 398 6.60e+01 b.35.1.2,c.2.1.1 77474,77475 1yy6A 155 6.62e+01 1p0fA 373 6.63e+01 b.35.1.2,c.2.1.1 87642,87643 2absA 383 6.64e+01 2f6uA 234 6.69e+01 1r26A 125 6.70e+01 c.47.1.1 96847 1bouB 302 6.73e+01 1bouB c.56.6.1 33859 2fhqA 141 6.76e+01 1qreA 247 6.77e+01 1qreA b.81.1.5 28066 2ffmA 91 6.79e+01 1o7iA 119 6.79e+01 b.40.4.3 86642 1wdcB 156 6.85e+01 1wdcB a.39.1.5 17302 1s3zA 165 6.92e+01 d.108.1.1 105250 1h4gA 207 6.92e+01 b.29.1.11 70863 1y7rA 133 6.93e+01 1tw9A 206 6.93e+01 a.45.1.1,c.47.1.5 107381,107382 1gpr 162 6.96e+01 1gpr b.84.3.1 28267 2btzA 394 6.99e+01 2a9iA 113 6.99e+01 1w9gA 104 7.02e+01 1bdfA 235 7.07e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1sjwA 144 7.07e+01 d.17.4.9 98899 2fb5A 205 7.07e+01 1yqfA 203 7.12e+01 1zm8A 259 7.20e+01 1ako 268 7.25e+01 1ako d.151.1.1 41779 1fl0A 171 7.26e+01 1eujA b.40.4.4 25315 1ogdA 131 7.27e+01 c.133.1.1 92893 1ze3H 122 7.28e+01 1i1wA 303 7.30e+01 c.1.8.3 76732 1nkqA 259 7.31e+01 d.177.1.1 103862 1bvoA 175 7.32e+01 1a3qA b.2.5.3 22457 1n8kA 374 7.34e+01 b.35.1.2,c.2.1.1 80298,80299 1mspA 126 7.48e+01 1mspA b.1.11.2 22333 1d4oA 184 7.53e+01 1d4oA c.31.1.4 31748 1wfxA 186 7.54e+01 1nthA 458 7.61e+01 c.1.25.1 80730 1a2yB 116 7.69e+01 1gc1H b.1.1.1 19927 1fxkC 133 7.71e+01 1fxkC a.2.5.1 15702 1y55X 126 7.72e+01 1id0A 152 7.72e+01 d.122.1.3 66111 1qsmA 152 7.73e+01 1qsmA d.108.1.1 40808 2bm3A 166 7.75e+01 1siqA 392 7.78e+01 a.29.3.1,e.6.1.1 105585,105586 1tul 108 7.82e+01 1tul b.85.5.1 28373 2cw5A 255 7.86e+01 2cu3A 64 7.88e+01 1wl4A 397 7.92e+01 1vkkA 154 7.92e+01 d.109.1.2 108669 1i1qB 192 7.92e+01 1qdlB c.23.16.1 61544 1dq3A 454 8.01e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1fecA 490 8.11e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1zj8A 566 8.16e+01 2ae0X 345 8.21e+01 1suuA 312 8.24e+01 b.68.10.1 99006 1mb3A 124 8.24e+01 c.23.1.1 78907 1m0uA 249 8.25e+01 a.45.1.1,c.47.1.5 78359,78360 1ne9A 335 8.27e+01 d.108.1.4,d.108.1.4 91839,91840 1wckA 220 8.29e+01 1s50A 259 8.32e+01 1egpA 45 8.37e+01 1egpA d.40.1.1 38561 1i8kB 124 8.40e+01 b.1.1.1 71131 2awkA 228 8.41e+01 1h6kA 757 8.43e+01 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 1y07A 128 8.47e+01 1h05A 146 8.59e+01 c.23.13.1 76433 1eceA 358 8.59e+01 1eceA c.1.8.3 28813 1tif 78 8.62e+01 1tif d.15.8.1 37836 2azeB 106 8.71e+01 1j71A 334 8.84e+01 1eagA b.50.1.2 62669 1pbjA 125 8.87e+01 d.37.1.1,d.37.1.1 94414,94415 1dzfA 215 8.89e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 1dxrH 258 8.91e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1l1qA 186 8.95e+01 c.61.1.1 77653