# List of top-scoring protein chains for t06-100-30-dssp-ebghstl-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 5.47e-23 1pdr b.36.1.1 60400 1q3oA 109 1.04e-20 b.36.1.1 95700 1ihjA 98 4.97e-20 1pdr b.36.1.1 62382 1qauA 112 3.18e-18 1qauA b.36.1.1 24779 1mfgA 95 5.10e-18 b.36.1.1 79043 1r6jA 82 6.86e-16 b.36.1.1 97151 1fc6A 388 8.99e-11 1fc6A b.36.1.3,c.14.1.2 64738,64739 1yg9A 330 1.42e-02 1t6t1 118 1.47e-02 1n6aA 259 2.56e-02 b.76.2.1,b.85.7.1 80121,80122 1qb7A 236 3.13e-02 1qb7A c.61.1.1 34087 1g2qA 187 8.95e-02 c.61.1.1 65117 1cliA 345 1.12e-01 1cliA d.79.4.1,d.139.1.1 39816,41459 1fxlA 167 1.85e-01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1h3gA 601 4.19e-01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1q52A 314 4.97e-01 c.14.1.3 95846 1fm0E 150 5.15e-01 1fmaE d.41.5.1 38629 1se8A 301 6.28e-01 b.40.4.3 105448 1xdnA 277 6.46e-01 1ecfA 504 7.27e-01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1koe 172 1.12e+00 1koe d.169.1.5 42448 1y0bA 197 1.18e+00 1cq3A 233 1.19e+00 1cq3A b.27.1.1 23923 1rutX 188 1.20e+00 1bx4A 345 1.28e+00 1bx4A c.72.1.1 34935 1a8y 367 1.38e+00 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1cl1A 395 1.41e+00 1cl2A c.67.1.3 34395 1fsgA 233 1.55e+00 1qk3A c.61.1.1 34029 1r62A 160 1.81e+00 d.122.1.3 104816 1m65A 245 1.93e+00 c.6.3.1 84847 1rwrA 301 2.09e+00 b.80.1.11 97990 1sfdA 105 2.32e+00 b.6.1.1 105480 1kw4A 89 2.37e+00 a.60.1.2 73077 1tif 78 2.38e+00 1tif d.15.8.1 37836 1nthA 458 2.49e+00 c.1.25.1 80730 2arcA 164 2.52e+00 2arcA b.82.4.1 28148 1yb3A 175 2.56e+00 1fr3A 67 2.64e+00 1fr3A b.40.6.1 25436 1gmuA 143 2.64e+00 b.107.1.1,d.58.38.1 65335,65336 1ako 268 2.79e+00 1ako d.151.1.1 41779 1earA 147 3.13e+00 b.107.1.1,d.58.38.1 64875,64876 1g57A 217 3.24e+00 1g57A d.115.1.2 60253 1x8vA 455 3.44e+00 1iwlA 182 3.63e+00 b.125.1.1 83757 1h72C 296 3.72e+00 d.14.1.5,d.58.26.1 60712,60713 1eyqA 222 3.84e+00 1eypA d.36.1.1 38534 1fjrA 195 4.17e+00 1fjrA b.102.1.1 59855 1dq3A 454 4.33e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1hgxA 183 5.04e+00 1tc1A c.61.1.1 34027 1dgwA 178 5.25e+00 1dgwA b.82.1.2 28090 1dljA 402 5.45e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1vqqA 646 5.79e+00 1w99A 558 5.84e+00 1oi7A 288 6.24e+00 c.2.1.8,c.23.4.1 87049,87050 1b25A 619 6.62e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 1tmxA 293 6.77e+00 1dekA 241 6.94e+00 1dekA c.37.1.1 31842 1h70A 255 6.97e+00 1h70A d.126.1.3 60711 1g8aA 227 7.02e+00 c.66.1.3 90506 1g7sA 594 7.17e+00 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1bxvA 91 7.58e+00 1aac b.6.1.1 22875 1ef8A 261 7.77e+00 1ef8A c.14.1.3 30921 1i52A 236 8.11e+00 1i52A c.68.1.13 61767 1dg6A 191 8.27e+00 1d4vB b.22.1.1 23883 1d4xG 126 8.35e+00 1d0nA d.109.1.1 59109 1g31A 111 8.76e+00 1g31A b.35.1.1 24656 1mkkA 96 8.93e+00 g.17.1.1 79240 1h9oA 112 1.02e+01 1qadA d.93.1.1 60837 1yc5A 246 1.04e+01 1h65A 270 1.08e+01 c.37.1.8 65640 1f20A 435 1.14e+01 b.43.4.1,c.25.1.4 64932,64933 1rhcA 330 1.15e+01 c.1.16.3 97468 1fdr 248 1.15e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1ojhA 65 1.17e+01 a.214.1.1 103976 1a53 247 1.26e+01 1a53 c.1.2.4 28564 1h6kZ 98 1.30e+01 d.58.7.1 60686 1vybA 238 1.33e+01 d.151.1.1 108897 1eceA 358 1.34e+01 1eceA c.1.8.3 28813 1e4iA 447 1.36e+01 1e70M c.1.8.4 59225 1snrA 341 1.38e+01 b.6.1.3,b.6.1.3 105823,105824 1h3qA 140 1.42e+01 d.110.4.3 76652 1ccwA 137 1.45e+01 1be1 c.23.6.1 31238 1dmgA 225 1.55e+01 1dmgA c.22.1.1 31036 2g7jA 124 1.56e+01 1eaxA 241 1.60e+01 b.47.1.2 64889 1si6X 282 1.62e+01 1bvoA 175 1.63e+01 1a3qA b.2.5.3 22457 1mb3A 124 1.63e+01 c.23.1.1 78907 1uscA 178 1.66e+01 b.45.1.2 99860 1qqqA 264 1.66e+01 1bkpA d.117.1.1 40931 1dk0A 188 1.67e+01 1b2vA d.35.1.1 38530 1y0yA 353 1.67e+01 1csh 435 1.68e+01 1csh a.103.1.1 18880 1kyhA 276 1.69e+01 c.72.1.4 73222 1pz7A 204 1.71e+01 b.29.1.4 95405 1obfO 335 1.74e+01 c.2.1.3,d.81.1.1 86768,86769 1a2yB 116 1.74e+01 1gc1H b.1.1.1 19927 1iirA 415 1.75e+01 1iirA c.87.1.5 62453 1e7uA 961 1.77e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1sw5A 275 1.81e+01 c.94.1.1 106069 1bd0A 388 1.81e+01 1bd0A b.49.2.2,c.1.6.1 26480,28642 1xkzA 255 1.85e+01 1ep3B 262 1.87e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1bg4 302 1.90e+01 1taxA c.1.8.3 28806 1oq1A 223 1.93e+01 b.29.1.17 93408 1s29A 92 1.95e+01 a.4.5.46 98373 1wvfA 520 1.96e+01 1gky 187 2.00e+01 1gky c.37.1.1 31839 1n0qA 93 2.01e+01 k.37.1.1 79754 1h9dB 134 2.01e+01 2jhbA b.54.1.1 60822 1kwgA 645 2.02e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1o8bA 219 2.04e+01 c.124.1.4,d.58.40.1 81180,81181 1ug6A 431 2.07e+01 c.1.8.4 88490 1ten 90 2.10e+01 1ten b.1.2.1 21990 1pg6A 243 2.10e+01 b.82.5.2 94673 1vcaA 202 2.11e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1jidA 128 2.14e+01 d.201.1.1 66735 1h30A 422 2.15e+01 b.29.1.4,b.29.1.4 76604,76605 1g2hA 61 2.17e+01 1g2hA a.4.1.12 60224 1i1wA 303 2.31e+01 c.1.8.3 76732 1c44A 123 2.35e+01 1qndA d.106.1.1 40795 1nepA 130 2.41e+01 b.1.18.7 80440 1g2bA 62 2.42e+01 1tud b.34.2.1 24488 1eejA 216 2.42e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1ebfA 358 2.44e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1e87A 118 2.54e+01 1b6e d.169.1.1 42327 1qmvA 197 2.54e+01 1qq2A c.47.1.10 33066 1f9yA 158 2.55e+01 d.58.30.1 83249 1fit 147 2.55e+01 1fit d.13.1.1 37499 1dkuA 317 2.56e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1f0xA 571 2.57e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1h8dH 260 2.61e+01 5ptp 1bouA 139 2.62e+01 1bouA a.88.1.1 18521 1senA 164 2.65e+01 c.47.1.1 105465 1cruA 454 2.72e+01 1c9uA b.68.2.1 27617 1whi 122 2.74e+01 1whi b.39.1.1 24810 16pk 415 2.74e+01 16pk c.86.1.1 35454 1k5nB 100 2.79e+01 b.1.1.2 77268 2sli 679 2.82e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1vimA 200 2.90e+01 c.80.1.3 100758 1g6sA 427 2.95e+01 1eps d.68.2.2 39584 1mfmA 153 2.95e+01 1mfmA b.1.8.1 22246 1brwA 433 2.98e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1gv9A 260 3.01e+01 b.29.1.13 70596 1rhs 296 3.02e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1n62B 809 3.07e+01 d.41.1.1,d.133.1.1 80092,80093 1t6eX 381 3.08e+01 b.50.1.2 106564 1g8lA 411 3.09e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1hztA 190 3.09e+01 1i9aA d.113.1.2 61459 1oxdA 227 3.10e+01 d.22.1.1 93687 1c9oA 66 3.12e+01 1mjc b.40.4.5 25325 1h05A 146 3.16e+01 c.23.13.1 76433 1lkkA 105 3.18e+01 1lckA d.93.1.1 40412 1k77A 260 3.23e+01 c.1.15.5 72096 1ok0A 74 3.23e+01 b.5.1.1 93191 1amm 174 3.27e+01 1amm b.11.1.1,b.11.1.1 23587,23588 1qwgA 251 3.36e+01 c.1.27.1 96473 1i4jA 110 3.38e+01 d.55.1.1 76734 1f3uB 171 3.40e+01 1f3uB b.65.1.1 27525 1nqzA 194 3.42e+01 d.113.1.1 86077 1a2pA 110 3.43e+01 1b20A d.1.1.2 36140 1g6gA 127 3.46e+01 1g6gA b.26.1.2 23916 3proC 166 3.48e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1k7cA 233 3.51e+01 c.23.10.4 68267 1g8sA 230 3.55e+01 c.66.1.3 90507 1c75A 71 3.58e+01 451c a.3.1.1 15796 1mk4A 157 3.59e+01 d.108.1.1 84979 1eny 268 3.60e+01 1eny c.2.1.2 29910 1uwfA 158 3.62e+01 1xfiA 367 3.66e+01 e.50.1.1 109584 1g2rA 100 3.67e+01 1g2rA d.192.1.1 60231 1wlgA 299 3.68e+01 1d4oA 184 3.69e+01 1d4oA c.31.1.4 31748 1ne9A 335 3.70e+01 d.108.1.4,d.108.1.4 91839,91840 1eswA 500 3.73e+01 1cwyA c.1.8.1 59500 1oalA 151 3.78e+01 b.1.8.1 86739 1nnhA 294 3.82e+01 d.104.1.1 92005 1fl2A 310 3.82e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1bqcA 302 3.82e+01 1bqcA c.1.8.3 28831 1llnA 262 3.95e+01 d.165.1.1 84625 1dvoA 152 3.99e+01 1dvoA a.136.1.1 19623 1giqA 413 4.02e+01 d.166.1.1,d.166.1.1 76224,76225 1gpjA 404 4.06e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1gg4A 452 4.07e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 2pvbA 107 4.11e+01 1a75A a.39.1.4 17205 1r6xA 395 4.14e+01 b.122.1.3,c.26.1.5 97167,97168 1xx1A 285 4.15e+01 1gk8A 475 4.24e+01 c.1.14.1,d.58.9.1 65234,65235 1fltX 95 4.26e+01 1fltX b.1.1.4 21765 1h6kA 757 4.32e+01 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 1f00I 282 4.45e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 1n2eA 300 4.47e+01 c.26.1.4 85268 1f60A 458 4.54e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1behA 187 4.61e+01 1a44 b.17.1.1 23700 1w3oA 216 4.76e+01 1bb9 115 4.79e+01 1bb9 b.34.2.1 24554 1h2bA 359 4.83e+01 b.35.1.2,c.2.1.1 90543,90544 1c7gA 456 4.83e+01 c.67.1.2 90415 1yy6A 155 4.84e+01 1a62 130 4.97e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1f1gA 154 5.04e+01 b.1.8.1 76153 1vkpA 383 5.08e+01 d.126.1.6 108686 1h1dA 221 5.15e+01 c.66.1.1 83452 1j24A 143 5.19e+01 c.52.1.20 84008 1wwzA 159 5.26e+01 1s3cA 141 5.30e+01 1e5kA 201 5.31e+01 1fr9A c.68.1.8 34578 1d7oA 297 5.36e+01 1enp c.2.1.2 29907 1p99A 295 5.36e+01 c.94.1.1 94384 1jubA 311 5.40e+01 c.1.4.1 90908 1orc 71 5.49e+01 1orc a.35.1.2 17054 1yllA 200 5.53e+01 1ggzA 148 5.53e+01 a.39.1.5 70176 1c3pA 375 5.56e+01 1c3pA c.42.1.2 32606 1fkqA 124 5.72e+01 3lzt d.2.1.2 36601 1nn5A 215 5.76e+01 c.37.1.1 85892 1jhfA 202 5.79e+01 a.4.5.2,b.87.1.1 63057,63058 1cfzA 162 5.82e+01 1cfzA c.56.1.1 33754 1nykA 165 5.83e+01 b.33.1.1 86408 1pvmA 184 5.85e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1fxkC 133 5.89e+01 1fxkC a.2.5.1 15702 1e2wA 251 5.93e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 1vc4A 254 5.97e+01 c.1.2.4 100557 1yrcA 414 5.97e+01 1b43A 340 5.97e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1rrmA 386 6.10e+01 e.22.1.2 105081 1dqwA 267 6.12e+01 1dqwA c.1.2.3 28551 1jp4A 308 6.14e+01 1jp4A e.7.1.1 63223 1egpA 45 6.21e+01 1egpA d.40.1.1 38561 1qreA 247 6.22e+01 1qreA b.81.1.5 28066 1p5vB 147 6.24e+01 b.2.3.2 87814 1hnjA 317 6.27e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1fmb 104 6.29e+01 1fmb b.50.1.1 26777 1fe0A 68 6.32e+01 1cc8A d.58.17.1 39345 1gcqA 61 6.39e+01 1ckaA b.34.2.1 60434 1d3bA 75 6.39e+01 1d3bA b.38.1.1 24798 1ssxA 198 6.41e+01 b.47.1.1 98978 1gvp 87 6.44e+01 1gvp b.40.4.7 25369 1at0 145 6.50e+01 1at0 b.86.1.1 28374 1cydA 244 6.50e+01 1cydA c.2.1.2 29825 1zceA 155 6.55e+01 1zelA 298 6.71e+01 1p4cA 380 6.74e+01 c.1.4.1 94100 1vkiA 181 6.74e+01 d.116.1.1 108664 1mw9X 592 6.75e+01 e.10.1.1 91480 1lc0A 294 6.77e+01 c.2.1.3,d.81.1.4 73823,73824 1ej2A 181 6.81e+01 1f9aA c.26.1.3 59414 1bdfA 235 6.83e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1hw1A 239 6.85e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1f9zA 135 6.94e+01 1qipA d.32.1.1 38484 1kolA 398 7.00e+01 b.35.1.2,c.2.1.1 77474,77475 1kgdA 180 7.01e+01 c.37.1.1 68582 1ytlA 174 7.07e+01 1g5tA 196 7.08e+01 1g5rA c.37.1.11 32366 1cjaA 342 7.11e+01 1cjaA d.144.1.3 41708 1suuA 312 7.15e+01 b.68.10.1 99006 1cbf 285 7.17e+01 1cbf c.90.1.1 35587 1i27A 73 7.17e+01 1i27A a.4.5.30 61555 1rm6A 769 7.24e+01 1ytvA 366 7.28e+01 1cs1A 386 7.30e+01 1ibjA c.67.1.3 34399 1b0uA 262 7.38e+01 1b0uA c.37.1.12 32370 1xttA 216 7.41e+01 1wd7A 261 7.42e+01 1kq3A 376 7.43e+01 e.22.1.2 68790 1nytA 271 7.45e+01 c.2.1.7,c.58.1.5 86417,86418 1brt 277 7.56e+01 1brt c.69.1.12 34699 1fl0A 171 7.60e+01 1eujA b.40.4.4 25315 1eo6A 117 7.62e+01 1eo6A d.15.1.3 37609 1cozA 129 7.64e+01 1cozA c.26.1.2 31598 1rkuA 206 7.69e+01 c.108.1.11 97627 1f7lA 121 7.72e+01 1f7lA d.150.1.2 59666 1ex2A 189 7.76e+01 1ex2A c.51.4.2 33225 1vr9A 213 7.76e+01 1hkfA 122 7.77e+01 b.1.1.1 83553 1avaC 181 7.82e+01 1avaC b.42.4.1 25604 1fmtA 314 7.87e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1em8B 112 7.89e+01 c.126.1.1 90458 1fjgQ 105 7.92e+01 1fjfQ b.40.4.5 25352 1dmlB 36 7.95e+01 1dmlB 1s2wA 295 7.98e+01 c.1.12.7 98407 1grj 158 8.02e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1r5mA 425 8.02e+01 1guqA 348 8.11e+01 1guqA d.13.1.2,d.13.1.2 37522,37523 1ooyA 481 8.16e+01 c.124.1.3,c.124.1.2 93388,93389 1eexA 554 8.17e+01 1dioA c.1.19.3 29650 1t4bA 367 8.17e+01 c.2.1.3,d.81.1.1 106406,106407 1u07A 90 8.20e+01 1n8kA 374 8.23e+01 b.35.1.2,c.2.1.1 80298,80299 1f8fA 371 8.33e+01 b.35.1.2,c.2.1.1 83246,83247 2dpmA 284 8.40e+01 2dpmA c.66.1.28 34246 1o5kA 306 8.42e+01 c.1.10.1 92504 2gkpA 167 8.46e+01 1mzbA 136 8.48e+01 a.4.5.42 91497 1ta8A 332 8.70e+01 1e8yA 966 8.78e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1zk5A 176 8.88e+01 1nwaA 203 8.92e+01 d.58.28.1 86295 1qs1A 462 8.95e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 1fm0D 81 8.95e+01 1fmaD d.15.3.1 37642