# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 1v7lA 163 5.95e-02 1qmeA 702 1.31e+00 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 2ganA 190 1.77e+00 1vddA 228 2.01e+00 e.49.1.1 108519 2aa4A 289 2.78e+00 1cs1A 386 2.94e+00 1ibjA c.67.1.3 34399 1xvaA 292 3.71e+00 1xvaA c.66.1.5 34183 1yrvA 169 3.73e+00 1vbkA 307 5.06e+00 1hf2A 210 5.15e+00 1hf2A b.80.3.1,c.102.1.1 60992,60993 2gasA 307 5.56e+00 1pmd 675 5.73e+00 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37491,37492,42562,42771 1uwzA 136 6.00e+00 c.97.1.1 108081 1ek9A 428 6.59e+00 1ek9A f.5.1.1 43809 1nbwA 607 7.54e+00 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1cjbA 231 7.75e+00 1qk3A c.61.1.1 34079 1gheA 177 8.45e+00 d.108.1.1 76222 1jtkA 136 9.31e+00 c.97.1.1 71862 1h16A 759 9.65e+00 c.7.1.1 76462 1cm5A 759 1.03e+01 1cm5A c.7.1.1 30671 1p42A 270 1.03e+01 d.14.1.7,d.14.1.7 87754,87755 1xebA 150 1.07e+01 2bibA 547 1.09e+01 1w36D 608 1.12e+01 1ln1A 214 1.20e+01 d.129.3.2 74038 1y0bA 197 1.21e+01 2gfaA 119 1.26e+01 1d2oA 187 1.35e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1o88A 353 1.37e+01 b.80.1.1 81178 1q1gA 276 1.41e+01 c.56.2.1 95574 1g8lA 411 1.48e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1yovA 537 1.48e+01 1r6xA 395 1.49e+01 b.122.1.3,c.26.1.5 97167,97168 1rifA 282 1.53e+01 c.37.1.23 97507 1air 353 1.53e+01 1air b.80.1.1 28018 1w99A 558 1.54e+01 1wraA 308 1.54e+01 1l3yA 41 1.55e+01 g.3.11.6 73558 1fs7A 485 1.57e+01 1qdbA a.138.1.3 19691 2coeA 120 1.80e+01 1gcoA 261 1.80e+01 1ybvA c.2.1.2 29884 1cjcA 460 1.82e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1mrzA 293 1.82e+01 b.43.5.1,c.26.1.3 91452,91453 1zemA 262 1.83e+01 1zm8A 259 1.83e+01 1g57A 217 1.84e+01 1g57A d.115.1.2 60253 1c3gA 170 1.89e+01 1c3gA b.4.1.1,b.4.1.1 22831,22832 2fe7A 166 2.00e+01 1bg6 359 2.06e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1qqp2 218 2.06e+01 1qqp2 2d13A 227 2.16e+01 2g76A 335 2.18e+01 1geeA 261 2.18e+01 c.2.1.2 90509 2mspA 126 2.24e+01 1mspA b.1.11.2 22335 1fc6A 388 2.26e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1ja9A 274 2.26e+01 c.2.1.2 62817 2g8lA 299 2.30e+01 2bsxA 253 2.36e+01 1jx2B 315 2.38e+01 c.37.1.8 67404 1rliA 184 2.40e+01 c.23.5.6 97647 2c46A 241 2.41e+01 1ejfA 125 2.41e+01 1ejfA b.15.1.2 23683 1x9pA 523 2.42e+01 1iz5A 249 2.42e+01 d.131.1.2,d.131.1.2 83834,83835 1w15A 153 2.46e+01 b.7.1.2 109041 1yavA 159 2.50e+01 1c1yB 77 2.51e+01 1c1yB d.15.1.5 37618 1mx3A 347 2.52e+01 c.2.1.4,c.23.12.1 79638,79639 2gn4A 344 2.59e+01 1pxwA 128 2.63e+01 d.79.3.1 95305 1z2aA 168 2.64e+01 1zc1A 208 2.70e+01 1xkwA 665 2.76e+01 1s4cA 155 2.77e+01 2fb1A 226 2.80e+01 2beiA 170 2.88e+01 1l3kA 196 2.95e+01 d.58.7.1,d.58.7.1 73539,73540 1mkyA 439 3.03e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1v95A 130 3.12e+01 c.51.1.1 108435 2c1iA 431 3.12e+01 2gefA 217 3.16e+01 2f1rA 171 3.17e+01 1vkcA 158 3.24e+01 1xdnA 277 3.26e+01 8rucI 123 3.26e+01 1rboC d.73.1.1 39629 1lx7A 253 3.27e+01 c.56.2.1 74329 2atrA 138 3.32e+01 2gwgA 350 3.34e+01 2aw5A 541 3.42e+01 1e79H 146 3.44e+01 1e79H a.2.10.1,b.93.1.1 15721,28438 2c1gA 431 3.47e+01 2a3nA 355 3.59e+01 1wn5A 130 3.63e+01 1el5A 389 3.68e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1nr0A 611 3.68e+01 b.69.4.1,b.69.4.1 86078,86079 2f06A 144 3.79e+01 1fmb 104 3.79e+01 1fmb b.50.1.1 26777 2evaA 307 3.80e+01 1e19A 314 3.86e+01 1b7bA c.73.1.1 34967 1gz6A 319 3.93e+01 c.2.1.2 76410 1z1dA 103 3.96e+01 1wkoA 180 4.02e+01 1vq0A 302 4.10e+01 1egaA 301 4.11e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 1g3qA 237 4.12e+01 1hyqA c.37.1.10 60237 1tuoA 464 4.27e+01 2g9iA 249 4.28e+01 1kl1A 419 4.29e+01 c.67.1.4 72663 1yjsA 419 4.31e+01 2gjgA 248 4.31e+01 1g0oA 283 4.35e+01 1ybvA c.2.1.2 60181 1yge 839 4.36e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1dxy 333 4.46e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1zsoA 164 4.48e+01 1d2kA 392 4.48e+01 1d2kA c.1.8.5,d.26.3.1 29008,38442 2bl1A 172 4.52e+01 1k78A 149 4.53e+01 a.4.1.5,a.4.1.5 68255,68256 2bhgA 209 4.55e+01 1dbwA 126 4.55e+01 1dbwA c.23.1.1 31095 1imjA 210 4.56e+01 c.69.1.23 71246 2fuvA 549 4.59e+01 1ha1 184 4.62e+01 1ha1 d.58.7.1,d.58.7.1 39147,39148 1yvoA 172 4.62e+01 1h8eH 146 4.63e+01 1e79H b.93.1.1 60757 1jbkA 195 4.66e+01 c.37.1.20 71631 1s3cA 141 4.67e+01 1wi6A 88 4.70e+01 1fsgA 233 4.92e+01 1qk3A c.61.1.1 34029 2ffjA 300 4.97e+01 1bdfA 235 4.99e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1q67A 231 5.04e+01 b.55.1.7 95960 1nnfA 309 5.04e+01 c.94.1.1 85903 1x6vA 630 5.05e+01 1mxmA 254 5.06e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1i9sA 210 5.09e+01 1i9sA c.45.1.1 62099 1vctA 205 5.11e+01 1h8eA 510 5.12e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1lzlA 323 5.12e+01 c.69.1.2 78306 1neu 124 5.24e+01 1neu b.1.1.1 19704 1mrp 309 5.24e+01 1mrp c.94.1.1 35796 1rxyA 253 5.29e+01 c.56.2.1 98065 1jopA 155 5.32e+01 b.82.2.7 84187 1xf1A 926 5.33e+01 1bf6A 291 5.33e+01 1pscA c.1.9.3 29065 1xbiA 120 5.38e+01 1ignA 246 5.45e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1f2vA 219 5.46e+01 1f2vA c.23.17.1 59627 1sviA 195 5.58e+01 c.37.1.8 106048 1c3pA 375 5.63e+01 1c3pA c.42.1.2 32606 1inlA 296 5.64e+01 c.66.1.17 66220 2f02A 323 5.71e+01 1vc3B 97 5.73e+01 2b0vA 153 5.75e+01 2arkA 188 5.81e+01 1skoA 143 5.83e+01 d.110.7.1 105676 2coiA 386 5.84e+01 1xrtA 467 5.87e+01 1rqpA 299 5.93e+01 b.141.1.1,c.132.1.1 97754,97755 2awdA 323 5.94e+01 1w66A 232 5.95e+01 1qlmA 316 6.03e+01 1qlmA d.147.1.1 41765 1x84A 189 6.03e+01 2bgkA 278 6.07e+01 1vjpA 394 6.07e+01 c.2.1.3,d.81.1.3 100828,100829 2fl4A 149 6.11e+01 1hw7A 255 6.13e+01 1i7fA d.193.1.1 61297 1xfoA 357 6.16e+01 2btoA 473 6.17e+01 1z5vA 474 6.18e+01 1v8aA 265 6.28e+01 c.72.1.2 100494 1duvG 333 6.28e+01 1othA c.78.1.1,c.78.1.1 35228,35229 2gp4A 628 6.29e+01 1auoA 218 6.54e+01 1auoA c.69.1.14 34716 2ex4A 241 6.57e+01 1je0A 236 6.59e+01 c.56.2.1 66581 2axpA 173 6.61e+01 2c31A 568 6.64e+01 1sdsA 117 6.65e+01 d.79.3.1 105439 1qo7A 394 6.66e+01 1qo7A c.69.1.11 34697 1gp1A 198 6.74e+01 1gp1A c.47.1.10 33059 1nhkL 144 6.78e+01 1npk d.58.6.1 39142 2b2nA 344 6.79e+01 1nrfA 262 6.79e+01 e.3.1.1 92086 1j6pA 418 6.80e+01 b.92.1.4,c.1.9.9 77089,77090 2fp7B 172 6.80e+01 1e79A 510 6.95e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1ru8A 232 6.96e+01 c.26.2.1 97849 1zbmA 280 7.08e+01 1cliA 345 7.10e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1t9hA 307 7.10e+01 1b4bA 71 7.19e+01 1b4aA d.74.2.1 39718 1y0yA 353 7.22e+01 1ep3B 262 7.24e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1ctt 294 7.29e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1sqrA 95 7.30e+01 1ddmA 135 7.34e+01 2nmbA b.55.1.2 26993 2bnfB 241 7.38e+01 1gvfA 286 7.48e+01 c.1.10.2 70599 1vhsA 175 7.53e+01 d.108.1.1 100698 1t0iA 191 7.60e+01 c.23.5.4 106209 2ck3A 510 7.66e+01 2f8aA 208 7.66e+01 1uu1A 335 7.68e+01 c.67.1.1 99993 1j1tA 233 7.70e+01 b.29.1.18 90771 1aquA 297 7.75e+01 1aquA c.37.1.5 31942 1mdwA 328 7.78e+01 d.3.1.3 84934 1a8y 367 7.81e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1jeoA 180 7.86e+01 c.80.1.3 66611 1eg7A 557 7.89e+01 1eg7A c.37.1.10 32241 1a04A 215 8.03e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1mtpB 43 8.04e+01 1tlfA 301 8.10e+01 1tlfA c.93.1.1 35687 1r5mA 425 8.11e+01 1ez0A 510 8.13e+01 1eyyA c.82.1.1 35385 1zyiA 171 8.21e+01 1vi2A 300 8.22e+01 c.2.1.7,c.58.1.5 100726,100727 1uheA 97 8.23e+01 1fjhA 257 8.31e+01 1fjhB c.2.1.2 29870 1f56A 91 8.35e+01 2cbp b.6.1.1 22896 1xwsA 313 8.43e+01 2bikB 313 8.43e+01 1k6dA 220 8.44e+01 c.124.1.2 72082 1j8mF 297 8.47e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 3aprE 325 8.53e+01 2er7E b.50.1.2 26820 1x65A 89 8.55e+01 1h2kA 349 8.57e+01 b.82.2.6 76572 1r53A 382 8.68e+01 d.258.1.1 97063 1ijqA 316 8.73e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 2ffsA 157 8.75e+01 1yh1A 359 8.78e+01 2a5jA 191 8.92e+01 1r0vA 305 8.94e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744