# List of top-scoring protein chains for t04-100-30-n_notor2-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 1xxsA 122 3.42e-01 1zwpA 121 3.75e-01 1sqzA 121 4.01e-01 a.133.1.2 98975 1tj9A 121 4.33e-01 a.133.1.2 107015 1tk4A 121 5.04e-01 a.133.1.2 107073 2g58A 121 6.16e-01 1w0dA 337 7.21e-01 1wnyA 186 7.42e-01 1d8cA 723 8.23e-01 1d8cA c.1.13.1 29325 1ile 821 2.68e+00 1ile a.27.1.1,b.51.1.1,c.26.1.1 16924,26889,31591 1hqsA 423 2.75e+00 1iso c.77.1.1 61154 1qorA 327 3.22e+00 1qorA b.35.1.2,c.2.1.1 24766,29782 1fohA 664 3.23e+00 1fohA c.3.1.2,c.47.1.10,d.16.1.2 30381,33078,37900 1ne7A 289 3.23e+00 c.124.1.1 91833 1d2tA 231 3.39e+00 1d2tA a.111.1.1 19052 1vgjA 184 3.40e+00 1n4kA 381 4.44e+00 a.118.22.1,b.42.6.1 79992,79993 1riqA 465 4.57e+00 a.203.1.1,d.104.1.1 97516,97517 1h1nA 305 5.14e+00 c.1.8.3 70855 1nq7A 244 5.59e+00 a.123.1.1 92047 1b65A 375 6.01e+00 1b65A d.154.1.1 42020 1wpgA 994 6.82e+00 1ihp 438 7.01e+00 1ihp c.60.1.2 33993 1d4xG 126 7.19e+00 1d0nA d.109.1.1 59109 2cvzA 289 7.24e+00 1u4gA 301 7.30e+00 d.92.1.2 107670 1zk7A 467 7.31e+00 1v25A 541 7.49e+00 e.23.1.1 108275 1e4cP 215 7.65e+00 2fua c.74.1.1 34969 1ta8A 332 7.82e+00 1vjpA 394 7.94e+00 c.2.1.3,d.81.1.3 100828,100829 1y0pA 571 7.95e+00 1qvbA 481 8.27e+00 1qvbA c.1.8.4 28983 1pvyA 227 8.60e+00 d.115.1.2 95195 1o70A 324 9.28e+00 b.118.1.1,b.118.1.1 81115,81116 1pieA 419 9.47e+00 d.14.1.5,d.58.26.7 94706,94707 1lldA 319 9.67e+00 3ldh c.2.1.5,d.162.1.1 30177,42144 1xipA 388 1.01e+01 1ir3A 306 1.02e+01 1fmk d.144.1.7 41702 1rg9A 383 1.04e+01 d.130.1.1,d.130.1.1,d.130.1.1 97427,97428,97429 1ojrA 274 1.09e+01 c.74.1.1 93147 1hp5A 512 1.11e+01 1hp4A c.1.8.6,d.92.2.1 61113,61114 2a2kA 175 1.12e+01 1e79D 482 1.13e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1jakA 512 1.13e+01 c.1.8.6,d.92.2.1 66472,66473 2gl5A 410 1.15e+01 1fcjA 322 1.16e+01 1oasA c.79.1.1 35289 1ecfA 504 1.25e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1eulA 994 1.26e+01 1eulA 1r1hA 696 1.30e+01 d.92.1.4 104756 1txkA 498 1.30e+01 b.1.18.2,b.30.5.9 107425,107426 1gc0A 398 1.31e+01 c.67.1.3 70168 1evuA 731 1.31e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1ve5A 311 1.31e+01 1xwvA 129 1.35e+01 1jchA 551 1.36e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1djxB 624 1.39e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1y5iA 1246 1.43e+01 2btvA 901 1.47e+01 2btvA e.28.1.1 43376 1nnfA 309 1.50e+01 c.94.1.1 85903 1u69A 163 1.61e+01 d.32.1.7 107699 1ppjA 446 1.66e+01 d.185.1.1,d.185.1.1 104252,104253 1suuA 312 1.66e+01 b.68.10.1 99006 1qmeA 702 1.67e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1d7uA 433 1.70e+01 2dkb c.67.1.4 34439 2d0iA 333 1.75e+01 2eu9A 355 1.78e+01 1aisA 182 1.80e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1a1x 108 1.82e+01 1a1x b.63.1.1 27514 2bbdA 350 1.84e+01 1jndA 420 1.89e+01 c.1.8.5,d.26.3.1 71757,71758 1g71A 347 1.89e+01 1g71A d.264.1.1 43268 1ea7A 310 1.90e+01 c.41.1.1 70086 1l5aA 436 1.92e+01 c.43.1.2,c.43.1.2 75923,75924 1mvfA 135 1.94e+01 b.1.1.1 85141 1dcqA 278 2.01e+01 1dcqA d.211.1.1,g.45.1.1 19178,45326 3prn 289 2.06e+01 3prn f.4.3.1 43761 1xrtA 467 2.10e+01 1wlsA 328 2.10e+01 1xfdA 723 2.13e+01 1eu1A 780 2.15e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1hyoA 421 2.15e+01 1qcnA b.34.8.1,d.177.1.1 59001,59002 1cq3A 233 2.16e+01 1cq3A b.27.1.1 23923 2btfA 375 2.16e+01 1yagA c.55.1.1,c.55.1.1 33429,33430 1agjA 242 2.18e+01 1agjA b.47.1.1 25827 1b0uA 262 2.23e+01 1b0uA c.37.1.12 32370 1whsA 255 2.31e+01 1ivyA c.69.1.5 34649 1cs6A 382 2.31e+01 1cs6A b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21760,21761,21762,21763 1ju2A 536 2.37e+01 c.3.1.2,d.16.1.1 77169,77170 1j09A 468 2.39e+01 a.97.1.1,c.26.1.1 77025,77026 1ikpA 613 2.39e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1a48 306 2.39e+01 1a48 d.143.1.1 41590 1ps9A 671 2.39e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1v33A 366 2.44e+01 d.264.1.1 100278 1iejA 332 2.46e+01 1nnt c.94.1.2 62328 1iyxA 432 2.59e+01 c.1.11.1,d.54.1.1 83815,83816 1pixA 587 2.68e+01 c.14.1.4 94708 1nksA 194 2.69e+01 1nksA c.37.1.1 31886 1ceo 343 2.70e+01 1ceo c.1.8.3 28808 1qhxA 178 2.78e+01 1qhsA c.37.1.3 31936 1jetA 517 2.80e+01 1jevA c.94.1.1 35718 2ganA 190 2.80e+01 1de4C 640 2.81e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1tml 286 2.82e+01 1tml c.6.1.1 30656 2ceyA 306 2.84e+01 2d0oA 610 2.86e+01 1eu8A 409 2.88e+01 1eu8A c.94.1.1 59502 1tl0D 103 2.96e+01 2b8nA 429 2.97e+01 1xc1A 309 3.02e+01 c.94.1.1 109543 1vhsA 175 3.02e+01 d.108.1.1 100698 2fomB 185 3.02e+01 1twuA 139 3.07e+01 d.32.1.8 107413 1nnjA 271 3.12e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1bcpD 110 3.19e+01 1bcpD b.40.2.1 25132 1qjpA 171 3.20e+01 1bxwA f.4.1.1 43742 1pzxA 289 3.20e+01 c.119.1.1 95484 1d9tA 289 3.23e+01 1deaA 1ukgA 252 3.23e+01 b.29.1.1 99489 1iqaA 160 3.24e+01 b.22.1.1 71274 2fymA 431 3.24e+01 2aioA 269 3.24e+01 1ad2 228 3.27e+01 1ad2 e.24.1.1 43353 1ujnA 348 3.29e+01 e.22.1.1 99460 1j4aA 333 3.31e+01 c.2.1.4,c.23.12.1 71502,71503 1wf3A 301 3.35e+01 1k0wA 231 3.38e+01 c.74.1.1 77220 1k7iA 479 3.39e+01 b.80.7.1,d.92.1.6 77281,77282 1r1a1 287 3.40e+01 1aym1 1nm1G 125 3.43e+01 d.109.1.1 80653 1jvsA 400 3.45e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 2c0hA 353 3.48e+01 1o0xA 262 3.50e+01 d.127.1.1 80755 1fnuA 221 3.53e+01 3seb b.40.2.2,d.15.6.1 25212,37801 1j7gA 144 3.58e+01 c.110.1.1 84130 2ae5B 528 3.60e+01 1bu7A 455 3.62e+01 1bu7A a.104.1.1 18937 1ex0A 731 3.62e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 2bodX 286 3.63e+01 1xa0A 328 3.66e+01 1itcA 516 3.72e+01 b.3.1.1,c.1.8.1 83705,83706 2fsrA 195 3.75e+01 2a2nA 176 3.77e+01 1tvkA 440 3.80e+01 c.32.1.1,d.79.2.1 107362,107363 1vjlA 164 3.80e+01 d.257.1.1 100822 2pvaA 345 3.82e+01 3pvaA d.153.1.3 41850 1b4vA 504 3.84e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 1zybA 232 3.89e+01 1wkbA 810 3.95e+01 2madH 373 3.97e+01 2bbkH b.69.2.1 27639 1p7tA 731 4.00e+01 c.1.13.1 94319 1gt91 357 4.05e+01 1m3sA 186 4.05e+01 c.80.1.3 78573 1xdwA 331 4.11e+01 1vj5A 555 4.14e+01 c.108.1.2,c.69.1.11 100799,100800 1o7tA 309 4.15e+01 c.94.1.1 86645 2b5hA 200 4.16e+01 2b4gA 317 4.25e+01 1txnA 328 4.31e+01 3chbD 104 4.46e+01 3chbD b.40.2.1 24970 1mjc 69 4.48e+01 1mjc b.40.4.5 25319 1z63A 500 4.53e+01 1g8aA 227 4.59e+01 c.66.1.3 90506 1m65A 245 4.71e+01 c.6.3.1 84847 2furA 209 4.89e+01 1wwzA 159 4.90e+01 1ui7A 638 4.92e+01 b.30.2.1,d.17.2.1,d.17.2.1 99413,99414,99415 1w6tA 444 4.95e+01 1dm5A 315 5.02e+01 1avc a.65.1.1 18186 1who 96 5.02e+01 1who b.7.3.1 23215 2gjgA 248 5.07e+01 1htqA 477 5.14e+01 d.15.9.1,d.128.1.1 71035,71036 1u8fO 335 5.14e+01 1p4kA 295 5.16e+01 d.153.1.5 87772 1t1gA 364 5.17e+01 c.41.1.2 106246 1fm0E 150 5.18e+01 1fmaE d.41.5.1 38629 2fpqA 444 5.18e+01 1nqkA 381 5.19e+01 c.1.16.4 92050 2biiA 424 5.21e+01 1bpoA 494 5.23e+01 1bpoA a.118.1.4,b.69.6.1 19143,27670 2atfA 200 5.26e+01 2fdiA 211 5.28e+01 1ej6B 1275 5.33e+01 i.7.1.1 45968 1gox 370 5.35e+01 1gox c.1.4.1 28607 1mxtA 504 5.38e+01 c.3.1.2,d.16.1.1 79671,79672 1y791 680 5.46e+01 1is1A 185 5.50e+01 d.67.3.1 83704 1lehA 364 5.61e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1wbpA 397 5.71e+01 1qf5A 431 5.80e+01 1adeA c.37.1.10 32212 1v97A 1332 5.82e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1j1lA 290 5.86e+01 b.82.1.12 90766 1lvmA 229 5.95e+01 b.47.1.3 78243 1s6lA 212 5.95e+01 1gnd 447 5.98e+01 1gnd c.3.1.3,d.16.1.6 30423,37987 1jr7A 311 6.00e+01 b.82.2.3 63255 1n28A 124 6.02e+01 a.133.1.2 91550 1twdA 256 6.04e+01 c.1.30.1 107397 1ulkA 126 6.08e+01 g.3.1.1,g.3.1.1,g.3.1.1 99559,99560,99561 1ghpA 258 6.12e+01 1btl e.3.1.1 60520 1nf2A 268 6.16e+01 c.108.1.10 91849 1cnzA 363 6.20e+01 1cnzA c.77.1.1 35061 2exrA 524 6.21e+01 1lnsA 763 6.31e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1e7uA 961 6.33e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1gppA 237 6.43e+01 b.86.1.2 76262 1djrD 103 6.45e+01 3chbD b.40.2.1 24865 1t2wA 145 6.48e+01 b.100.1.1 106289 1jmuB 666 6.52e+01 1vi4A 174 6.71e+01 c.8.7.1 100731 1gz6A 319 6.83e+01 c.2.1.2 76410 1te5A 257 6.84e+01 d.153.1.1 106795 1jovA 270 6.88e+01 b.30.5.7 84192 2av4A 162 6.91e+01 1h09A 338 7.10e+01 b.109.1.1,c.1.8.8 83420,83421 1obbA 480 7.12e+01 c.2.1.5,d.162.1.2 86760,86761 1q9iA 571 7.13e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1se8A 301 7.13e+01 b.40.4.3 105448 1ejxC 567 7.13e+01 b.92.1.1,c.1.9.2 83184,83185 1atg 231 7.20e+01 1atg c.94.1.1 35834 1vloA 381 7.26e+01 b.44.2.1,d.250.1.1 108838,108839 1x9dA 538 7.28e+01 1sxgA 280 7.32e+01 1mwmA 320 7.42e+01 c.55.1.1,c.55.1.1 79580,79581 1tqnA 486 7.42e+01 a.104.1.1 107238 1tdhA 364 7.51e+01 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1n7zA 334 7.52e+01 b.127.1.1 85380 1n4wA 504 7.67e+01 c.3.1.2,d.16.1.1 91676,91677 1f1uA 323 7.68e+01 d.32.1.3,d.32.1.3 83200,83201 1wekA 217 7.70e+01 1g0uG 252 7.70e+01 d.153.1.4 41952 1lu4A 136 7.76e+01 c.47.1.10 91124 1ae7 119 7.83e+01 1poa a.133.1.2 19553 2b0oE 301 7.86e+01 1nf9A 207 7.89e+01 c.33.1.3 85631 1ve3A 227 7.89e+01 1z8gA 372 7.90e+01 2bogX 286 7.94e+01 1kblA 873 7.94e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1khoA 370 7.96e+01 a.124.1.1,b.12.1.3 72489,72490 1ni4A 365 7.96e+01 c.36.1.11 85728 1wm5A 208 7.99e+01 2c1vA 338 7.99e+01 1gxjA 186 8.03e+01 d.215.1.1 70707 1b9hA 388 8.04e+01 1b9hA c.67.1.4 34488 1vkhA 273 8.08e+01 c.69.1.32 108662 1wdkC 390 8.18e+01 c.95.1.1,c.95.1.1 109258,109259 1n7oA 721 8.19e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1b12A 248 8.22e+01 1b12A b.87.1.2 28388 1oyeA 1049 8.27e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1w99A 558 8.29e+01 1thjA 214 8.32e+01 1qreA b.81.1.5 28072 1hh8A 213 8.48e+01 1e96B a.118.8.1 61042 1ftrA 296 8.52e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1bif 469 8.52e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1yvkA 163 8.55e+01 1ntyA 311 8.67e+01 a.87.1.1,b.55.1.1 103873,103874 1t13A 158 8.68e+01 1t9kA 347 8.69e+01 c.124.1.5 106721 1xovA 326 8.75e+01 1wdyA 285 8.77e+01 2ff4A 388 8.80e+01 1h1yA 228 8.86e+01 c.1.2.2 76506 1zvtA 256 8.90e+01 1hyuA 521 8.92e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1lniA 96 8.96e+01 d.1.1.2 74046 1c8uA 285 8.97e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1feuA 206 9.00e+01 1feuA b.53.1.1 59801