# List of top-scoring protein chains for t04-100-30-near-backbone-11 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 1tqnA 486 2.07e-57 1po5A 476 5.29e-55 a.104.1.1 -1467 1bu7A 455 2.13e-48 1bu7A a.104.1.1 18937 1jpzA 473 1.44e-47 a.104.1.1 67069 1n97A 389 2.18e-45 a.104.1.1 80335 1u13A 455 3.10e-40 1e9xA 455 3.24e-40 1ea1A a.104.1.1 18969 1h5zA 455 8.05e-40 a.104.1.1 -1456 1jipA 403 3.98e-30 a.104.1.1 66748 1odoA 408 1.87e-29 a.104.1.1 -1463 1eupA 403 2.03e-29 1rom a.104.1.1 18967 1gwiA 411 3.12e-29 a.104.1.1 76364 1cpt 412 4.18e-29 1cpt a.104.1.1 18968 1q5dA 419 1.91e-28 a.104.1.1 -1454 1uedA 406 2.35e-28 a.104.1.1 -1459 1izoA 417 3.27e-28 a.104.1.1 83851 1jfbA 404 5.78e-28 a.104.1.1 66624 1f24A 402 1.71e-27 1rom a.104.1.1 18953 1lfkA 398 3.41e-26 a.104.1.1 77926 1io7A 368 2.56e-25 1f4tA a.104.1.1 18971 1qmqA 414 1.55e-23 1phd a.104.1.1 18907 1dz4A 414 7.55e-23 1phd a.104.1.1 18903 1n40A 396 8.69e-20 a.104.1.1 79977 1o20A 427 6.48e-01 c.82.1.1 86556 1o1zA 234 7.29e-01 c.1.18.3 86555 1nxcA 478 1.03e+00 a.102.2.1 -1333 1ugpA 203 1.18e+00 1h6kA 757 1.24e+00 unknown_sccs 60675 unknown_sccs 60676 unknown_sccs 60677 1a4mA 349 1.36e+00 1a4mA c.1.9.1 29014 1ireA 204 1.37e+00 d.149.1.1 76769 1odfA 290 1.72e+00 c.37.1.6 -7045 1k1xA 659 1.87e+00 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1n5uA 585 1.90e+00 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1lhpA 312 2.11e+00 c.72.1.5 77960 1ii7A 333 2.21e+00 1ii7A d.159.1.4 62415 1fkx 349 2.28e+00 1a4mA c.1.9.1 29018 1fts 295 2.46e+00 1ng1 a.24.13.1 16968 c.37.1.10 32279 1o0yA 260 2.47e+00 c.1.10.1 80756 1ls1A 295 2.70e+00 a.24.13.1 78170 c.37.1.10 78171 2scpA 174 2.80e+00 2scpA a.39.1.5 17256 1o6uA 403 2.83e+00 a.5.3.1 -366 unknown_sccs -3048 c.13.1.1 -6221 1vizA 240 3.73e+00 c.1.4.1 -5212 2gwxA 267 4.26e+00 2prgA a.123.1.1 19323 1gntA 553 4.41e+00 e.26.1.1 70290 1e2uA 553 5.34e+00 1e1dA e.26.1.1 43362 1exrA 148 5.35e+00 1cll a.39.1.5 17299 1kaeA 434 5.60e+00 c.82.1.2 72247 1c7qA 445 5.64e+00 2pgi c.80.1.2 35307 12asA 330 5.85e+00 12asA d.104.1.1 40783 1j8mF 297 6.08e+00 1ng1 a.24.13.1 62742 c.37.1.10 62743 1jztA 246 6.16e+00 c.104.1.1 63319 1muwA 386 6.33e+00 c.1.15.3 79495 1f0kA 364 6.88e+00 1f0kA c.87.1.2 35465 1gqeA 365 7.13e+00 e.38.1.1 70351 1l0gA 358 7.66e+00 e.3.1.1 73400 2ng1 293 8.20e+00 1ng1 a.24.13.1 16962 c.37.1.10 32273 1g5aA 628 8.23e+00 b.71.1.1 65152 c.1.8.1 65153 1lla 628 8.42e+00 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.18.3 21861 1rkeA 262 8.73e+00 a.24.9.1 -582 a.24.9.1 -583 1ldjA 760 9.05e+00 a.4.5.34 73847 a.118.17.1 73848 e.40.1.1 73849 1ggzA 148 9.57e+00 a.39.1.5 70176 1gs5A 258 9.60e+00 c.73.1.2 70395 1j8yF 297 1.00e+01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1gnlA 544 1.01e+01 e.26.1.1 70287 1n7oA 721 1.02e+01 a.102.3.2 80259 b.24.1.1 80260 b.30.5.2 80261 1mswD 883 1.05e+01 e.8.1.3 79427 1pi4A 358 1.05e+01 e.3.1.1 -11774 1s9rA 410 1.08e+01 unknown_sccs -10989 1s2wA 295 1.15e+01 c.1.12.7 -5577 1fxxA 482 1.15e+01 1fxxA c.55.3.5 33726 1q16A 1247 1.19e+01 b.52.2.2 -4337 c.81.1.1 -8547 1g60A 260 1.21e+01 c.66.1.11 70151 1oafA 261 1.22e+01 a.93.1.1 86734 1fsyA 358 1.22e+01 1gceA e.3.1.1 60016 1iirA 415 1.24e+01 1iirA c.87.1.5 62453 1rypI 222 1.24e+01 d.153.1.4 41877 1ci9A 392 1.28e+01 e.3.1.1 64767 1mkeA 152 1.35e+01 b.55.1.4 79231 1qlpA 394 1.38e+01 1ovaA e.1.1.1 42628 1p68A 102 1.41e+01 k.8.1.1 -13460 1jogA 146 1.41e+01 a.24.16.2 77142 1ad3A 452 1.42e+01 1ad3A c.82.1.1 35335 1n81A 186 1.45e+01 a.185.1.1 85388 1vin 268 1.46e+01 1vin a.74.1.1 18354 a.74.1.1 18355 1pymA 295 1.47e+01 1pymA c.1.12.7 29308 1rtwA 220 1.50e+01 unknown_sccs -1904 1rypJ 204 1.53e+01 d.153.1.4 41878 1li5A 461 1.55e+01 a.27.1.1 73912 c.26.1.1 73913 1gx5A 536 1.57e+01 e.8.1.4 70682 1qlnA 883 1.60e+01 1cezA e.8.1.3 43111 1pjr 724 1.61e+01 1pjr c.37.1.19 32391 c.37.1.19 32392 1a7cA 379 1.70e+01 1sek e.1.1.1 42660 1apxA 249 1.72e+01 1ryc a.93.1.1 18669 1el4A 195 1.75e+01 1ej3A a.39.1.5 59453 1c2pA 576 1.78e+01 1quvA e.8.1.4 43117 1phk 298 1.78e+01 1cdkA d.144.1.7 41635 1ovaA 386 1.80e+01 1ovaA e.1.1.1 42619 1oflA 481 1.83e+01 1j4aA 333 1.87e+01 c.2.1.4 71502 c.23.12.1 71503 1sdoA 203 1.89e+01 unknown_sccs -7558 1gnwA 211 1.89e+01 1gnwA a.45.1.1 17727 c.47.1.5 33021 1tml 286 1.91e+01 1tml c.6.1.1 30656 1uirA 314 1.93e+01 c.66.1.17 -8114 1ui5A 215 1.96e+01 1cb8A 678 1.96e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 1fp3A 402 1.98e+01 1fp3A a.102.1.3 18842 1augA 215 2.01e+01 1a2zA c.56.4.1 33798 1o57A 291 2.07e+01 unknown_sccs -249 c.61.1.1 -7960 1br1B 150 2.08e+01 1wdcC a.39.1.5 17309 1gakA 141 2.08e+01 1gakA a.19.1.1 16415 1mkiA 330 2.11e+01 e.3.1.2 84994 1v93A 296 2.12e+01 c.1.23.1 -5654 1kiyA 374 2.12e+01 a.128.1.5 72555 1ckmA 330 2.13e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1csh 435 2.13e+01 1csh a.103.1.1 18880 1jhgA 101 2.15e+01 1jhgA a.4.12.1 19009 1us7B 265 2.15e+01 unknown_sccs -1518 1m0wA 491 2.16e+01 c.30.1.4 78363 d.142.1.6 78364 1omrA 201 2.17e+01 a.39.1.5 -854 1j1jA 240 2.24e+01 a.118.16.1 -1637 1n1bA 549 2.28e+01 a.102.4.1 79799 a.128.1.3 79800 1bgp 309 2.28e+01 1bgp a.93.1.1 18690 1n45A 233 2.31e+01 a.132.1.1 79981 1c7nA 399 2.34e+01 1d2fA c.67.1.3 34413 1eswA 500 2.34e+01 1cwyA c.1.8.1 59500 1quuA 250 2.35e+01 1quuA a.7.1.1 16320 a.7.1.1 16321 4xis 387 2.36e+01 4xis c.1.15.3 29421 1em2A 229 2.39e+01 1em2A d.129.3.2 41321 3xis 387 2.39e+01 4xis c.1.15.3 29423 1g63A 181 2.41e+01 1g5qA c.34.1.1 60299 1g4yR 148 2.44e+01 1cll a.39.1.5 60252 2cb5A 453 2.47e+01 3gcb d.3.1.1 37035 1f5qB 252 2.48e+01 1f5qB a.74.1.1 18362 a.74.1.1 18363 1sglA 209 2.51e+01 1hqz1 141 2.53e+01 1c3cA 429 2.56e+01 1c3cA a.127.1.1 19425 1qv1A 195 2.61e+01 a.39.1.5 -830 1jf2A 195 2.64e+01 1ej3A a.39.1.5 62930 1vjxA 157 2.67e+01 a.25.1.1 -654 1gr0A 367 2.69e+01 c.2.1.3 70379 d.81.1.3 70380 1o6dA 163 2.69e+01 c.116.1.3 -6689 1i0dA 332 2.71e+01 1pscA c.1.9.3 61487 1nu5A 370 2.72e+01 c.1.11.2 -5565 d.54.1.1 -9823 1r5lA 262 2.75e+01 a.5.3.1 -360 c.13.1.1 -6215 1p35A 299 2.86e+01 1p35A b.28.1.1 23925 1hzyA 332 2.88e+01 1pscA c.1.9.3 61468 1pg4A 652 2.90e+01 e.23.1.1 88067 1lj5A 379 2.91e+01 e.1.1.1 73928 1qusA 322 2.93e+01 1ltm d.2.1.6 36991 1e6yA 569 3.00e+01 1mroA a.89.1.1 18529 d.58.31.2 39447 1dboA 506 3.09e+01 1dbgA b.80.1.4 28034 1gzgA 337 3.12e+01 c.1.10.3 70805 1nv8A 284 3.14e+01 c.66.1.30 86224 1edzA 320 3.17e+01 1ee9A c.2.1.7 30287 c.58.1.2 33935 1b4kA 337 3.18e+01 1b4kA c.1.10.3 29184 1sviA 195 3.18e+01 1rpa 342 3.23e+01 1cviA c.60.1.2 33983 1nw3A 416 3.40e+01 c.66.1.31 86288 1qtqA 553 3.43e+01 1gtrA b.53.1.2 26940 c.26.1.1 31579 1bf5A 545 3.47e+01 1bg1A a.47.1.1 17766 b.2.5.5 22460 d.93.1.1 40526 1f6dA 376 3.54e+01 1f6dA c.87.1.3 35467 1mjnA 179 3.59e+01 c.62.1.1 79210 1dbgA 506 3.61e+01 1dbgA b.80.1.4 28033 1di6A 195 3.65e+01 1di6A c.57.1.1 33863 1i7kA 179 3.66e+01 1u9aA d.20.1.1 61889 1dcs 311 3.74e+01 1dcs b.82.2.1 28124 1s9aA 257 3.75e+01 1sek 378 3.86e+01 1sek e.1.1.1 42675 1f89A 291 3.89e+01 d.160.1.1 64988 1qq8A 214 3.91e+01 1qq8A 1e9lA 377 3.93e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 1lvaA 258 3.98e+01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1msk 331 4.00e+01 1msk d.173.1.1 42495