# List of top-scoring protein chains for T0316.t04-w0.5 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 1korA 400 3.80e-45 c.26.2.1,d.210.1.1 72824,72825 1vl2A 421 5.45e-44 c.26.2.1,d.210.1.1 108708,108709 1gpmA 525 1.13e-30 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1k92A 455 6.05e-26 c.26.2.1,d.210.1.1 68325,68326 1wy5A 317 2.06e-23 1ni5A 433 5.13e-23 c.26.2.5,d.229.1.1 80533,80534 2c5sA 413 1.29e-15 1xngA 268 7.24e-13 1kqpA 271 1.93e-06 c.26.2.1 72883 2d13A 227 3.92e-05 1ru8A 232 1.11e-04 c.26.2.1 97849 1wxiA 275 2.00e-04 1zunA 325 3.39e-04 1m1zA 513 1.79e-03 c.26.2.1,d.153.1.1 78457,78458 1ct9A 553 4.45e-03 1ct9A c.26.2.1,d.153.1.1 31616,41834 1q15A 503 6.29e-03 c.26.2.1,d.153.1.1 95538,95539 1ulzA 451 1.35e-01 b.84.2.1,c.30.1.1,d.142.1.2 99575,99576,99577 1ax4A 467 1.69e-01 1ax4A c.67.1.2 34391 1xi8A 403 3.93e-01 1r89A 437 5.29e-01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1lfpA 249 1.12e+00 e.39.1.1 73885 1jmoA 480 1.14e+00 e.1.1.1 77138 1dceA 567 1.18e+00 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 1jmjA 480 1.26e+00 e.1.1.1 77135 1jmvA 141 1.51e+00 c.26.2.4 66897 1sur 215 1.56e+00 1sur c.26.2.2 31620 2c7fA 513 1.89e+00 2ff4A 388 2.28e+00 1z2iA 358 3.96e+00 2bpqA 373 4.26e+00 1zvwA 378 4.36e+00 1b74A 254 4.59e+00 1b74A c.78.2.1,c.78.2.1 35264,35265 2a1uB 255 4.77e+00 1sawA 225 4.85e+00 1cd9A 175 5.47e+00 1bgc a.26.1.1 16815 1rhgA 174 5.55e+00 1bgc a.26.1.1 16812 1qo7A 394 5.76e+00 1qo7A c.69.1.11 34697 1gnc 178 5.91e+00 1bgc a.26.1.1 16821 2g0tA 350 6.10e+00 1jcnA 514 6.29e+00 c.1.5.1,d.37.1.1,d.37.1.1 84160,84161,84162 1nqeA 594 6.70e+00 f.4.3.3 86027 2c6nA 612 6.95e+00 1tzjA 338 7.85e+00 1xr6A 460 9.16e+00 2alr 324 9.27e+00 1frb c.1.7.1 28679 1nqfA 594 9.41e+00 f.4.3.3 86028 1efvB 255 9.95e+00 1efvB c.26.2.3 31634 1e51A 330 1.01e+01 1b4kA c.1.10.3 59254 1pv8A 330 1.02e+01 c.1.10.3 95155 2cb6A 291 1.03e+01 1uj2A 252 1.04e+01 c.37.1.6 99452 1d7aA 161 1.07e+01 1qczA c.23.8.1 31277 1qczA 169 1.12e+01 1qczA c.23.8.1 31276 1yj5A 383 1.16e+01 1xrjA 261 1.29e+01 1u2eA 289 1.30e+01 1tz7A 505 1.32e+01 1j8yF 297 1.33e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1j8mF 297 1.38e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1uasA 362 1.41e+01 b.71.1.1,c.1.8.1 88388,88389 1agjA 242 1.43e+01 1agjA b.47.1.1 25827 2b43A 526 1.46e+01 1yo8A 634 1.48e+01 1jqoA 970 1.50e+01 c.1.12.3 77160 1bwvA 493 1.51e+01 1burA c.1.14.1,d.58.9.1 29372,39278 1zcbA 362 1.54e+01 1rvxA 327 1.60e+01 b.19.1.2 97937 1dueA 242 1.69e+01 b.47.1.1 76140 1ef7A 242 1.75e+01 1theB d.3.1.1 37087 1sh0A 510 1.80e+01 e.8.1.4 98876 1wqaA 455 1.84e+01 1ruzH 328 1.85e+01 b.19.1.2 97889 1prr 173 1.87e+01 1prs b.11.1.1,b.11.1.1 23623,23624 1tuoA 464 1.94e+01 1k3aA 299 2.02e+01 d.144.1.7 68098 1mj1A 405 2.04e+01 i.1.1.1 79175 1yw4A 341 2.05e+01 1oizA 278 2.17e+01 a.5.3.1,c.13.1.1 93079,93080 1k6mA 432 2.23e+01 c.37.1.7,c.60.1.4 77275,77276 1xjbA 325 2.28e+01 2cb4A 291 2.36e+01 1bwsA 321 2.43e+01 1bsvA c.2.1.2 29812 1ihiA 323 2.45e+01 c.1.7.1 66142 1r31A 428 2.50e+01 d.58.20.1,d.179.1.1 96897,96898 1j96A 323 2.52e+01 c.1.7.1 71616 1m7nA 322 2.52e+01 d.144.1.7 78738 1bev3 242 2.57e+01 1aym3 1oxxK 353 2.57e+01 b.40.6.3,c.37.1.12 93715,93716 1bsvA 321 2.68e+01 1bsvA c.2.1.2 29809 1v4vA 376 2.70e+01 c.87.1.3 100313 2a2pA 129 2.71e+01 1w9yA 319 2.72e+01 1jqhA 308 2.73e+01 d.144.1.7 71793 1ozhA 566 2.90e+01 c.31.1.3,c.36.1.5,c.36.1.9 93833,93834,93835 1deuA 277 2.94e+01 1theB d.3.1.1 37085 1e6uA 321 2.95e+01 1bsvA c.2.1.2 29805 1e7sA 321 2.99e+01 1bsvA c.2.1.2 29806 1rx0A 393 3.02e+01 a.29.3.1,e.6.1.1 98007,98008 1oxsC 353 3.06e+01 b.40.6.3,c.37.1.12 87519,87520 1ru3A 732 3.11e+01 e.26.1.3 97835 1kagA 173 3.19e+01 c.37.1.2 72249 2aj4A 548 3.19e+01 1rcwA 231 3.21e+01 a.132.1.4 97299 1e7qA 321 3.34e+01 1bsvA c.2.1.2 29807 2aw4I 141 3.54e+01 1p4oA 322 3.55e+01 d.144.1.7 87775 1xpgA 765 3.57e+01 1uyjA 296 3.62e+01 f.8.1.2 108143 1hxjA 507 3.66e+01 c.1.8.4 76729 1xdjA 766 3.71e+01 1souA 194 3.72e+01 c.124.1.6 105858 2a6hC 1119 3.72e+01 1cnv 299 3.83e+01 1cnv c.1.8.5 28989 1jr1A 514 3.84e+01 c.1.5.1,d.37.1.1,d.37.1.1 63241,63242,63243 1e1eA 512 3.86e+01 1e70M c.1.8.4 28944 1v08A 512 3.88e+01 c.1.8.4 108202 1h49A 512 3.91e+01 c.1.8.4 83477 1g5aA 628 3.92e+01 b.71.1.1,c.1.8.1 65152,65153 1gudA 288 3.93e+01 c.93.1.1 83326 1jteA 307 4.00e+01 c.66.1.25 71860 1yovA 537 4.11e+01 1pii 452 4.11e+01 1pii c.1.2.4,c.1.2.4 28559,28563 1t7lA 766 4.15e+01 1wiwA 290 4.22e+01 1su5A 247 4.27e+01 c.1.1.1 106020 3mag 307 4.38e+01 3mag c.66.1.25 34205 2fk0A 334 4.41e+01 1jhzA 289 4.48e+01 c.93.1.1 66731 1e7rA 321 4.52e+01 1bsvA c.2.1.2 29808 1eamA 307 4.55e+01 3mag c.66.1.25 34212 1bqg 451 4.64e+01 1bqg c.1.11.2,d.54.1.1 29217,38861 1jfsA 340 4.65e+01 a.35.1.5,c.93.1.1 66650,66651 1njgA 250 4.69e+01 c.37.1.20 85785 1nf7A 514 4.75e+01 c.1.5.1,d.37.1.1,d.37.1.1 91852,91853,91854 1ekqA 272 4.80e+01 1c3qA c.72.1.2 34941 1vp8A 201 4.82e+01 1pqwA 198 4.90e+01 c.2.1.1 88278 1zoiA 276 5.03e+01 1ti6A 875 5.04e+01 b.52.2.2,c.81.1.1 106974,106975 1lfwA 470 5.06e+01 c.56.5.4,d.58.19.1 77942,77943 1pxtA 390 5.08e+01 1afwA c.95.1.1,c.95.1.1 35904,35905 1av6A 295 5.08e+01 3mag c.66.1.25 34218 1yhgA 239 5.09e+01 1m1jB 464 5.14e+01 d.171.1.1,h.1.8.1 74370,74371 1afwA 393 5.17e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 1vfgA 390 5.25e+01 a.173.1.1,d.218.1.4 108570,108571 1gveA 327 5.27e+01 c.1.7.1 70597 2pucA 340 5.28e+01 1qpzA a.35.1.5,c.93.1.1 17094,35684 3mct 297 5.29e+01 3mag c.66.1.25 34215 1y4jA 284 5.31e+01 2ga9A 297 5.37e+01 1jr2A 286 5.41e+01 c.113.1.1 67111 2pugA 340 5.42e+01 1qpzA a.35.1.5,c.93.1.1 17088,35683 1dbqA 289 5.47e+01 1qpzA c.93.1.1 35666 1jpzA 473 5.54e+01 a.104.1.1 67069 1tx2A 297 5.60e+01 c.1.21.1 107420 1jsmA 325 5.61e+01 b.19.1.2 63264 1eqa 297 5.61e+01 3mag c.66.1.25 34216 1cv7A 226 5.64e+01 d.22.1.1 90428 1qpzA 340 5.66e+01 1qpzA a.35.1.5,c.93.1.1 17097,35673 1qqbA 340 5.67e+01 1qpzA a.35.1.5,c.93.1.1 17099,35674 1vpwA 340 5.71e+01 1qpzA a.35.1.5,c.93.1.1 17087,35680 1j1tA 233 5.72e+01 b.29.1.18 90771 1mvyA 628 5.78e+01 b.71.1.1,c.1.8.1 79547,79548 4dcg 307 5.89e+01 3mag c.66.1.25 34208 2bkeA 324 6.02e+01 1oaoC 729 6.08e+01 e.26.1.3 86746 1hkvA 453 6.10e+01 b.49.2.3,c.1.6.1 83559,83560 1dot 686 6.11e+01 1nnt c.94.1.2,c.94.1.2 35876,35877 1smiA 471 6.17e+01 a.104.1.1 105758 1jgiA 628 6.20e+01 b.71.1.1,c.1.8.1 66676,66677 2hpdA 471 6.23e+01 1bu7A a.104.1.1 18939 2cevA 299 6.25e+01 1d3vA c.42.1.1 32576 1jftA 340 6.26e+01 a.35.1.5,c.93.1.1 66652,66653 1fahA 471 6.36e+01 1bu7A a.104.1.1 18945 1yqpA 455 6.41e+01 1dt2A 245 6.41e+01 b.47.1.1 76138 1jmeA 455 6.42e+01 a.104.1.1 66885 1bvyA 458 6.42e+01 1bu7A a.104.1.1 18943 1x0mA 403 6.48e+01 1r6bX 758 6.50e+01 a.174.1.1,c.37.1.20,c.37.1.20 104818,104819,104820 1xeuA 263 6.51e+01 1bu7A 455 6.59e+01 1bu7A a.104.1.1 18937 1k6yA 288 6.63e+01 a.4.10.1,c.55.3.2 68239,68240 1mjgM 729 6.67e+01 e.26.1.3 79204 1npsA 88 6.67e+01 1prs b.11.1.1 23622 1nmoA 247 6.68e+01 c.135.1.1 91980 1qyoA 239 6.70e+01 d.22.1.1 96601 1shzA 340 6.73e+01 2fvlA 324 6.73e+01 1vh7A 265 6.77e+01 c.1.2.1 100646 1yqoA 455 6.78e+01 1gc5A 467 7.08e+01 1gc5A c.72.1.3 60429 1p0vA 455 7.16e+01 a.104.1.1 93876 1p0wA 455 7.23e+01 a.104.1.1 93878 1by1A 209 7.29e+01 1by1A a.87.1.1 18515 1l2lA 457 7.30e+01 c.72.1.3 77656 1gc0A 398 7.36e+01 c.67.1.3 70168 1d2eA 397 7.39e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1p0xA 455 7.55e+01 a.104.1.1 93880 1n4qB 377 7.60e+01 a.102.4.3 91636 1vliA 385 7.65e+01 b.85.1.1,c.1.10.6 108830,108831 1rvtH 328 7.68e+01 b.19.1.2 97931 1wcgA 464 7.73e+01 1doqA 69 7.89e+01 1coo a.60.3.1 17968 1i58A 189 7.90e+01 1b3qA d.122.1.3 61773 1sw7A 248 7.93e+01 c.1.1.1 106073 1wzaA 488 7.97e+01 1qv6A 374 7.98e+01 b.35.1.2,c.2.1.1 96348,96349 1wjgA 137 7.98e+01 2d83A 363 7.98e+01 2fctA 313 8.05e+01 1b3qA 379 8.16e+01 1b3qA a.30.2.1,b.40.7.1,d.122.1.3 16993,25454,41112 1uwvA 433 8.22e+01 b.40.4.12,c.66.1.40 100128,100129 2cv9A 252 8.28e+01 2ch4A 320 8.32e+01 1tlyA 278 8.37e+01 f.4.6.1 107143 1xb2A 409 8.49e+01 1szuA 426 8.53e+01 1kit 757 8.53e+01 1kit b.29.1.8,b.29.1.8,b.68.1.1 24272,24273,27616 1lf1A 308 8.60e+01 c.1.8.3 73877 1ru7A 327 8.63e+01 b.19.1.2 97837 1qvbA 481 8.69e+01 1qvbA c.1.8.4 28983 1i5dA 191 8.71e+01 1b3qA d.122.1.3 61783 1sjiA 350 8.84e+01 1gveB 327 8.88e+01 c.1.7.1 70598 1mrqA 323 8.90e+01 c.1.7.1 91445 1uteA 313 8.93e+01 1uteA d.159.1.1 42078 1nmsA 249 8.97e+01 c.17.1.1 85879