# List of top-scoring protein chains for T0323.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 1ornA 226 5.57e-27 a.96.1.1 87342 1p59A 226 5.85e-27 a.96.1.1 87794 1kg6A 225 1.95e-25 a.96.1.2 77382 1kg2A 225 2.14e-25 a.96.1.2 77378 1kqjA 225 2.22e-25 a.96.1.2 72879 1kg5A 225 2.29e-25 a.96.1.2 77381 1weiA 225 2.52e-25 a.96.1.2 109339 2abk 211 3.14e-25 2abk a.96.1.1 18743 1kg4A 225 3.15e-25 a.96.1.2 77380 1kg7A 225 3.41e-25 a.96.1.2 77383 1mun 225 8.67e-25 1mun a.96.1.2 18744 1rrsA 369 9.07e-24 a.96.1.2,d.113.1.3 97800,97801 1rrqA 369 1.33e-23 a.96.1.2,d.113.1.3 97798,97799 1ko9A 345 6.01e-22 a.96.1.3,d.129.1.2 68717,68718 1lwyA 324 9.29e-22 a.96.1.3,d.129.1.2 78285,78286 1fn7A 317 9.97e-22 1ebmA a.96.1.3,d.129.1.2 59892,59893 1ebmA 317 2.16e-21 1ebmA a.96.1.3,d.129.1.2 18751,41300 1yqkA 319 3.66e-21 1n3cA 317 4.23e-21 a.96.1.3,d.129.1.2 85293,85294 1m3qA 317 4.39e-21 a.96.1.3,d.129.1.2 91184,91185 1yqrA 319 7.97e-21 1n3aA 317 8.75e-21 a.96.1.3,d.129.1.2 85291,85292 1mpgA 282 2.06e-20 1mpgA a.96.1.3,d.129.1.2 18747,41296 1keaA 221 3.93e-20 a.96.1.2 68491 1pu6A 218 3.53e-14 a.96.1.5 95123 1ngnA 155 3.72e-08 a.96.1.2 85697 2csbA 519 4.55e-02 1z00A 89 4.84e-01 1y88A 199 6.78e-01 2a1jB 91 7.79e-01 1nc5A 373 1.18e+00 a.102.1.6 85548 2bhnA 214 1.24e+00 2bgwA 219 1.36e+00 1x2iA 75 1.42e+00 1y6iA 233 2.33e+00 1bvsA 203 2.51e+00 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16280,17955,25274 1vddA 228 2.66e+00 e.49.1.1 108519 1qzxA 440 2.79e+00 a.24.13.1,a.36.1.1,c.37.1.10 96711,96712,96713 1vicA 262 2.92e+00 c.68.1.13 100756 1ynjA 314 4.03e+00 1i6vA 314 4.26e+00 d.74.3.1,d.181.1.1 61852,61853 1vp8A 201 4.77e+00 1cuk 203 4.97e+00 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1xwiA 322 5.33e+00 1ixrA 191 5.55e+00 a.60.2.1,b.40.4.2 76925,76926 1hjp 203 5.58e+00 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16274,17947,25266 1gq2A 555 5.63e+00 c.2.1.7,c.58.1.3 70308,70309 1d8lA 149 6.52e+00 1hjp a.60.2.1,b.40.4.2 17948,25267 1z82A 335 6.56e+00 1hqmA 313 6.98e+00 i.8.1.1 45972 1n8iA 741 8.19e+00 c.1.13.1 80297 1b22A 114 9.78e+00 1b22A a.60.4.1 17969 2a6hA 315 1.01e+01 2bg9C 369 1.22e+01 1v8gA 329 1.72e+01 a.46.2.1,c.27.1.1 100505,100506 2asdA 360 1.80e+01 1jm6A 407 1.83e+01 a.29.5.1,d.122.1.4 66876,66877 1e3cP 489 1.98e+01 1auk c.76.1.2 59187 1e2sP 489 2.03e+01 1auk c.76.1.2 35031 1e1zP 489 2.07e+01 1auk c.76.1.2 59158 1e33P 489 2.08e+01 1auk c.76.1.2 59186 1auk 489 2.18e+01 1auk c.76.1.2 35030 1qhtA 775 2.23e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1ztmA 490 2.23e+01 1umpA 631 2.23e+01 a.102.4.2,a.102.4.2 99619,99620 1lmzA 187 2.25e+01 a.96.1.4 74037 1pznA 349 2.33e+01 a.60.4.1,c.37.1.11 95456,95457 2aynA 404 2.40e+01 1x2gA 337 2.43e+01 2sqcA 631 2.56e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1g99A 408 2.61e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 2a19A 175 2.63e+01 1q46A 175 2.65e+01 b.40.4.5 95782 1tuuA 399 2.65e+01 1v9pA 584 2.77e+01 a.60.2.2,b.40.4.6,d.142.2.2 100544,100545,100546 3sqcA 631 2.78e+01 2sqcA a.102.4.2,a.102.4.2 18860,18861 1dgsA 667 2.78e+01 1dgsA a.60.2.2,b.40.4.6,d.142.2.2 17963,25365,41581 1mx3A 347 2.81e+01 c.2.1.4,c.23.12.1 79638,79639 1j8mF 297 2.87e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 3gcb 470 2.88e+01 3gcb d.3.1.1 37032 1j8yF 297 2.93e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1a6r 471 2.93e+01 3gcb d.3.1.1 37033 2btzA 394 3.02e+01 1tjyA 316 3.18e+01 c.93.1.1 107062 1dt1A 129 3.18e+01 1c52 a.3.1.1 15811 1c52 131 3.19e+01 1c52 a.3.1.1 15810 1focA 132 3.19e+01 1c52 a.3.1.1 15812 2fwlA 133 3.20e+01 1ho3A 326 3.20e+01 4pgaA c.88.1.1 61101 1ayzA 169 3.22e+01 1u9aA d.20.1.1 38326 1tjrA 261 3.30e+01 2agqA 341 3.36e+01 1zlpA 318 3.37e+01 2bl0B 145 3.38e+01 1p9bA 442 3.43e+01 c.37.1.10 94385 1zpdA 568 3.47e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1szpA 321 3.57e+01 a.60.4.1,c.37.1.11 106176,106177 1u2zA 433 3.59e+01 c.66.1.31 107626 1qqcA 773 3.61e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1nnsA 326 3.74e+01 c.88.1.1 85910 1jazA 326 3.77e+01 c.88.1.1 90883 4ecaA 326 3.77e+01 4pgaA c.88.1.1 35550 2bq3A 358 3.79e+01 2f6uA 234 3.92e+01 1gcb 454 4.00e+01 3gcb d.3.1.1 37034 1d5aA 733 4.01e+01 1tgoA c.55.3.5,e.8.1.1 33723,43012 1bg1A 596 4.12e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1jx4A 352 4.23e+01 d.240.1.1,e.8.1.7 90378,90379 2bp5M 435 4.34e+01 1gw5M 435 4.34e+01 b.2.7.1,d.110.4.2 70631,70632 1vqoY 241 4.37e+01 1jm1A 204 4.56e+01 b.33.1.1 71745 1pujA 282 4.57e+01 c.37.1.8 88294 1jj2X 240 4.63e+01 1ffkV c.9.2.1 63109 1txgA 335 4.65e+01 1ydhA 216 4.70e+01 2az4A 429 4.72e+01 1vk3A 615 4.74e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1g71A 347 4.75e+01 1g71A d.264.1.1 43268 2ch1A 396 4.79e+01 1jiqA 558 4.85e+01 c.80.1.2 71689 1xvlA 321 4.86e+01 1wcnA 70 4.91e+01 1iatA 557 4.92e+01 1dqrA c.80.1.2 62123 1jtaA 361 5.00e+01 b.80.1.1 71859 1pe9A 361 5.00e+01 b.80.1.1 94595 1n5xA 1331 5.03e+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 85342,85343,85344,85345,85346,85347 1v97A 1332 5.05e+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 1jlhA 558 5.06e+01 c.80.1.2 77131 1vl8A 267 5.25e+01 c.2.1.2 108733 1nyaA 176 5.28e+01 a.39.1.5 92335 2tbvA 387 5.53e+01 2tbvA b.121.4.7 23302 1f6fA 199 5.55e+01 1f6fA a.26.1.1 16839 2fgcA 193 5.76e+01 1byeA 213 5.84e+01 1gnwA a.45.1.1,c.47.1.5 17732,33026 1dxlA 470 5.92e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30585,30586,40214 1yizA 429 5.95e+01 1axdA 209 6.02e+01 1gnwA a.45.1.1,c.47.1.5 17730,33024 1x40A 91 6.05e+01 1tcvA 287 6.10e+01 1dtyA 429 6.39e+01 1dtyA c.67.1.4 34495 1zhhA 344 6.78e+01 1jx6A 342 6.79e+01 c.93.1.1 67406 2g8lA 299 6.85e+01 1w79A 489 6.89e+01 1rf6A 427 7.03e+01 d.68.2.2 97366 1hkuA 358 7.04e+01 c.2.1.4,c.23.12.1 83557,83558 2bvfA 459 7.07e+01 1mijA 152 7.14e+01 a.4.1.1 79150 1j31A 262 7.38e+01 d.160.1.2 90808 1d2nA 272 7.46e+01 1d2nA c.37.1.20 32428 1s07A 429 7.47e+01 c.67.1.4 98257 1zq1C 633 7.49e+01 1mgvA 429 7.94e+01 c.67.1.4 79107 2chlA 351 7.95e+01 1qj5A 429 8.18e+01 1dtyA c.67.1.4 34493 2avyJ 103 8.20e+01 1s0aA 429 8.31e+01 c.67.1.4 98263 1lfuP 82 8.33e+01 a.4.1.1 77939 1j1iA 296 8.41e+01 c.69.1.10 83977 1l1fA 505 8.45e+01 c.2.1.7,c.58.1.1 73456,73457 1rlr 761 8.46e+01 1rlr a.98.1.1,c.7.1.2 18753,30679 1no1A 126 8.48e+01 a.179.1.1 85913 1s08A 429 8.77e+01 c.67.1.4 98259 1s09A 429 8.78e+01 c.67.1.4 98261 1xoyA 161 8.82e+01 6r1rA 761 8.96e+01 1rlr a.98.1.1,c.7.1.2 18760,30686 2r1rA 761 8.97e+01 1rlr a.98.1.1,c.7.1.2 18769,30695 4r1rA 761 8.98e+01 1rlr a.98.1.1,c.7.1.2 18772,30698 7r1rA 761 8.98e+01 1rlr a.98.1.1,c.7.1.2 18763,30689 5r1rA 761 8.98e+01 1rlr a.98.1.1,c.7.1.2 18757,30683