# List of top-scoring protein chains for T0234.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 1dnlA 199 1.20e-20 1ci0A b.45.1.1 25753 1g79A 218 1.20e-20 1ci0A b.45.1.1 25752 1nrgA 261 4.79e-16 b.45.1.1 80694 1ci0A 228 2.32e-12 1ci0A b.45.1.1 25750 1flmA 122 4.52e-04 1axj b.45.1.1 25747 1ejeA 192 2.64e-02 1ejeA b.45.1.2 25757 1pvtA 238 2.16e-01 c.74.1.1 -8444 1o22A 170 7.67e-01 d.238.1.1 86557 1cr5A 189 1.42e+00 1cr5A b.52.2.3 26931 d.31.1.1 38465 1prxA 224 1.87e+00 1prxA c.47.1.10 33076 1ul5A 88 2.08e+00 unknown_sccs -12762 1ko3A 230 3.33e+00 d.157.1.1 -11454 1j5kA 89 3.59e+00 d.51.1.1 71565 1khmA 89 3.88e+00 1dt4A d.51.1.1 38809 1fobA 334 3.93e+00 c.1.8.3 83255 1jj2A 239 4.59e+00 1rl2A b.34.5.3 63084 b.40.4.5 63085 1od5A 492 5.34e+00 b.82.1.2 86832 b.82.1.2 86833 1dceB 331 6.21e+00 1dceB a.102.4.3 18872 1jotA 133 6.33e+00 1jotA 1j58A 385 6.86e+00 b.82.1.2 71531 1o07A 358 7.05e+00 e.3.1.1 -11772 1cf3A 583 8.44e+00 1gpeA c.3.1.2 30385 d.16.1.1 37949 1v9eA 259 9.31e+00 b.74.1.1 -4729 1jv0A 260 9.52e+00 b.74.1.1 63303 1v9iC 261 9.56e+00 b.74.1.1 -4728 1s72A 240 9.79e+00 1hcb 260 9.84e+00 2cba b.74.1.1 27814 2cab 261 9.88e+00 2cba b.74.1.1 27906 1crm 260 9.89e+00 2cba b.74.1.1 27816 1iurA 88 1.02e+01 a.2.3.1 -104 1kpsB 171 1.11e+01 a.118.12.1 68787 1pi4A 358 1.11e+01 e.3.1.1 -11774 1kbvA 327 1.12e+01 b.6.1.3 68395 b.6.1.3 68396 1r4mB 431 1.12e+01 c.111.1.2 -8268 2hdcA 97 1.18e+01 2hfh a.4.5.14 16146 1ngvB 442 1.21e+01 c.111.1.2 85699 2hfh 109 1.24e+01 2hfh a.4.5.14 16145 1jx4A 352 1.32e+01 unknown_sccs -10188 unknown_sccs -11898 1nd4A 264 1.39e+01 d.144.1.6 -11381 1q5xA 161 1.42e+01 c.8.7.1 -6068 1iwmA 186 1.45e+01 b.125.1.2 83758 1l0eA 358 1.58e+01 e.3.1.1 73396 1my8A 358 1.58e+01 e.3.1.1 85236 1fsyA 358 1.58e+01 1gceA e.3.1.1 60016 1uu9A 286 1.59e+01 d.144.1.7 -11343 1h1wA 289 1.60e+01 d.144.1.7 83460 1l0gA 358 1.60e+01 e.3.1.1 73400 1l0dA 358 1.60e+01 e.3.1.1 73394 1uu3A 310 1.64e+01 d.144.1.7 -11339 1khtA 192 1.64e+01 c.37.1.1 84401 1nh3A 562 1.78e+01 d.163.1.2 85710 e.15.1.1 85711 1lpqA 564 1.84e+01 a.2.8.1 74174 d.163.1.2 74175 e.15.1.1 74176 1ej9A 563 1.85e+01 1a36A d.163.1.2 42172 e.15.1.1 43265 1r49A 592 1.87e+01 a.2.8.1 -106 d.163.1.2 -11536 e.15.1.1 -11994 1gxiE 73 1.91e+01 b.34.4.2 83373 1e6vC 258 1.94e+01 1mroC d.58.31.1 39439 1e6iA 121 1.97e+01 1b91A a.29.2.1 16969 1a31A 590 2.03e+01 1a36A d.163.1.2 42170 e.15.1.1 43263 1k4tA 591 2.03e+01 a.2.8.1 77263 d.163.1.2 77264 e.15.1.1 77265 1a35A 591 2.07e+01 1a36A d.163.1.2 42171 e.15.1.1 43264 1uuqA 440 2.30e+01 c.1.8.3 -5321 1h0hA 977 2.38e+01 b.52.2.2 76435 c.81.1.1 76436 1qrrA 394 2.44e+01 1qrrA c.2.1.2 29824 1fx0A 507 2.50e+01 a.69.1.1 60080 b.49.1.1 60081 c.37.1.11 60082 1fljA 260 2.51e+01 2cba b.74.1.1 27954 1i24A 404 2.57e+01 c.2.1.2 83663 1vhh 162 2.58e+01 1vhh d.65.1.2 39550 1udeA 195 2.61e+01 b.40.5.1 -3955 1qzfA 521 2.64e+01 c.71.1.1 -8373 d.117.1.1 -10945 1do5A 154 2.76e+01 1mfmA b.1.8.1 22303 1ewkA 490 2.78e+01 1ewkA c.93.1.1 35712 1nar 290 2.79e+01 1nar c.1.8.5 28988 1gz3A 554 2.80e+01 c.2.1.7 83393 c.58.1.3 83394 1ie5A 107 2.83e+01 b.1.1.4 62312 1ccu 259 2.90e+01 2cba b.74.1.1 27929 1i8tA 367 2.90e+01 c.4.1.3 66094 d.16.1.7 66095 1qr6A 584 2.93e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 1pj3A 564 2.97e+01 c.2.1.7 -5974 c.58.1.3 -6380 1gz4A 551 2.97e+01 c.2.1.7 70794 c.58.1.3 70795 1fo5A 85 2.98e+01 1fo5A c.47.1.1 59922 1efyA 350 3.13e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1l0lA 446 3.21e+01 d.185.1.1 84482 d.185.1.1 84483 1l0fA 358 3.28e+01 e.3.1.1 73398 1fr1A 361 3.34e+01 1gceA e.3.1.1 42734 1qcrA 446 3.34e+01 1be3A d.185.1.1 59025 d.185.1.1 59026 1bo1A 416 3.38e+01 1bo1A d.143.1.2 41591 1lg5A 260 3.40e+01 b.74.1.1 73886 1cva 259 3.42e+01 2cba b.74.1.1 27925 1hed 260 3.45e+01 2cba b.74.1.1 27898 1dcb 260 3.45e+01 2cba b.74.1.1 27909 1h4iA 599 3.56e+01 4aahA b.70.1.1 60586 1nbqA 209 3.60e+01 b.1.1.1 85532 b.1.1.4 85533 1h4jA 599 3.65e+01 4aahA b.70.1.1 60590 1bic 260 3.65e+01 2cba b.74.1.1 27854 1tin 69 3.66e+01 2sniI d.40.1.1 38580 1mit 69 3.66e+01 1hymA d.40.1.1 38582 1gpeA 587 3.66e+01 1gpeA c.3.1.2 30387 d.16.1.1 37951 1lki 180 3.67e+01 1lki a.26.1.1 16829 1a26 361 3.70e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1pse 69 3.70e+01 1pse b.34.4.2 24595 1cvd 255 3.74e+01 2cba b.74.1.1 27918 1on3A 523 3.75e+01 c.14.1.4 87107 c.14.1.4 87108 1fpwA 190 3.99e+01 1rec a.39.1.5 17329