# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1jhjA 171 1.74e-18 b.18.1.9 66714 1gqpA 221 1.13e-16 b.18.1.9 70372 1gof 639 2.82e-04 1gof b.1.18.2 21807 b.18.1.1 23709 b.69.1.1 27631 1k3iA 656 4.07e-04 b.1.18.2 68113 b.18.1.1 68114 b.69.1.1 68115 1xnaA 183 2.96e-03 1xnaA b.18.1.8 23773 1fx3A 169 4.17e-02 1fx3B d.33.1.1 38524 1d7pM 159 2.86e-01 1cztA b.18.1.2 23718 1kexA 155 2.92e-01 b.18.1.2 77350 1k12A 158 3.76e-01 b.18.1.15 71978 1ngzB 220 4.39e-01 b.1.1.1 80502 b.1.1.2 80503 1cs6A 382 1.03e+00 1cs6A b.1.1.4 21760 b.1.1.4 21761 b.1.1.4 21762 b.1.1.4 21763 1cztA 160 1.12e+00 1cztA b.18.1.2 23715 1qexA 288 1.14e+00 1qexA b.32.1.1 24425 1euwA 152 1.15e+00 1dupA b.85.4.1 28349 1o59A 355 1.25e+00 unknown_sccs -3132 unknown_sccs -3133 1wit 93 1.41e+00 1wit b.1.1.4 21714 1kgcE 242 1.57e+00 b.1.1.1 77386 b.1.1.2 77387 1czsA 160 2.17e+00 1cztA b.18.1.2 23714 1h9dA 134 2.26e+00 1cmoA b.2.5.6 60821 1ogaE 252 2.37e+00 b.1.1.1 86992 b.1.1.2 86993 1fc1A 224 2.40e+00 1igtB b.1.1.2 21520 b.1.1.2 21521 1j1bA 420 2.50e+00 d.144.1.7 -11312 1fsoA 139 2.59e+00 1rhoA b.1.18.8 60007 1qynA 153 2.66e+00 d.33.1.1 -9585 1rzfH 235 3.10e+00 b.1.1.1 -2188 b.1.1.2 -2453 1c5cH 215 3.22e+00 1igtB b.1.1.1 20475 b.1.1.2 21439 1mlcB 218 3.29e+00 1igtB b.1.1.1 20053 b.1.1.2 21095 1d8cA 723 3.55e+00 1d8cA c.1.13.1 29325 1p7tA 731 3.78e+00 c.1.13.1 -5600 1q42A 201 3.85e+00 d.17.4.2 -9292 1l0qA 391 3.86e+00 b.1.3.1 77644 b.69.2.3 77645 1m4vA 204 4.46e+00 b.40.2.2 74459 d.15.6.1 74460 1nbcA 155 4.47e+00 1nbcA b.2.2.2 22390 1a34A 159 4.86e+00 1a34A b.121.7.1 23286 1ri6A 343 4.87e+00 unknown_sccs -4621 1pm4A 119 5.09e+00 unknown_sccs -3249 1mi1A 414 5.20e+00 a.169.1.1 79137 b.55.1.6 79138 1vmoA 163 5.63e+00 1vmoA b.77.1.1 27974 1shbA 104 6.29e+00 1fmk d.93.1.1 40425 1pvc1 301 6.50e+00 1pov1 1mpp 361 6.59e+00 2rmpA b.50.1.2 26856 1kmtA 141 6.74e+00 b.1.18.8 77442 1pfsA 78 6.77e+00 1pfsA b.40.4.7 25391 1wejH 223 6.89e+00 1igtB b.1.1.1 20361 b.1.1.2 21353 1o6sB 105 6.89e+00 b.1.6.1 81096 1n9lA 109 6.89e+00 d.110.3.6 85468 1n0xH 230 7.21e+00 b.1.1.1 -2201 b.1.1.2 -2473 1rurL 217 7.72e+00 b.1.1.1 -2094 b.1.1.2 -2389 1jhnA 424 7.77e+00 b.29.1.12 70060 b.104.1.1 66722 1ltlA 279 7.77e+00 b.40.4.11 84701 1eerB 227 7.85e+00 1eerB b.1.2.1 22011 b.1.2.1 22012 1vcaA 202 8.04e+00 1vcaA b.1.1.3 21649 b.1.1.4 21685 1pov1 302 8.53e+00 1pov1 1ev2E 220 9.08e+00 1cvsC b.1.1.4 21738 b.1.1.4 21739 1aohA 147 9.09e+00 1aohA b.2.2.2 22401 1jb7A 495 9.09e+00 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1c3hA 137 9.71e+00 b.22.1.1 -3255 1cqkA 101 9.90e+00 1cqkA b.1.1.2 21547 1hxs1 302 1.00e+01 1go3E 187 1.05e+01 b.40.4.5 83054 d.230.1.1 83055 1acc 735 1.06e+01 1acc f.11.1.1 43828 1btkA 169 1.08e+01 1btkA b.55.1.1 26959 1dgwA 178 1.11e+01 1dgwA b.82.1.2 28090 1jmxA 494 1.15e+01 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 1wba 175 1.17e+01 1wba b.42.4.1 25591 1uzxA 169 1.21e+01 d.20.1.2 -9409 1ff9A 450 1.22e+01 1ff9A c.2.1.3 30039 d.81.1.2 39954 1i4fA 275 1.22e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 1mi8A 158 1.23e+01 b.86.1.2 -5061 1vj1A 363 1.23e+01 b.35.1.2 -3728 c.2.1.1 -5752 1h3nA 878 1.25e+01 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1pbyA 489 1.26e+01 a.3.1.7 -178 a.3.1.7 -179 b.1.18.14 -2762 b.1.18.14 -2763 b.61.4.1 -4528 1o4rA 108 1.28e+01 d.93.1.1 -10624 1icxA 155 1.38e+01 d.129.3.1 71191 1oxdA 227 1.46e+01 d.22.1.1 -9438 1o22A 170 1.50e+01 d.238.1.1 86557 1pmhX 185 1.55e+01 1n1tA 641 1.55e+01 b.29.1.15 79821 b.68.1.1 79822 1f6fB 210 1.58e+01 1axiB b.1.2.1 22033 b.1.2.1 22034 1qwzA 235 1.59e+01 b.100.1.1 -4543 1dqqB 210 1.61e+01 1igtB b.1.1.1 20421 b.1.1.2 21391 2tgi 112 1.67e+01 2tgi g.17.1.2 44777 1qqgA 264 1.71e+01 1qqgA b.55.1.2 26987 b.55.1.2 26988 1q0xH 221 1.81e+01 b.1.1.1 -2265 b.1.1.2 -2536 1evuA 731 1.83e+01 1f13A b.1.18.9 21883 b.1.5.1 22175 b.1.5.1 22176 d.3.1.4 37113 1shdA 107 1.83e+01 1fmk d.93.1.1 40440 1v3eA 431 1.85e+01 b.68.1.1 -4584 1d2oA 187 1.86e+01 1d2oA b.3.5.1 22625 b.3.5.1 22626 1ddwA 120 1.95e+01 1evhA b.55.1.4 27001 1qopB 396 2.03e+01 2tysB c.79.1.1 35270 1lyqA 104 2.03e+01 b.1.18.17 78302 1jv4A 162 2.11e+01 b.60.1.1 67343 1d2eA 397 2.18e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1h8eH 146 2.21e+01 1e79H b.93.1.1 60757 1rhfA 182 2.29e+01 b.1.1.1 -2335 b.1.1.4 -2684 1qy1A 174 2.31e+01 b.60.1.1 -4445 3rp2A 224 2.33e+01 1a7s b.47.1.2 26298 1rurH 218 2.35e+01 b.1.1.1 -2259 b.1.1.2 -2529 1ema 236 2.46e+01 1ema d.22.1.1 38339 1danU 121 2.47e+01 1boy b.1.2.1 21954 1ncwL 219 2.48e+01 b.1.1.1 85557 b.1.1.2 85558 1i8aA 189 2.53e+01 1i82A b.1.9.2 61951 1bpoA 494 2.57e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1i50K 120 2.57e+01 d.74.3.2 61765 1ospH 218 2.61e+01 1igtB b.1.1.1 20117 b.1.1.2 21147 1auyA 189 2.61e+01 1auyA b.121.4.6 23311 1gwmA 153 2.61e+01 b.18.1.19 83348 1hoe 74 2.66e+01 1hoe b.5.1.1 22833 1r1dA 247 2.67e+01 unknown_sccs -8335 1b8aA 438 2.74e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1eeqA 114 2.74e+01 32c2A b.1.1.1 20544 1s5aA 150 2.78e+01 unknown_sccs -9300 1eu3A 210 2.79e+01 1an8 b.40.2.2 25206 d.15.6.1 37795 2bpa2 175 2.87e+01 2bpa2 1ut7A 171 2.91e+01 unknown_sccs -4724 1p5vB 147 2.97e+01 b.2.3.2 87814 1hyxH 224 2.98e+01 1igtB b.1.1.1 20167 b.1.1.2 21191 1quqA 129 2.99e+01 1quqA b.40.4.3 25303 1l6xA 207 3.00e+01 b.1.1.2 73642 b.1.1.2 73643 1d8hA 311 3.04e+01 1d8iA d.63.1.1 39544 1bv1 159 3.04e+01 1bv1 d.129.3.1 41313 1guiA 155 3.04e+01 b.18.1.14 76351 1qnaA 200 3.06e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1cvrA 435 3.07e+01 1cvrA b.1.18.12 21949 c.17.1.2 31006 8fabB 224 3.14e+01 1igtB b.1.1.1 19773 b.1.1.2 20883 1dqtA 117 3.16e+01 1ah1 b.1.1.1 20653 1dm9A 133 3.22e+01 1dm9A d.66.1.3 39560 1gv9A 260 3.22e+01 b.29.1.13 70596 1omiA 248 3.33e+01 a.4.5.4 87079 b.82.3.3 87080 1f5mA 180 3.33e+01 1f5mB d.110.2.1 40895 1dun 134 3.33e+01 1dun b.85.4.1 28371 1eaqA 140 3.38e+01 b.2.5.6 76144 1kypA 237 3.39e+01 d.22.1.1 73280 1vpsA 289 3.39e+01 1vpsA b.121.6.1 23336 1lyvA 306 3.40e+01 c.45.1.2 74348 1fna 93 3.53e+01 1fnf b.1.2.1 21971 1rowA 109 3.54e+01 b.1.11.2 -2851 3sil 379 3.57e+01 3sil b.68.1.1 27542 1pfzA 380 3.59e+01 1smrA b.50.1.2 26881 1i0sA 169 3.61e+01 1i0rA b.45.1.2 61491 1p0hA 318 3.64e+01 d.108.1.1 -10802 1psuA 140 3.66e+01 d.38.1.5 88285 1o0iA 138 3.68e+01 d.38.1.5 86532 1nepA 130 3.76e+01 b.1.18.7 80440 1m4jA 142 3.77e+01 d.109.1.2 78602 1jksA 294 3.77e+01 d.144.1.7 71710 1k92A 455 3.77e+01 c.26.2.1 68325 d.210.1.1 68326 1c8uA 285 3.83e+01 1c8uA d.38.1.3 38547 d.38.1.3 38548 1kgyA 181 3.83e+01 b.18.1.4 72449 1prtF 98 3.85e+01 1prtF b.40.2.1 25140 1svb 395 3.86e+01 1svb b.1.18.4 21814 f.10.1.1 43827 1n7eA 97 3.88e+01 b.36.1.1 -3745 1u9aA 160 3.91e+01 1u9aA d.20.1.1 38333 1vie 62 3.93e+01 1vie b.34.4.1 24592 1rtfB 252 3.98e+01 5ptp