# List of top-scoring protein chains for T0254.t2k-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 1fv1B 190 2.06e-01 1iakB b.1.1.2 21606 d.19.1.1 38180 1r3fA 314 2.89e-01 b.122.1.1 -5116 unknown_sccs -10144 1k8wA 327 2.91e-01 b.122.1.1 83094 unknown_sccs -10143 1uvqA 197 2.98e-01 b.1.1.2 -2649 d.19.1.1 -9336 1d5mB 192 3.17e-01 1iakB b.1.1.2 21618 d.19.1.1 38192 1d5zB 192 3.18e-01 1iakB b.1.1.2 21620 d.19.1.1 38194 2gacB 144 3.90e-01 1apyB 2gawB 144 3.90e-01 1apyB 1mjc 69 5.01e-01 1mjc b.40.4.5 25319 1kg0B 188 5.17e-01 b.1.1.2 72443 d.19.1.1 72444 1kluB 190 5.28e-01 b.1.1.2 72726 d.19.1.1 72727 1fytB 192 5.30e-01 1iakB b.1.1.2 21596 d.19.1.1 38170 1aqdB 198 5.37e-01 1iakB b.1.1.2 21586 d.19.1.1 38160 1myr 501 6.06e-01 1e70M c.1.8.4 28925 1a6aB 187 6.21e-01 1iakB b.1.1.2 21616 d.19.1.1 38190 1r5vB 185 7.39e-01 b.1.1.2 -2655 d.19.1.1 -9349 1jl4A 178 7.49e-01 b.1.1.2 63157 d.19.1.1 63158 1dwaM 499 7.72e-01 1e70M c.1.8.4 28928 1e4mM 501 7.73e-01 1e70M c.1.8.4 59226 1d9kC 183 7.80e-01 1iakA b.1.1.2 21627 d.19.1.1 38201 1lnuA 182 8.02e-01 b.1.1.2 74097 d.19.1.1 74098 9gafA 295 8.28e-01 1apyA d.153.1.5 42008 1mujA 190 8.31e-01 b.1.1.2 79488 d.19.1.1 79489 9gaaA 295 8.42e-01 1apyA d.153.1.5 42014 9gacA 295 8.44e-01 1apyA d.153.1.5 42010 1p4kA 295 8.47e-01 d.153.1.5 87772 1h4eA 201 8.71e-01 c.68.1.8 83483 1k2dA 189 9.00e-01 b.1.1.2 84291 d.19.1.1 84292 1kt2B 213 9.35e-01 b.1.1.2 72953 d.19.1.1 72954 1ktdB 215 9.63e-01 b.1.1.2 72966 d.19.1.1 72967 1iakA 199 9.84e-01 1iakA b.1.1.2 21625 d.19.1.1 38199 1iebB 227 9.98e-01 1iakB b.1.1.2 21636 d.19.1.1 38210 1fr9A 194 1.10e+00 1fr9A c.68.1.8 34579 1e5kA 201 1.12e+00 1fr9A c.68.1.8 34578 1hjjA 201 1.13e+00 c.68.1.8 83487 1hjlA 201 1.13e+00 c.68.1.8 83488 1edoA 244 1.13e+00 1ybvA c.2.1.2 29896 1fngB 224 1.14e+00 1iakB b.1.1.2 59906 d.19.1.1 59907 1fneB 224 1.20e+00 1iakB b.1.1.2 59898 d.19.1.1 59899 1k6xA 352 1.35e+00 c.2.1.2 68238 1ieaB 228 1.45e+00 1iakB b.1.1.2 21632 d.19.1.1 38206 1jk8A 181 1.53e+00 1iakA b.1.1.2 63145 d.19.1.1 63146 1jdfA 446 2.12e+00 c.1.11.2 62897 d.54.1.1 62898 1ec7A 446 2.12e+00 1bqg c.1.11.2 29218 d.54.1.1 38862 1h4cA 201 2.18e+00 c.68.1.8 83481 1jwxA 389 2.28e+00 c.95.1.2 71920 c.95.1.2 71921 1bq6A 388 2.28e+00 1bi5A c.95.1.2 35987 c.95.1.2 35988 1jctA 446 2.28e+00 c.1.11.2 62882 d.54.1.1 62883 1bi5A 389 2.29e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1cmlA 389 2.30e+00 1bi5A c.95.1.2 35989 c.95.1.2 35990 1i86A 389 2.31e+00 c.95.1.2 66068 c.95.1.2 66069 1chwA 389 2.32e+00 1bi5A c.95.1.2 35997 c.95.1.2 35998 1s9vA 193 2.37e+00 b.1.1.2 -2650 d.19.1.1 -9333 1d6iA 388 2.51e+00 1bi5A c.95.1.2 36001 c.95.1.2 36002 1i89A 389 2.86e+00 c.95.1.2 66074 c.95.1.2 66075 1i88A 389 2.89e+00 c.95.1.2 66070 c.95.1.2 66071 1i8bA 389 3.26e+00 c.95.1.2 66078 c.95.1.2 66079 1f3jA 182 3.26e+00 1iakA b.1.1.2 21645 d.19.1.1 38219 1es0A 190 3.42e+00 1iakA b.1.1.2 21643 d.19.1.1 38217 1ffkI 194 3.49e+00 1ffkI d.12.1.2 37494 1bx2B 191 3.76e+00 1iakB b.1.1.2 21610 d.19.1.1 38184 2iadA 194 3.95e+00 1iakA b.1.1.2 21639 d.19.1.1 38213 1d6hA 387 4.58e+00 1bi5A c.95.1.2 36005 c.95.1.2 36006 1h4dA 201 4.86e+00 c.68.1.8 83482 1sy6A 204 6.83e+00 1uvqB 198 7.09e+00 b.1.1.2 -2659 d.19.1.1 -9348 1jk8B 190 7.53e+00 1iakB b.1.1.2 63147 d.19.1.1 63148 1k5wA 152 7.74e+00 b.7.1.2 68212 1o9dA 260 8.29e+00 a.118.7.1 86689 1uizA 115 8.36e+00 1pbwA 216 8.56e+00 1pbwA a.116.1.1 19103 1s9vB 198 8.62e+00 b.1.1.2 -2660 d.19.1.1 -9345 1nkwS 115 9.09e+00 i.1.1.2 80604 1pnuS 113 9.12e+00 i.1.1.1 88216 1g0wA 380 9.26e+00 1qh4A a.83.1.1 18475 d.128.1.2 41210 1d5cA 162 9.42e+00 1ctqA c.37.1.8 32021 1cg5B 141 1.00e+01 1cg5B a.1.1.2 15585 1h49A 512 1.01e+01 c.1.8.4 83477 1s1hD 179 1.03e+01 1v08A 512 1.03e+01 1hxjA 507 1.04e+01 c.1.8.4 76729 1e1eA 512 1.05e+01 1e70M c.1.8.4 28944 1qvrA 854 1.09e+01 a.174.1.1 -1934 c.37.1.20 -7256 c.37.1.20 -7257 1bmg 98 1.21e+01 1agdB b.1.1.2 20667 1em8A 147 1.31e+01 unknown_sccs -7272 1hfoA 113 1.32e+01 d.80.1.3 61006 1mujB 197 1.34e+01 b.1.1.2 79490 d.19.1.1 79491 1lnuB 217 1.43e+01 b.1.1.2 74099 d.19.1.1 74100 1o6cA 388 1.43e+01 c.87.1.3 -8580 1d8cA 723 1.53e+01 1d8cA c.1.13.1 29325 1p7tA 731 1.55e+01 c.1.13.1 -5600 1hz9A 66 1.65e+01 b.40.4.5 65961 1elwA 118 1.73e+01 1a17 a.118.8.1 19207 1iv3A 152 1.77e+01 d.79.5.1 76828 1hzcA 66 1.79e+01 b.40.4.5 65967 1iueA 98 1.82e+01 d.15.4.1 -9189 1hzaA 67 1.90e+01 b.40.4.5 65963 1c9oA 66 1.91e+01 1mjc b.40.4.5 25325 1hzbA 66 1.92e+01 b.40.4.5 65965 1e6vB 443 1.97e+01 1mroB a.89.1.1 18533 d.58.31.2 39451 1i5fA 66 2.05e+01 b.40.4.5 66034 1eu8A 409 2.10e+01 1eu8A c.94.1.1 59502 1lj2A 110 2.17e+01 h.1.13.2 73926 1npdA 288 2.24e+01 c.2.1.7 80681 c.58.1.5 80682 1s0yA 76 2.25e+01 d.80.1.1 -10434 1vi2A 300 2.39e+01 c.2.1.7 -5960 c.58.1.5 -6366 1cbg 490 2.44e+01 1e70M c.1.8.4 28933 1bolA 222 2.47e+01 1bolA d.124.1.1 41120 1r5qA 102 2.56e+01 unknown_sccs -965 1q6aA 107 2.63e+01 unknown_sccs -960 1o7dA 298 2.64e+01 c.6.2.1 86641 1r5jA 337 2.64e+01 unknown_sccs -8471 1v2zA 111 2.67e+01 1cjxA 357 2.70e+01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1csc 429 2.72e+01 1csh a.103.1.1 18886 1bgp 309 2.80e+01 1bgp a.93.1.1 18690 1iakB 185 2.87e+01 1iakB b.1.1.2 21626 d.19.1.1 38200 1b4pA 217 2.88e+01 a.45.1.1 83158 c.47.1.5 83159 1qysA 106 2.92e+01 unknown_sccs -13432 1d9kD 188 2.94e+01 1iakB b.1.1.2 21628 d.19.1.1 38202 1ii7A 333 2.95e+01 1ii7A d.159.1.4 62415 1ghsA 306 3.05e+01 1aq0A c.1.8.3 28840 1ds6B 180 3.05e+01 1rhoA b.1.18.8 21898 1pu1A 94 3.12e+01 1al3 324 3.20e+01 1al3 c.94.1.1 35835 1hkxA 147 3.23e+01 d.17.4.7 83567 1cqqA 180 3.29e+01 1cqqA b.47.1.4 26422 1iaoB 222 3.31e+01 1iakB b.1.1.2 21642 d.19.1.1 38216 1l1nA 183 3.33e+01 b.47.1.4 73476 1ufxA 103 3.34e+01 b.36.1.1 -3758 1fhgA 154 3.39e+01 1tlk b.1.1.4 21706 2iadB 205 3.42e+01 1iakB b.1.1.2 21640 d.19.1.1 38214 1k2dB 189 3.65e+01 b.1.1.2 84293 d.19.1.1 84294 1a6aA 176 3.65e+01 1iakA b.1.1.2 21615 d.19.1.1 38189 1k8kF 168 3.66e+01 d.198.2.1 68312 1ain 314 3.66e+01 1avc a.65.1.1 18145 1klgA 177 3.70e+01 b.1.1.2 72714 d.19.1.1 72715 721p 166 3.71e+01 1ctqA c.37.1.8 31975 1kluA 179 3.72e+01 b.1.1.2 72724 d.19.1.1 72725 1kg0A 180 3.78e+01 b.1.1.2 72441 d.19.1.1 72442 1tlk 154 3.79e+01 1tlk b.1.1.4 21707 1jrrA 382 3.79e+01 e.1.1.1 63256 1bx2A 180 3.83e+01 1iakA b.1.1.2 21609 d.19.1.1 38183 1qapA 296 3.86e+01 1qpoA c.1.17.1 29559 d.41.2.1 38595 1fytE 245 3.91e+01 1bec b.1.1.1 20644 b.1.1.2 21573 1gyxA 76 3.94e+01 d.80.1.1 76387 1j8hE 246 3.95e+01 b.1.1.1 71608 b.1.1.2 71609 1fv1A 181 3.95e+01 1iakA b.1.1.2 21605 d.19.1.1 38179 1auiB 169 3.96e+01 1auiB a.39.1.5 17325 1pywA 182 3.96e+01 b.1.1.2 -2642 d.19.1.1 -9329 1mf8B 170 3.96e+01 a.39.1.5 79041 1npeA 267 3.99e+01 b.68.5.1 -4588