# List of top-scoring protein chains for T0254.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 1myr 501 4.51e-01 1e70M c.1.8.4 28925 1dwaM 499 4.89e-01 1e70M c.1.8.4 28928 1e4mM 501 4.89e-01 1e70M c.1.8.4 59226 1fv1B 190 5.06e-01 1iakB b.1.1.2 21606 d.19.1.1 38180 1mjc 69 5.16e-01 1mjc b.40.4.5 25319 1h4eA 201 5.86e-01 c.68.1.8 83483 1d5zB 192 6.88e-01 1iakB b.1.1.2 21620 d.19.1.1 38194 1d5mB 192 6.88e-01 1iakB b.1.1.2 21618 d.19.1.1 38192 1kg0B 188 7.77e-01 b.1.1.2 72443 d.19.1.1 72444 1uvqA 197 7.84e-01 b.1.1.2 -2649 d.19.1.1 -9336 1kluB 190 8.07e-01 b.1.1.2 72726 d.19.1.1 72727 1fytB 192 8.11e-01 1iakB b.1.1.2 21596 d.19.1.1 38170 1fr9A 194 8.16e-01 1fr9A c.68.1.8 34579 1aqdB 198 8.19e-01 1iakB b.1.1.2 21586 d.19.1.1 38160 1e5kA 201 8.27e-01 1fr9A c.68.1.8 34578 1hjjA 201 8.31e-01 c.68.1.8 83487 1hjlA 201 8.35e-01 c.68.1.8 83488 1d8cA 723 8.78e-01 1d8cA c.1.13.1 29325 1p7tA 731 8.84e-01 c.1.13.1 -5600 2gacB 144 1.01e+00 1apyB 2gawB 144 1.01e+00 1apyB 1l8tA 263 1.39e+00 d.144.1.6 73702 1j7lA 264 1.39e+00 d.144.1.6 62697 1a6aB 187 1.61e+00 1iakB b.1.1.2 21616 d.19.1.1 38190 1h4cA 201 1.71e+00 c.68.1.8 83481 1k6xA 352 1.95e+00 c.2.1.2 68238 1r5vB 185 1.99e+00 b.1.1.2 -2655 d.19.1.1 -9349 9gafA 295 2.18e+00 1apyA d.153.1.5 42008 9gaaA 295 2.22e+00 1apyA d.153.1.5 42014 1p4kA 295 2.22e+00 d.153.1.5 87772 9gacA 295 2.23e+00 1apyA d.153.1.5 42010 1s0yA 76 2.54e+00 d.80.1.1 -10434 1uvqB 198 2.55e+00 b.1.1.2 -2659 d.19.1.1 -9348 1jwxA 389 2.58e+00 c.95.1.2 71920 c.95.1.2 71921 1bq6A 388 2.60e+00 1bi5A c.95.1.2 35987 c.95.1.2 35988 1cmlA 389 2.60e+00 1bi5A c.95.1.2 35989 c.95.1.2 35990 1bi5A 389 2.61e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1i86A 389 2.62e+00 c.95.1.2 66068 c.95.1.2 66069 1chwA 389 2.62e+00 1bi5A c.95.1.2 35997 c.95.1.2 35998 1kt2B 213 2.64e+00 b.1.1.2 72953 d.19.1.1 72954 1jl4A 178 2.66e+00 b.1.1.2 63157 d.19.1.1 63158 1iakB 185 2.69e+00 1iakB b.1.1.2 21626 d.19.1.1 38200 1k2dB 189 2.70e+00 b.1.1.2 84293 d.19.1.1 84294 1ktdB 215 2.72e+00 b.1.1.2 72966 d.19.1.1 72967 1s9vB 198 2.72e+00 b.1.1.2 -2660 d.19.1.1 -9345 1d9kD 188 2.75e+00 1iakB b.1.1.2 21628 d.19.1.1 38202 1mujB 197 2.80e+00 b.1.1.2 79490 d.19.1.1 79491 1iebB 227 2.81e+00 1iakB b.1.1.2 21636 d.19.1.1 38210 1d6iA 388 2.86e+00 1bi5A c.95.1.2 36001 c.95.1.2 36002 1d9kC 183 2.87e+00 1iakA b.1.1.2 21627 d.19.1.1 38201 1lnuA 182 3.03e+00 b.1.1.2 74097 d.19.1.1 74098 1i88A 389 3.07e+00 c.95.1.2 66070 c.95.1.2 66071 1i89A 389 3.09e+00 c.95.1.2 66074 c.95.1.2 66075 1lnuB 217 3.15e+00 b.1.1.2 74099 d.19.1.1 74100 1mujA 190 3.20e+00 b.1.1.2 79488 d.19.1.1 79489 1fngB 224 3.25e+00 1iakB b.1.1.2 59906 d.19.1.1 59907 1i8bA 389 3.39e+00 c.95.1.2 66078 c.95.1.2 66079 1k2dA 189 3.45e+00 b.1.1.2 84291 d.19.1.1 84292 1fneB 224 3.47e+00 1iakB b.1.1.2 59898 d.19.1.1 59899 1jk8A 181 3.51e+00 1iakA b.1.1.2 63145 d.19.1.1 63146 1jk8B 190 3.64e+00 1iakB b.1.1.2 63147 d.19.1.1 63148 1gxcA 149 3.66e+00 b.26.1.2 70687 1f3jB 187 3.70e+00 1iakB b.1.1.2 21646 d.19.1.1 38220 1iakA 199 3.93e+00 1iakA b.1.1.2 21625 d.19.1.1 38199 1h4dA 201 4.04e+00 c.68.1.8 83482 1ieaB 228 4.33e+00 1iakB b.1.1.2 21632 d.19.1.1 38206 1d6hA 387 4.42e+00 1bi5A c.95.1.2 36005 c.95.1.2 36006 1nct 106 4.46e+00 1wit b.1.1.4 21708 1es0B 221 4.51e+00 1iakB b.1.1.2 21644 d.19.1.1 38218 1edoA 244 4.86e+00 1ybvA c.2.1.2 29896 1bx2B 191 4.87e+00 1iakB b.1.1.2 21610 d.19.1.1 38184 1ae1A 273 5.30e+00 1bdb c.2.1.2 29943 1r3fA 314 5.31e+00 b.122.1.1 -5116 unknown_sccs -10144 1k8wA 327 5.33e+00 b.122.1.1 83094 unknown_sccs -10143 1e6vB 443 5.53e+00 1mroB a.89.1.1 18533 d.58.31.2 39451 1rpxA 230 5.78e+00 1rpxA c.1.2.2 28536 2iadB 205 5.82e+00 1iakB b.1.1.2 21640 d.19.1.1 38214 1iaoB 222 6.02e+00 1iakB b.1.1.2 21642 d.19.1.1 38216 1ev0A 58 6.97e+00 1ev0A d.71.1.1 39594 1f3jA 182 7.04e+00 1iakA b.1.1.2 21645 d.19.1.1 38219 1es0A 190 7.53e+00 1iakA b.1.1.2 21643 d.19.1.1 38217 1h49A 512 8.34e+00 c.1.8.4 83477 1v08A 512 8.41e+00 1hxjA 507 8.45e+00 c.1.8.4 76729 1e1eA 512 8.48e+00 1e70M c.1.8.4 28944 2iadA 194 8.66e+00 1iakA b.1.1.2 21639 d.19.1.1 38213 1tnm 100 1.00e+01 1wit b.1.1.4 21710 1iueA 98 1.12e+01 d.15.4.1 -9189 1iizA 120 1.16e+01 d.2.1.2 66153 1uizA 115 1.24e+01 1cbg 490 1.29e+01 1e70M c.1.8.4 28933 1ffkI 194 1.43e+01 1ffkI d.12.1.2 37494 1npdA 288 1.47e+01 c.2.1.7 80681 c.58.1.5 80682 1ii7A 333 1.52e+01 1ii7A d.159.1.4 62415 1vi2A 300 1.56e+01 c.2.1.7 -5960 c.58.1.5 -6366 1g2iA 166 1.60e+01 1g2iA c.23.16.2 31438 1tq1A 129 1.64e+01 1r5jA 337 1.65e+01 unknown_sccs -8471 1iv3A 152 1.67e+01 d.79.5.1 76828 1pu1A 94 1.72e+01 1k5wA 152 1.82e+01 b.7.1.2 68212 1o9dA 260 1.96e+01 a.118.7.1 86689 1lp3A 519 1.99e+01 b.121.5.2 74169 1bmg 98 2.03e+01 1agdB b.1.1.2 20667 1eujA 166 2.03e+01 1eujA b.40.4.4 25316 1fl0A 171 2.05e+01 1eujA b.40.4.4 25315 1e7zA 174 2.08e+01 1eujA b.40.4.4 25318 1p58A 495 2.09e+01 i.17.1.1 -13103 1d5cA 162 2.27e+01 1ctqA c.37.1.8 32021 1pzdA 322 2.41e+01 unknown_sccs -2848 unknown_sccs -10778 1q6aA 107 2.41e+01 unknown_sccs -960 1qapA 296 2.46e+01 1qpoA c.1.17.1 29559 d.41.2.1 38595 1fp8A 500 2.46e+01 c.1.8.1 -5290 1eswA 500 2.47e+01 1cwyA c.1.8.1 59500 1k8kF 168 2.48e+01 d.198.2.1 68312 1v2zA 111 2.49e+01 1wqq 130 2.50e+01 3lzt d.2.1.2 36492 1hfoA 113 2.53e+01 d.80.1.3 61006 1eg5A 384 2.53e+01 1ecxA c.67.1.3 34429 1pbwA 216 2.56e+01 1pbwA a.116.1.1 19103 1hz9A 66 2.58e+01 b.40.4.5 65961 1bs0A 384 2.65e+01 1bs0A c.67.1.4 34490 1djeA 384 2.70e+01 1bs0A c.67.1.4 34491 1g0wA 380 2.75e+01 1qh4A a.83.1.1 18475 d.128.1.2 41210 1hzcA 66 2.86e+01 b.40.4.5 65967 1byeA 213 2.94e+01 1gnwA a.45.1.1 17732 c.47.1.5 33026 1r5qA 102 2.95e+01 unknown_sccs -965 1cqqA 180 3.10e+01 1cqqA b.47.1.4 26422 1m33A 258 3.18e+01 c.69.1.26 78514 1v02E 565 3.21e+01 1hzaA 67 3.25e+01 b.40.4.5 65963 1c9oA 66 3.26e+01 1mjc b.40.4.5 25325 1hzbA 66 3.26e+01 b.40.4.5 65965 1uunA 184 3.30e+01 unknown_sccs -12370 1h2hA 241 3.47e+01 c.2.1.3 83058 d.81.1.3 70861 1a6aA 176 3.53e+01 1iakA b.1.1.2 21615 d.19.1.1 38189 1axdA 209 3.54e+01 1gnwA a.45.1.1 17730 c.47.1.5 33024 1j5pA 253 3.55e+01 c.2.1.3 83092 d.81.1.3 71577 1klgA 177 3.58e+01 b.1.1.2 72714 d.19.1.1 72715 1vyuA 351 3.59e+01 1i5fA 66 3.60e+01 b.40.4.5 66034 1kluA 179 3.60e+01 b.1.1.2 72724 d.19.1.1 72725 1kg0A 180 3.66e+01 b.1.1.2 72441 d.19.1.1 72442 1nbmD 480 3.69e+01 1skyE a.69.1.1 18290 b.49.1.1 26455 c.37.1.11 32335 1h8eD 482 3.70e+01 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1bx2A 180 3.73e+01 1iakA b.1.1.2 21609 d.19.1.1 38183 1v02A 565 3.74e+01 1s9vA 193 3.85e+01 b.1.1.2 -2650 d.19.1.1 -9333 1fhgA 154 3.85e+01 1tlk b.1.1.4 21706 1fv1A 181 3.88e+01 1iakA b.1.1.2 21605 d.19.1.1 38179 1pywA 182 3.88e+01 b.1.1.2 -2642 d.19.1.1 -9329 1ixcA 294 3.94e+01 a.4.5.37 83764 c.94.1.1 83765