# List of top-scoring protein chains for t04-100-30-CB_burial_14_7 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 1m6yA 301 2.63e-68 a.60.13.1 78716 c.66.1.23 78717 1l3iA 192 6.12e-11 c.66.1.22 77676 1ixkA 315 6.86e-10 unknown_sccs -8099 1sqgA 429 1.78e-07 1xvaA 292 7.60e-07 1xvaA c.66.1.5 34183 1uwvA 433 8.61e-07 unknown_sccs -3950 unknown_sccs -8107 1ej0A 180 1.96e-06 1ej0A c.66.1.2 34179 1f3lA 321 4.35e-06 1g6q2 c.66.1.6 59630 1ufkA 254 1.01e-05 unknown_sccs -8103 1o54A 277 1.71e-05 c.66.1.13 -8095 1i9gA 280 1.93e-05 c.66.1.13 62090 1ne2A 200 2.73e-05 c.66.1.32 85586 1bdb 277 3.87e-05 1bdb c.2.1.2 29874 1ri5A 298 5.44e-05 unknown_sccs -8063 1jg1A 235 8.71e-05 c.66.1.7 66661 1g38A 393 8.81e-05 2admA c.66.1.27 60235 1dusA 194 1.01e-04 1dusA c.66.1.4 34182 1dl5A 317 1.98e-04 1dl5A c.66.1.7 64720 d.197.1.1 64721 1nv8A 284 1.08e-03 c.66.1.30 86224 1jvbA 347 1.47e-03 b.35.1.2 77181 c.2.1.1 77182 1i1nA 226 1.58e-03 c.66.1.7 71102 1qamA 244 2.51e-03 2ercA c.66.1.24 34220 1qzzA 374 3.44e-03 a.4.5.29 -277 c.66.1.12 -8045 1f8fA 371 3.48e-03 b.35.1.2 83246 c.2.1.1 83247 1qyrA 252 5.74e-03 1im8A 244 5.94e-03 c.66.1.14 66212 1kpgA 287 6.61e-03 c.66.1.18 68735 1inlA 296 8.22e-03 c.66.1.17 66220 1g60A 260 9.29e-03 c.66.1.11 70151 1sb8A 352 1.33e-02 1hnnA 282 1.38e-02 c.66.1.15 65895 1hetA 374 2.39e-02 2ohxA b.35.1.2 60975 c.2.1.1 60976 1vid 221 2.57e-02 1vid c.66.1.1 34178 1h1dA 221 2.61e-02 c.66.1.1 83452 2ohxA 374 3.14e-02 2ohxA b.35.1.2 24669 c.2.1.1 29685 1n8kA 374 4.03e-02 b.35.1.2 80298 c.2.1.1 80299 1b1cA 181 4.14e-02 1amoA c.23.5.2 31212 1pjcA 361 4.32e-02 1sayA c.2.1.4 30101 c.23.12.2 31361 1orrA 347 4.46e-02 c.2.1.2 -5776 1fjgB 256 4.91e-02 1fjfB c.23.15.1 31400 1h2bA 359 5.16e-02 b.35.1.2 -3679 c.2.1.1 -5703 1o5iA 249 5.18e-02 c.2.1.2 -5833 1g8aA 227 5.61e-02 c.66.1.3 -8049 1hxhA 253 7.09e-02 c.2.1.2 76725 1ja1A 622 8.63e-02 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1c4xA 285 8.82e-02 1c4xA c.69.1.10 34684 1iy8A 267 9.75e-02 c.2.1.2 83774 1srrA 124 9.87e-02 1dz3A c.23.1.1 31110 1uirA 314 1.00e-01 c.66.1.17 -8114 6mhtA 327 1.44e-01 6mhtA c.66.1.26 34226 1hdcA 253 1.50e-01 1e6wA c.2.1.2 29862 1li4A 432 1.53e-01 c.2.1.4 84616 c.23.12.3 84617 1q7bA 244 1.56e-01 c.2.1.2 -5826 1o9gA 250 1.72e-01 c.66.1.29 86692 1yub 245 1.84e-01 2ercA c.66.1.24 34219 1jsxA 207 2.04e-01 c.66.1.20 71846 1h5qA 265 2.16e-01 1cydA c.2.1.2 60643 1bg6 359 2.51e-01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1kevA 351 3.06e-01 1pedA b.35.1.2 24749 c.2.1.1 29765 1jqbA 351 3.56e-01 b.35.1.2 77151 c.2.1.1 77152 1v3vA 333 3.62e-01 1kepA 348 3.74e-01 c.2.1.2 68536 1nw3A 416 4.13e-01 c.66.1.31 86288 1oc2A 348 4.16e-01 c.2.1.2 -5753 1nffA 260 4.75e-01 c.2.1.2 80457 1bn7A 294 5.91e-01 1bn6A c.69.1.8 34677 1d4fA 431 5.92e-01 1b3rA c.2.1.4 30110 c.23.12.3 31370 1j3vA 289 7.61e-01 a.100.1.1 -1303 c.2.1.6 -5947 1mjfA 281 8.06e-01 c.66.1.17 79198 1ofuA 320 8.50e-01 c.32.1.1 86972 d.79.2.1 86973 1b16A 254 9.51e-01 1b16A c.2.1.2 29875 1qsgA 265 9.90e-01 1eny c.2.1.2 29935 1jfuA 186 1.06e+00 c.47.1.10 62940 1p1cA 199 1.17e+00 c.66.1.16 87669 1fbnA 230 1.25e+00 1fbnA c.66.1.3 34181 1udc 338 1.44e+00 1xel c.2.1.2 29785 1xel 338 1.45e+00 1xel c.2.1.2 29786 1cydA 244 1.56e+00 1cydA c.2.1.2 29825 1g8sA 230 1.79e+00 c.66.1.3 -8047 1dt9A 437 1.90e+00 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1hw7A 255 1.96e+00 1i7fA d.193.1.1 61297 1h4pA 408 2.14e+00 c.1.8.3 -5314 1viaA 175 2.42e+00 c.37.1.2 -7021 1st9A 143 2.85e+00 c.47.1.10 -7503 1mvoA 136 2.92e+00 c.23.1.1 79513 1g55A 343 3.11e+00 1g55A c.66.1.26 34247 1db3A 372 3.16e+00 1db3A c.2.1.2 29813 1kolA 398 3.59e+00 b.35.1.2 77474 c.2.1.1 77475 1eg2A 319 4.08e+00 1eg2A c.66.1.11 34249 1fp2A 352 4.20e+00 1fpxA a.4.5.29 59941 c.66.1.12 59942 1lst 239 4.51e+00 1lst c.94.1.1 35755 1dcfA 136 4.98e+00 1dcfA c.23.1.2 31124 1h6zA 913 5.11e+00 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1prxA 224 5.52e+00 1prxA c.47.1.10 33076 1k2yX 463 5.61e+00 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 2cmd 312 6.44e+00 2cmd c.2.1.5 30135 d.162.1.1 42102 1dqpA 230 6.69e+00 1dqnA c.61.1.1 34069 1jvr 137 7.15e+00 1jvr a.61.1.2 18132 1wdnA 226 7.68e+00 1lst c.94.1.1 35816 1fjhA 257 7.71e+00 1fjhB c.2.1.2 29870 1gggA 226 8.39e+00 1lst c.94.1.1 35817 1mexH 215 9.17e+00 b.1.1.1 -2237 b.1.1.2 -2487 1owxA 121 1.02e+01 d.58.7.1 87494 1gz6A 319 1.04e+01 c.2.1.2 76410 1czaN 917 1.14e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1bgp 309 1.15e+01 1bgp a.93.1.1 18690 1ox0A 430 1.17e+01 c.95.1.1 87495 c.95.1.1 87496 2reb 352 1.19e+01 2reb c.37.1.11 32282 d.48.1.1 38767 1jndA 420 1.23e+01 c.1.8.5 71757 d.26.3.1 71758 1ihgA 370 1.24e+01 2cpl a.118.8.1 62380 b.62.1.1 62381 1t2aA 375 1.30e+01 c.2.1.2 -5764 1qczA 169 1.31e+01 1qczA c.23.8.1 31276 1n0wA 243 1.31e+01 c.37.1.11 79772 1nxqA 251 1.33e+01 c.2.1.2 86388 1nriA 306 1.34e+01 c.80.1.3 86123 1iu8A 206 1.35e+01 c.56.4.1 71436 1a7j 290 1.37e+01 1a7j c.37.1.6 31952 1eny 268 1.41e+01 1eny c.2.1.2 29910 1fc4A 401 1.44e+01 1bs0A c.67.1.4 59760 4uagA 437 1.46e+01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1i60A 278 1.46e+01 c.1.15.4 71118 1fp1D 372 1.49e+01 1fpqA a.4.5.29 59939 c.66.1.12 59940 1ede 310 1.56e+01 1b6g c.69.1.8 34662 1gx3A 284 1.56e+01 d.3.1.5 70678 1p5dX 463 1.60e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1uv7A 110 1.62e+01 unknown_sccs -10256 1f4pA 147 1.68e+01 5nul c.23.5.1 59651 1b6g 310 1.69e+01 1b6g c.69.1.8 34661 1rk8A 165 1.70e+01 d.58.7.1 -10018 1nfjA 89 1.71e+01 d.68.6.1 -10285 1hdoA 206 1.84e+01 1he2A c.2.1.2 60965 1kgsA 225 1.95e+01 a.4.6.1 68596 c.23.1.1 68597 1kid 203 2.00e+01 1derA c.8.5.1 30771 1dqnA 230 2.29e+01 1dqnA c.61.1.1 34067 1rpnA 335 2.29e+01 c.2.1.2 -5759 1em8B 112 2.31e+01 unknown_sccs -6364 1agi 125 2.32e+01 7rsa d.5.1.1 37303 1tk9A 188 2.33e+01 1fsz 372 2.35e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1ne9A 335 2.38e+01 d.108.1.4 -10805 d.108.1.4 -10806 1k7cA 233 2.42e+01 c.23.10.4 68267 1gegA 256 2.43e+01 1ybvA c.2.1.2 29888 1cipA 353 2.44e+01 1cipA a.66.1.1 18210 c.37.1.8 32093 1r3sA 367 2.45e+01 c.1.22.1 -5648 1oo0B 110 2.48e+01 d.58.7.1 87183 1jtvA 327 2.51e+01 c.2.1.2 84230 1qhfA 240 2.52e+01 1qhfA c.60.1.1 33960 1jlnA 297 2.54e+01 1pty c.45.1.2 63172 1uroA 367 2.58e+01 1uroA c.1.22.1 29675 1dhn 121 2.59e+01 1dhn d.96.1.3 40663 1r6dA 337 2.61e+01 c.2.1.2 -5757 1deoA 233 2.61e+01 1deoA c.23.10.4 31345 1ivnA 190 2.62e+01 c.23.10.5 83719 1chuA 540 2.78e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1k68A 140 2.85e+01 c.23.1.1 -6403 1p2fA 220 2.88e+01 a.4.6.1 87720 c.23.1.1 87721 1j1iA 296 2.89e+01 c.69.1.10 83977 1zrn 232 2.95e+01 1qq5A c.108.1.1 43323 1k8tA 510 2.98e+01 e.41.1.1 68316 1jd5A 124 3.00e+01 g.52.1.1 66544 1i6wA 181 3.01e+01 1i6wA c.69.1.18 61859 1e58A 249 3.13e+01 1qhfA c.60.1.1 59262 1musA 477 3.14e+01 c.55.3.4 79494 1cqqA 180 3.17e+01 1cqqA b.47.1.4 26422 1lsuA 147 3.23e+01 c.2.1.9 74250 1p3dA 475 3.23e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1qkkA 155 3.29e+01 1dbwA c.23.1.1 31104 1hruA 188 3.34e+01 1hruA d.115.1.1 40926 1f32A 149 3.50e+01 1f32A d.62.1.1 39539 1bupA 386 3.52e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1e2tA 284 3.63e+01 1e2tA d.3.1.5 37121 1kay 381 3.64e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1broA 277 3.66e+01 1brt c.69.1.12 34700 1nijA 318 3.67e+01 c.37.1.10 85741 d.237.1.1 85742 1vjxA 157 3.69e+01 a.25.1.1 -654 1svsA 353 3.70e+01 1p99A 295 3.82e+01 c.94.1.1 -8697 1q18A 332 3.85e+01 1e6wA 260 3.87e+01 1e6wA c.2.1.2 59326 1jqeA 292 3.89e+01 c.66.1.19 71789 2fcr 173 3.96e+01 1rcf c.23.5.1 31151