# List of top-scoring protein chains for t04-100-30-alpha 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 1dabA 539 2.08e-02 1dabA b.80.1.7 28049 1ny6A 267 3.92e-02 c.37.1.20 -7221 1g8lA 411 3.49e-01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1plzA 189 3.53e-01 b.82.1.7 88160 1nmeA 146 3.74e-01 c.17.1.1 85874 1o7dE 126 4.11e-01 1qtwA 285 4.14e-01 1qumA c.1.15.1 29392 1jj2L 194 4.15e-01 1ffkI d.12.1.2 63097 1qxrA 189 4.45e-01 b.82.1.7 -4834 1broA 277 6.04e-01 1brt c.69.1.12 34700 1olrA 224 8.10e-01 b.29.1.11 -3489 1k32A 1045 1.08e+00 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1deuA 277 1.41e+00 1theB d.3.1.1 37085 1nbwB 117 1.50e+00 c.51.3.2 80396 1agi 125 1.50e+00 7rsa d.5.1.1 37303 1s72M 194 1.60e+00 1o5uA 101 1.81e+00 b.82.1.8 -4845 1fvgA 199 1.84e+00 1fvaA d.58.28.1 39408 1svb 395 1.95e+00 1svb b.1.18.4 21814 f.10.1.1 43827 1brt 277 2.02e+00 1brt c.69.1.12 34699 1mo9A 523 2.04e+00 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1akz 223 2.15e+00 3eugA c.18.1.1 31007 1khqA 212 2.36e+00 d.3.1.1 -8868 1um0A 365 2.50e+00 1hkhA 279 2.64e+00 c.69.1.12 -8342 1yal 218 2.82e+00 1cs8A d.3.1.1 37025 1j27A 102 3.00e+00 unknown_sccs -10116 1gnuA 117 3.02e+00 d.15.1.3 65403 1vkfA 188 3.08e+00 1eyqA 222 3.27e+00 1eypA d.36.1.1 38534 1m6dA 214 3.29e+00 d.3.1.1 84849 1r6dA 337 3.29e+00 c.2.1.2 -5757 1souA 194 3.45e+00 1svpA 161 3.58e+00 1svpA b.47.1.3 26384 1ed8A 449 3.81e+00 1b8jA c.76.1.1 34988 1r72A 211 4.10e+00 unknown_sccs -215 unknown_sccs -5981 1ii7A 333 4.13e+00 1ii7A d.159.1.4 62415 1oboA 169 4.16e+00 c.23.5.1 86776 1cv2A 296 4.64e+00 1bn6A c.69.1.8 34680 1ppn 212 4.81e+00 1cs8A d.3.1.1 37004 2aaiB 262 5.25e+00 1abrB b.42.2.1 25561 b.42.2.1 25562 1cqxA 403 5.39e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1vjw 60 5.48e+00 1fxd d.58.1.4 38991 4eugA 229 5.70e+00 3eugA c.18.1.1 31019 1vk6A 269 5.88e+00 unknown_sccs -10923 unknown_sccs -10924 1bg6 359 6.14e+00 1bg6 a.100.1.5 18810 c.2.1.6 30214 1qavA 90 6.31e+00 1qauA b.36.1.1 24777 1om0A 274 6.33e+00 c.1.8.5 87058 1dgwX 79 6.33e+00 1caxB b.82.1.2 28091 1twdA 256 6.45e+00 1ezvD 245 6.51e+00 1be3D a.3.1.3 59546 f.23.11.1 59547 1mfa 247 6.61e+00 1mfa b.1.1.1 19888 b.1.1.1 19889 1in6A 334 6.92e+00 1hqcA a.4.5.11 62601 c.37.1.20 62602 1o5oA 221 6.94e+00 c.61.1.1 -7954 1uz5A 402 7.06e+00 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1t1gA 364 7.23e+00 1ta3A 274 7.32e+00 1nrzA 164 7.59e+00 c.38.1.1 86131 1kb9D 246 7.61e+00 a.3.1.3 77317 f.23.11.1 77318 1gq6A 313 8.02e+00 c.42.1.1 70341 1tdhA 364 8.09e+00 1aohA 147 9.02e+00 1aohA b.2.2.2 22401 1rcf 169 9.14e+00 1rcf c.23.5.1 31170 1m3kA 392 9.16e+00 c.95.1.1 78565 c.95.1.1 78566 1cxc 124 9.17e+00 1ycc a.3.1.1 15890 2cxbA 124 1.00e+01 1ycc a.3.1.1 15891 8pchA 220 1.02e+01 1cs8A 1l0wA 580 1.04e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1qw9A 502 1.07e+01 b.71.1.2 -4677 c.1.8.3 -5348 1mj5A 302 1.14e+01 c.69.1.8 -8326 1i9gA 280 1.15e+01 c.66.1.13 62090 1di0A 158 1.21e+01 1di0A c.16.1.1 30957 1w2wB 191 1.21e+01 1rkd 309 1.23e+01 1rkd c.72.1.1 34928 1in4A 334 1.24e+01 1hqcA a.4.5.11 62597 c.37.1.20 62598 1uf3A 228 1.28e+01 unknown_sccs -11463 1i7pA 274 1.29e+01 b.43.4.2 66048 c.25.1.1 66049 1az9 457 1.33e+01 1az9 c.55.2.1 33547 d.127.1.1 41164 1cs1A 386 1.34e+01 1ibjA c.67.1.3 34399 1fsyA 358 1.42e+01 1gceA e.3.1.1 60016 1mzjA 339 1.44e+01 c.95.1.1 79700 c.95.1.1 79701 1ih8A 271 1.46e+01 2nsyA c.26.2.1 62377 1l0gA 358 1.55e+01 e.3.1.1 73400 1pi4A 358 1.56e+01 e.3.1.1 -11774 1to6A 371 1.58e+01 1p0iA 529 1.61e+01 c.69.1.1 -8291 1hxn 219 1.64e+01 1hxn b.66.1.1 27529 1theA 260 1.66e+01 1theB d.3.1.1 37056 1n9lA 109 1.70e+01 d.110.3.6 85468 1fgs 428 1.76e+01 1fgs c.59.1.2 33959 c.72.2.2 34962 1q0rA 298 1.77e+01 unknown_sccs -8330 1ktjA 129 1.77e+01 b.1.18.7 72974 1kqpA 271 1.80e+01 c.26.2.1 72883 1gmyA 261 1.80e+01 d.3.1.1 76236 1jj2B 337 1.82e+01 1ffkB b.43.3.2 63086 1gg4A 452 1.82e+01 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1gt91 357 1.85e+01 1fxmA 302 1.92e+01 1taxA 1qhxA 178 1.93e+01 1qhsA c.37.1.3 31936 1m4tA 392 1.95e+01 c.95.1.1 78617 c.95.1.1 78618 1qh8A 478 1.95e+01 1qguA c.92.2.3 35633 1iwdA 215 1.95e+01 d.3.1.1 83756 1tns 76 2.02e+01 1qpmA a.6.1.7 16228 1ijbA 202 2.03e+01 c.62.1.1 71229 1nqcA 217 2.10e+01 d.3.1.1 86024 1sur 215 2.15e+01 1sur c.26.2.2 31620 1pk5A 248 2.15e+01 a.123.1.1 88139 1ta3B 303 2.17e+01 1geeA 261 2.17e+01 c.2.1.2 -5814 1f8vA 355 2.17e+01 2bbvA b.121.4.4 23329 1lm8C 96 2.20e+01 d.42.1.1 74034 1deoA 233 2.23e+01 1deoA c.23.10.4 31345 1rgyA 360 2.23e+01 e.3.1.1 -11768 1sr8A 298 2.24e+01 1fnsA 196 2.25e+01 1auq c.62.1.1 34136 1pwhA 327 2.27e+01 c.79.1.1 -8524 1lgpA 116 2.27e+01 b.26.1.2 73890 1pjcA 361 2.34e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 1lyqA 104 2.36e+01 b.1.18.17 78302 1n25A 368 2.38e+01 c.37.1.20 85264 1ecpA 238 2.38e+01 1ecpA c.56.2.1 33775 1m4jA 142 2.38e+01 d.109.1.2 78602 1czaN 917 2.48e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1dqsA 393 2.51e+01 1dqsA e.22.1.1 43347 1q1rA 431 2.52e+01 c.3.1.5 -6048 c.3.1.5 -6049 d.87.1.1 -10502 1ocxA 182 2.54e+01 b.81.1.3 86814 1atzA 189 2.61e+01 1atzA c.62.1.1 34132 1fviA 297 2.62e+01 1fviA b.40.4.6 25364 d.142.2.1 41578 1nw2A 105 2.63e+01 c.47.1.1 -7380 1rl6A 177 2.67e+01 1rl6A d.141.1.1 41473 d.141.1.1 41474 1t0iA 191 2.67e+01 1qflA 389 2.69e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1qyaA 307 2.71e+01 1gsmA 210 2.72e+01 b.1.1.4 65535 b.1.1.4 65536 2rmcA 182 2.73e+01 2cpl b.62.1.1 27491 1m6iA 493 2.74e+01 c.3.1.5 74533 c.3.1.5 74534 d.87.1.1 74535 1jipA 403 2.75e+01 a.104.1.1 66748 1qxoA 388 2.76e+01 unknown_sccs -11161 1o6yA 299 2.76e+01 d.144.1.7 81106 1dbxA 158 2.80e+01 1dbuA d.116.1.1 40928 1ccwA 137 2.83e+01 1be1 c.23.6.1 31238 1qgvA 142 2.83e+01 1qgvA c.47.1.8 33056 1g6hA 257 2.84e+01 1gajA c.37.1.12 60318 1k7cA 233 2.85e+01 c.23.10.4 68267 1p4cA 380 2.87e+01 c.1.4.1 -5201 1gcoA 261 2.89e+01 1ybvA c.2.1.2 29884 1i60A 278 2.90e+01 c.1.15.4 71118 1f2aA 215 2.91e+01 1cs8A d.3.1.1 37040 1me4A 215 3.07e+01 d.3.1.1 79023 1vkhA 273 3.09e+01 1s72B 338 3.09e+01 1j5xA 342 3.10e+01 c.80.1.1 71591 1msc 129 3.18e+01 1msc d.85.1.1 40039 1sjyA 159 3.20e+01 d.113.1.1 -10908 1hi9A 274 3.29e+01 1hi9A c.99.1.1 61063 1m2tB 263 3.32e+01 b.42.2.1 84762 b.42.2.1 84763 1fvrA 327 3.34e+01 d.144.1.7 60047 1srvA 145 3.34e+01 1derA c.8.5.1 30817 1uayA 242 3.34e+01 c.2.1.2 88390 1lmb3 92 3.36e+01 1lmb3 1ejxB 101 3.39e+01 b.85.3.1 83183 1eupA 403 3.39e+01 1rom a.104.1.1 18967 1q1gA 276 3.55e+01 c.56.2.1 -7846 1h30A 422 3.58e+01 b.29.1.4 76604 b.29.1.4 76605 1qhqA 140 3.59e+01 1qhqA b.6.1.1 63326 2act 220 3.60e+01 1cs8A d.3.1.1 37002 1st9A 143 3.66e+01 c.47.1.10 -7503 1sqjA 789 3.70e+01 1i8dA 213 3.73e+01 b.43.4.3 61953 b.43.4.3 61954 1wdkC 390 3.74e+01 1sl4A 155 3.76e+01 1ufoA 238 3.77e+01 unknown_sccs -8303 1k9sA 237 3.79e+01 c.56.2.1 68359 1pbtA 244 3.81e+01 unknown_sccs -6866 1ql0A 241 3.84e+01 1qaeA d.4.1.2 37139 1ixh 321 3.85e+01 1ixh c.94.1.1 35761 1s1qA 145 3.87e+01 d.20.1.2 -9405 1jb7B 260 3.89e+01 1otcB b.40.4.3 62839 1aym3 238 3.94e+01 1aym3 1o5zA 442 3.97e+01 c.59.1.2 -7939 c.72.2.2 -8418 1hxhA 253 3.99e+01 c.2.1.2 76725