# List of top-scoring protein chains for T0256.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 1lkdA 297 6.48e-16 d.32.1.3 78059 d.32.1.3 78060 1npbA 141 7.38e-16 d.32.1.2 -9549 1nkiA 135 1.84e-15 d.32.1.2 -9544 1kw3B 292 2.09e-14 d.32.1.3 77549 d.32.1.3 77550 1kwbB 292 2.27e-13 d.32.1.3 77557 d.32.1.3 77558 1f1uA 323 1.56e-12 d.32.1.3 83200 d.32.1.3 83201 1qipA 183 2.28e-12 1qipA d.32.1.1 38470 1mpyA 307 2.80e-12 1mpyA d.32.1.3 38508 d.32.1.3 38509 1f9zA 135 4.30e-12 1qipA d.32.1.1 38484 1f1xA 322 5.66e-12 d.32.1.3 83208 d.32.1.3 83209 1q0cA 365 7.39e-12 d.32.1.3 88343 d.32.1.3 88344 1bh5A 183 1.33e-11 1qipA d.32.1.1 38476 1r9cA 139 1.42e-10 d.32.1.2 -9557 1kmzA 130 6.02e-09 d.32.1.2 72759 1kllA 130 9.00e-09 d.32.1.2 72720 1jc4A 148 2.63e-08 1jc4A d.32.1.4 62863 1ecsA 126 2.70e-06 1ecsA d.32.1.2 59407 1mh6A 125 5.44e-06 d.32.1.2 79116 1ewjA 126 5.45e-06 1ecsA d.32.1.2 59526 1qtoA 122 2.42e-05 1bylA d.32.1.2 38494 1bylA 125 7.47e-05 1bylA d.32.1.2 38495 1cjxA 357 2.00e-03 1cjxA d.32.1.3 38516 d.32.1.3 38517 1t47A 381 1.22e-02 1ja9A 274 5.74e-01 c.2.1.2 62817 1j3kC 328 9.44e-01 d.117.1.1 84072 1hjkA 449 1.65e+00 1b8jA c.76.1.1 35006 1v93A 296 1.70e+00 c.1.23.1 -5654 1rjwA 339 1.76e+00 b.35.1.2 -3691 c.2.1.1 -5715 2anhA 446 2.09e+00 1b8jA c.76.1.1 35004 1ajaA 449 2.09e+00 1b8jA c.76.1.1 35010 1khjA 449 2.11e+00 c.76.1.1 72481 1kh7A 449 2.11e+00 c.76.1.1 72477 1elxA 449 2.20e+00 1b8jA c.76.1.1 35026 1cyx 205 2.20e+00 1cyx b.6.1.2 23023 1alkA 449 2.20e+00 1b8jA c.76.1.1 34994 1elyA 449 2.20e+00 1b8jA c.76.1.1 35028 1uraA 446 2.21e+00 1b8jA c.76.1.1 35002 1ed8A 449 2.23e+00 1b8jA c.76.1.1 34988 1kh5A 449 2.24e+00 c.76.1.1 72475 1elzA 449 2.27e+00 1b8jA c.76.1.1 35022 1hqaA 449 2.33e+00 1b8jA c.76.1.1 34998 1aliA 449 2.36e+00 1b8jA c.76.1.1 34996 1q67A 231 2.60e+00 unknown_sccs -4373 1cyw 205 2.67e+00 1cyx b.6.1.2 23024 1aniA 446 3.03e+00 1b8jA c.76.1.1 35018 1rypA 243 3.15e+00 1pmaA d.153.1.4 41932 1anjA 446 3.21e+00 1b8jA c.76.1.1 35008 1g0uG 252 3.25e+00 d.153.1.4 41952 1fftB 315 3.65e+00 1cyx b.6.1.2 23025 f.17.2.1 43628 1iqoA 88 3.78e+00 d.214.1.1 71277 1j79A 347 3.92e+00 1j79A c.1.9.4 62675 1alhA 446 4.99e+00 1b8jA c.76.1.1 35016 1nfiE 213 4.99e+00 1iknD d.211.1.1 19172 1iknD 236 5.26e+00 1iknD d.211.1.1 19171 1a3qA 285 5.29e+00 1a3qA b.1.18.1 21932 b.2.5.3 22447 1lluA 342 5.47e+00 b.35.1.2 -3682 c.2.1.1 -5706 1mgpA 313 5.69e+00 c.119.1.1 79098 1bqcA 302 5.80e+00 1bqcA c.1.8.3 28831 1d3uA 181 6.49e+00 1ytbA d.129.1.1 41290 d.129.1.1 41291 1aisA 182 6.52e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1jqdA 292 6.65e+00 c.66.1.19 71787 1pczA 191 7.58e+00 1ytbA d.129.1.1 41292 d.129.1.1 41293 1wblA 241 7.73e+00 1led b.29.1.1 24052 1wbfA 242 7.74e+00 1led b.29.1.1 24050 1sqhA 312 1.00e+01 unknown_sccs -10812 3aky 221 1.06e+01 1zin c.37.1.1 31898 g.41.2.1 45199 1kzhA 555 1.06e+01 c.89.1.1 73361 1aky 221 1.07e+01 1zin c.37.1.1 31896 g.41.2.1 45197 1pqwA 198 1.14e+01 c.2.1.1 88278 1h75A 81 1.14e+01 1h75A c.47.1.1 60716 1st9A 143 1.14e+01 c.47.1.10 -7503 1ho1A 242 1.15e+01 1ho1A c.1.24.1 61097 1m5wA 243 1.15e+01 c.1.24.1 84836 1smrA 335 1.16e+01 1smrA b.50.1.2 26878 1uqvA 85 1.19e+01 a.60.1.2 -1010 1hbq 183 1.19e+01 1aqb b.60.1.1 27078 1oqkA 97 1.19e+01 unknown_sccs -3814 1nn4A 162 1.21e+01 c.121.1.1 85888 1p8dA 250 1.23e+01 a.123.1.1 87941 1pq9A 253 1.24e+01 a.123.1.1 -1687 1eyqA 222 1.26e+01 1eypA d.36.1.1 38534 1ecfA 504 1.28e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1kt5A 175 1.31e+01 b.60.1.1 84465 1oniA 138 1.33e+01 d.79.1.1 87144 1kt6A 183 1.33e+01 b.60.1.1 84466 1jx1A 222 1.34e+01 d.36.1.1 71925 1bfoA 214 1.35e+01 8fabA b.1.1.1 20310 b.1.1.2 21302 1i17A 107 1.37e+01 1i17A d.6.1.1 61519 1jx0A 222 1.37e+01 d.36.1.1 71923 1q74A 303 1.41e+01 unknown_sccs -8121 1nrjB 218 1.45e+01 c.37.1.8 86125 1mb3A 124 1.48e+01 c.23.1.1 78907 1na0A 125 1.50e+01 k.38.1.1 85479 1qabE 180 1.58e+01 1aqb b.60.1.1 27088 1jqeA 292 1.58e+01 c.66.1.19 71789 1ib8A 164 1.61e+01 b.38.2.1 71168 d.52.4.1 71169 1q7tA 328 1.62e+01 unknown_sccs -8125 1g7sA 594 1.63e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1rbp 182 1.64e+01 1aqb b.60.1.1 27085 1hqlA 257 1.64e+01 b.29.1.1 65907 1nwaA 203 1.65e+01 d.58.28.1 86295 1jydA 183 1.65e+01 b.60.1.1 84255 1ixvA 231 1.65e+01 d.211.1.1 -9575 1m53A 570 1.67e+01 b.71.1.1 84805 c.1.8.1 84806 2jdxA 385 1.82e+01 1jdw d.126.1.2 41139 1rcqA 357 1.84e+01 1jyjA 183 1.85e+01 b.60.1.1 84256 1qqgA 264 1.95e+01 1qqgA b.55.1.2 26987 b.55.1.2 26988 1k0sA 151 2.04e+01 b.40.7.1 67969 1ag9A 175 2.05e+01 1rcf c.23.5.1 31178 1g62A 224 2.11e+01 1g61A d.126.1.1 41128 3pcdM 238 2.14e+01 3pchM b.3.6.1 22778 1rypB 250 2.15e+01 1rypB d.153.1.4 41933 1tluA 130 2.16e+01 1eokA 290 2.19e+01 1eokA c.1.8.5 28991 1o73A 144 2.21e+01 c.47.1.10 86638 8jdwA 386 2.22e+01 1jdw d.126.1.2 41132 1s1i 130 2.30e+01 4jdwA 423 2.30e+01 1jdw d.126.1.2 41137 1jdw 423 2.30e+01 1jdw d.126.1.2 41129 1fmmS 132 2.33e+01 1bfg b.42.1.1 59883 1lk5A 229 2.34e+01 unknown_sccs 73960 d.58.40.1 73961 1nq3A 136 2.36e+01 d.79.1.1 -10370 1a17 166 2.40e+01 1a17 a.118.8.1 19206 3pcgM 238 2.40e+01 3pchM b.3.6.1 22742 1dynA 125 2.43e+01 1dynA b.55.1.1 26955 1gsoA 431 2.47e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1ijqA 316 2.49e+01 1ijqA b.68.5.1 62506 g.3.11.1 62507 1nawA 419 2.53e+01 1uae d.68.2.2 39582 1b4aA 149 2.53e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1mngA 203 2.57e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1j9lA 247 2.58e+01 c.106.1.1 62762 1a2n 419 2.67e+01 1uae d.68.2.2 39575 1na3A 91 2.72e+01 k.38.1.1 85481 1t95A 240 2.72e+01 1kjqA 391 2.75e+01 b.84.2.1 72616 c.30.1.1 72617 d.142.1.2 72618 1eyzA 392 2.75e+01 1ez1A b.84.2.1 28246 c.30.1.1 31653 d.142.1.2 41498 1uae 419 2.77e+01 1uae d.68.2.2 39574 1qahA 136 2.79e+01 d.79.1.1 -10377 1l19 164 2.80e+01 1l92 d.2.1.3 36627 1p9qC 256 2.83e+01 1qo2A 241 2.84e+01 1qo2A c.1.2.1 28533 1jcnA 514 2.91e+01 c.1.5.1 84160 d.37.1.1 84161 d.37.1.1 84162 1ta3A 274 3.00e+01 1nqdA 122 3.04e+01 b.23.2.1 86025 1fn4A 211 3.06e+01 b.1.1.1 59884 b.1.1.2 59885 1lfpA 249 3.07e+01 e.39.1.1 73885 1nqjA 119 3.08e+01 b.23.2.1 86031 1q3gA 419 3.10e+01 d.68.2.2 -10288 1foeA 377 3.12e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1ejdA 419 3.13e+01 1uae d.68.2.2 39576 1iiuA 174 3.22e+01 b.60.1.1 66151 1dlgA 419 3.23e+01 1uae d.68.2.2 39580 1fiqA 219 3.25e+01 1qj2A a.56.1.1 17912 d.15.4.2 37697 1pkyA 470 3.25e+01 1a49A b.58.1.1 27068 c.1.12.1 29296 c.49.1.1 33150 1nxpA 120 3.34e+01 c.23.1.1 -6424 1tmiA 130 3.41e+01 1a8p 258 3.42e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1iicA 422 3.46e+01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1e0uA 470 3.46e+01 1a49A b.58.1.1 27072 c.1.12.1 29300 c.49.1.1 33154 1mjhA 162 3.50e+01 1mjhA c.26.2.4 31639 1dxy 333 3.50e+01 1dxy c.2.1.4 30094 c.23.12.1 31354 1e2yA 188 3.54e+01 1qq2A c.47.1.10 59173 4sbvA 261 3.55e+01 1smvA b.121.4.7 23299 1mkiA 330 3.63e+01 e.3.1.2 84994 1e0tA 470 3.69e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1a76 326 3.72e+01 1a76 a.60.7.1 18091 c.120.1.2 33361 1kbaA 66 3.74e+01 3ebx g.7.1.1 44431 1iruA 246 3.77e+01 d.153.1.4 71352 1un7A 400 3.79e+01 b.92.1.5 -5077 c.1.9.10 -5429 2dynA 122 3.79e+01 1dynA b.55.1.1 26957 1qu9A 128 3.86e+01 1qu9A d.79.1.1 39755 1c20A 128 3.92e+01 1c20A a.4.3.1 16079 1aqb 183 3.93e+01 1aqb b.60.1.1 27084 1a8y 367 3.93e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1powA 585 3.98e+01 1poxA c.31.1.3 31733 c.36.1.5 31797 c.36.1.9 31798 1kwsA 261 4.00e+01 c.68.1.7 73083