# List of top-scoring protein chains for t04-100-30-near-backbone-11 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 1geqA 248 3.60e-02 2tysA c.1.2.4 28589 1m3uA 264 5.20e-02 c.1.12.8 84784 1ka2A 499 7.25e-02 d.92.1.5 77305 1mdbA 539 2.41e-01 e.23.1.1 79008 1keaA 221 5.12e-01 a.96.1.2 68491 1a79A 171 8.42e-01 1a79A c.52.2.1 33340 d.75.1.1 39739 1mrzA 293 1.01e+00 b.43.5.1 -4048 c.26.1.3 -6616 1jmvA 141 1.03e+00 c.26.2.4 66897 1hh1A 143 1.12e+00 1gefA c.52.1.18 61036 1o20A 427 1.17e+00 c.82.1.1 86556 1db3A 372 1.39e+00 1db3A c.2.1.2 29813 1nf2A 268 1.61e+00 c.108.1.10 -6842 1kutA 230 1.73e+00 d.143.1.1 73017 1scjB 71 1.73e+00 1scjB d.58.3.2 39069 1iirA 415 1.96e+00 1iirA c.87.1.5 62453 1g73C 121 2.02e+00 1g3fA g.52.1.1 45375 1v5xA 203 2.45e+00 c.1.2.4 -5169 1xyzA 347 2.52e+00 1taxA c.1.8.3 28804 1mvoA 136 2.75e+00 c.23.1.1 79513 1id1A 153 2.84e+00 1id1A c.2.1.9 62286 1o9gA 250 2.85e+00 c.66.1.29 86692 1qvzA 237 3.72e+00 c.23.16.2 -6537 1kgsA 225 3.76e+00 a.4.6.1 68596 c.23.1.1 68597 1rw7A 243 3.85e+00 c.23.16.2 -6530 1q6hA 224 4.13e+00 d.26.1.1 -9487 1e4yA 214 4.34e+00 1zin c.37.1.1 31901 g.41.2.1 45181 1gdhA 320 4.62e+00 1gdhA c.2.1.4 30095 c.23.12.1 31355 1mv8A 436 4.83e+00 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1rxxA 421 5.05e+00 unknown_sccs -10982 1rpjA 288 5.08e+00 2dri c.93.1.1 35656 1iukA 140 5.74e+00 c.2.1.8 83712 1se0A 116 5.75e+00 g.52.1.1 -12841 1eswA 500 5.98e+00 1cwyA c.1.8.1 59500 1gefA 123 6.14e+00 1gefA c.52.1.18 60465 1uwvA 433 6.33e+00 unknown_sccs -3950 unknown_sccs -8107 1reqB 637 6.52e+00 1reqB c.1.19.1 29621 c.23.6.1 31248 1rypL 212 6.73e+00 d.153.1.4 41880 1rvgA 305 6.83e+00 c.1.10.2 -5500 1nar 290 6.99e+00 1nar c.1.8.5 28988 1h98A 78 7.03e+00 d.58.1.2 65743 1tif 78 7.12e+00 1tif d.15.8.1 37836 1lrv 244 7.49e+00 1lrv a.118.1.5 19146 1pjr 724 7.59e+00 1pjr c.37.1.19 32391 c.37.1.19 32392 1j9iA 68 8.99e+00 a.6.1.5 71619 1odkA 235 9.11e+00 c.56.2.1 86863 1f9zA 135 9.23e+00 1qipA d.32.1.1 38484 1nxhA 126 9.28e+00 unknown_sccs -1239 1bcpA 235 9.32e+00 1bcpA d.166.1.1 42255 1k66A 149 9.35e+00 c.23.1.1 -6406 1v2dA 381 9.47e+00 1qo2A 241 9.89e+00 1qo2A c.1.2.1 28533 1t2aA 375 1.02e+01 c.2.1.2 -5764 1gudA 288 1.06e+01 c.93.1.1 83326 1qftA 175 1.06e+01 1qftA b.60.1.1 27151 1n82A 331 1.06e+01 c.1.8.3 -5306 1o6aA 96 1.10e+01 unknown_sccs -4101 1r89A 437 1.10e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1h75A 81 1.12e+01 1h75A c.47.1.1 60716 1c0eA 157 1.13e+01 1dg9A c.44.1.1 32638 1nbaA 264 1.14e+01 1nbaA unknown_sccs 31753 1h4pA 408 1.18e+01 c.1.8.3 -5314 1f5mA 180 1.19e+01 1f5mB d.110.2.1 40895 1thfD 253 1.22e+01 1thfD c.1.2.1 28535 1veaA 148 1.29e+01 1r5rA 119 1.33e+01 a.39.2.1 -893 1idrA 136 1.35e+01 1dlyA a.1.1.1 62301 1bjwA 382 1.36e+01 1bjwA c.67.1.1 34349 1i60A 278 1.41e+01 c.1.15.4 71118 1j08A 226 1.42e+01 c.47.1.2 83855 c.47.1.2 83856 1srrA 124 1.44e+01 1dz3A c.23.1.1 31110 1qgtA 149 1.44e+01 1qgtA a.62.1.1 18135 1vh7A 265 1.44e+01 c.1.2.1 -5159 1d4aA 273 1.44e+01 1d4aA c.23.5.3 31219 1s5lU 134 1.58e+01 1nz6A 101 1.61e+01 a.2.3.1 86441 1s4qA 228 1.61e+01 c.37.1.1 -6975 1b8bA 605 1.65e+01 1b8bA 1d3vA 323 1.66e+01 1d3vA c.42.1.1 32559 1mb3A 124 1.72e+01 c.23.1.1 78907 1vk1A 242 1.73e+01 1qopA 268 1.75e+01 2tysA c.1.2.4 28570 1mjc 69 1.85e+01 1mjc b.40.4.5 25319 1dg9A 157 1.88e+01 1dg9A c.44.1.1 32637 1qf5A 431 1.95e+01 1adeA c.37.1.10 32212 1ur1A 378 1.96e+01 c.1.8.3 -5311 1j09A 468 1.98e+01 a.97.1.1 77025 c.26.1.1 77026 1gln 468 2.01e+01 1gln a.97.1.1 18752 c.26.1.1 31588 1l1lA 739 2.06e+01 c.7.1.4 73470 1m6jA 261 2.07e+01 c.1.1.1 78693 1v2xA 194 2.08e+01 c.116.1.1 -6704 1zrn 232 2.10e+01 1qq5A c.108.1.1 43323 1eu8A 409 2.12e+01 1eu8A c.94.1.1 59502 1m2dA 110 2.25e+01 c.47.1.11 78476 1gmxA 108 2.27e+01 c.46.1.3 65355 1l3iA 192 2.29e+01 c.66.1.22 77676 1kv8A 216 2.30e+01 c.1.2.3 73054 1q6oA 216 2.32e+01 c.1.2.3 -5162 1apxA 249 2.34e+01 1ryc a.93.1.1 18669 2shpA 525 2.39e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1dj0A 264 2.45e+01 1dj0A unknown_sccs -10141 1ukkA 142 2.46e+01 d.227.1.1 -11206 1jd5A 124 2.47e+01 g.52.1.1 66544 1buoA 121 2.56e+01 1buoA d.42.1.1 38631 1b00A 127 2.59e+01 3chy c.23.1.1 31122 1o4sA 389 2.59e+01 c.67.1.1 86620 1im5A 180 2.62e+01 unknown_sccs 66211 1p3jA 217 2.62e+01 c.37.1.1 -6996 g.41.2.1 -12769 1tqnA 486 2.68e+01 1zfpE 98 2.74e+01 1griA d.93.1.1 40465 1jxpA 186 2.78e+01 1jxpA b.47.1.3 26402 1q1aA 289 2.81e+01 c.31.1.5 -6781 1o4uA 285 2.87e+01 c.1.17.1 86624 d.41.2.1 86625 1erv 105 2.91e+01 1erv c.47.1.1 32743 1m1fA 110 2.98e+01 b.34.6.2 78401 1tbmA 326 2.99e+01 1e7aA 585 3.05e+01 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1g71A 347 3.06e+01 1g71A unknown_sccs 43268 1rfzA 168 3.11e+01 unknown_sccs -1206 1f0kA 364 3.14e+01 1f0kA c.87.1.2 35465 1iz0A 302 3.15e+01 b.35.1.2 83821 c.2.1.1 83822 1hvyA 288 3.22e+01 1bkpA d.117.1.1 41049 1qwgA 251 3.23e+01 unknown_sccs -5678 1p5fA 189 3.28e+01 c.23.16.2 -6508 1kicA 339 3.39e+01 c.70.1.1 72510 1o1xA 155 3.48e+01 c.121.1.1 86553 1q9jA 422 3.51e+01 1nnwA 252 3.52e+01 d.159.1.5 80674 1n5uA 585 3.71e+01 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1t5hX 504 3.78e+01 1ml4A 308 3.78e+01 c.78.1.1 79255 c.78.1.1 79256 1bia 321 3.80e+01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1kjnA 157 3.81e+01 c.115.1.1 72614 1i36A 264 3.82e+01 a.100.1.8 71108 c.2.1.6 71109 1fezA 256 3.85e+01 1fezA c.108.1.3 43343 1v33A 366 3.92e+01 unknown_sccs -11384 1jcfA 344 3.93e+01 c.55.1.1 62878 c.55.1.1 62879