# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1hxpA 348 1.04e-55 1guqA d.13.1.2 37530 d.13.1.2 37531 1gupA 348 1.57e-55 1guqA d.13.1.2 37534 d.13.1.2 37535 1guqA 348 3.04e-55 1guqA d.13.1.2 37522 d.13.1.2 37523 1kpeA 126 8.80e-13 1kpf d.13.1.1 37508 1kpf 126 2.67e-12 1kpf d.13.1.1 37507 1emsA 440 2.95e-12 1emsA d.13.1.1 37520 d.160.1.1 42086 1fit 147 1.74e-11 1fit d.13.1.1 37499 2fhi 147 1.80e-11 1fit d.13.1.1 37505 1st0A 337 2.30e-01 1fg7A 356 7.57e-01 1gewA c.67.1.1 59819 1iuqA 367 1.17e+00 1g61A 228 2.01e+00 1g61A d.126.1.1 41126 1jyoA 130 2.37e+00 d.198.1.1 67483 1k30A 368 2.96e+00 c.112.1.1 68067 1mmiA 366 3.34e+00 1ml4A 308 3.67e+00 c.78.1.1 79255 c.78.1.1 79256 1hrkA 359 3.78e+00 1hrkA c.92.1.1 61228 1b3eA 330 3.80e+00 1nnt c.94.1.2 35897 1b35C 282 4.07e+00 1b35C 1dtgA 334 4.09e+00 1nnt c.94.1.2 35896 1uyrA 737 4.79e+00 1pinA 163 5.09e+00 1pinA b.72.1.1 27802 d.26.1.1 38431 1rpl 251 5.15e+00 1bpyA a.60.12.1 75933 d.218.1.2 75934 1ng2A 193 5.20e+00 b.34.2.1 85660 b.34.2.1 85661 2cmd 312 5.22e+00 2cmd c.2.1.5 30135 d.162.1.1 42102 1jyhA 157 5.46e+00 d.60.1.3 71956 1j9jA 247 6.07e+00 c.106.1.1 62758 1eg9A 449 6.09e+00 1ndoA b.33.1.2 24443 d.129.3.3 41322 1a8e 329 6.13e+00 1cb6A c.94.1.2 35888 1j9lA 247 6.35e+00 c.106.1.1 62762 1bpb 248 6.44e+00 1bpyA a.60.12.1 75811 d.218.1.2 75812 1ndoA 449 6.45e+00 1ndoA b.33.1.2 24444 d.129.3.3 41323 1o7nA 449 6.72e+00 b.33.1.2 81162 d.129.3.3 81163 1ov3A 138 7.17e+00 b.34.2.1 87451 b.34.2.1 87452 1ybvA 283 7.46e+00 1ybvA c.2.1.2 29948 1f8aB 167 7.46e+00 1pinA b.72.1.1 27803 d.26.1.1 38432 1nom 248 7.67e+00 1bpyA a.60.12.1 75929 d.218.1.2 75930 1g0oA 283 7.67e+00 1ybvA c.2.1.2 60181 1m55A 197 7.73e+00 d.89.1.3 74469 1o5oA 221 8.06e+00 1duvG 333 8.13e+00 1othA c.78.1.1 35228 c.78.1.1 35229 1bg0 356 8.33e+00 1qh4A a.83.1.1 18476 d.128.1.2 41211 1m15A 357 8.65e+00 a.83.1.1 78368 d.128.1.2 78369 1s4nA 348 8.71e+00 1od2A 805 9.22e+00 c.14.1.4 86821 c.14.1.4 86822 1jqfA 334 1.03e+01 c.94.1.2 67086 1ryoA 327 1.05e+01 1azsB 212 1.09e+01 1azsA d.58.29.1 39423 1ge9A 184 1.15e+01 1dd5A d.67.3.1 60463 1kngA 156 1.20e+01 c.47.1.10 72777 1cjtA 217 1.27e+01 1azsA d.58.29.1 39419 1cf3A 583 1.33e+01 1gpeA c.3.1.2 30385 d.16.1.1 37949 1gal 583 1.38e+01 1gpeA c.3.1.2 30386 d.16.1.1 37950 1d3kA 329 1.39e+01 1nnt c.94.1.2 35889 1ni4B 341 1.42e+01 c.36.1.7 85729 c.48.1.2 85730 1i7oA 429 1.50e+01 1i7oA d.177.1.1 61893 d.177.1.1 61894 1gewA 356 1.50e+01 1gewA c.67.1.1 60470 1oe4A 247 1.65e+01 c.18.1.3 86895 2polA 366 1.75e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1ktbA 405 1.81e+01 b.71.1.1 72960 c.1.8.1 72961 1nz0A 118 1.84e+01 d.14.1.2 86433 6cpa 307 1.98e+01 1aye c.56.5.1 33816 1ptmA 329 1.99e+01 1gttA 429 2.01e+01 d.177.1.1 70529 d.177.1.1 70530 1fo3A 460 2.08e+01 1dl2A a.102.2.1 18845 1qmeA 702 2.11e+01 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1nqkA 381 2.27e+01 1ab8A 220 2.29e+01 1azsA d.58.29.1 39414 1g0sA 209 2.34e+01 1g0sA d.113.1.1 60187 1t2dA 322 2.37e+01 1dfeA 37 2.40e+01 1dfeA g.42.1.1 45318 1m7vA 363 2.45e+01 d.174.1.1 78748 1dgzA 37 2.46e+01 1dfeA g.42.1.1 45319 1bob 320 2.55e+01 1bob d.108.1.1 40816 1tubA 440 2.59e+01 1tubA c.32.1.1 31751 d.79.2.1 39803 1mbxC 106 2.62e+01 d.45.1.2 78929 1m41A 380 2.66e+01 c.1.16.4 78595 1azsA 220 2.71e+01 1azsA d.58.29.1 39416 1pn0A 665 2.73e+01 1hl8A 449 2.76e+01 2ctc 307 2.81e+01 1aye c.56.5.1 33802 1jpyA 137 2.84e+01 g.17.1.6 67065 1hcz 252 2.88e+01 1hcz b.2.6.1 22464 b.84.2.2 28250 1o6zA 303 2.88e+01 c.2.1.5 81107 d.162.1.1 81108 1jtvA 327 2.90e+01 c.2.1.2 84230 1a3qA 285 2.93e+01 1a3qA b.1.18.1 21932 b.2.5.3 22447 1v1rA 400 3.00e+01 1phk 298 3.03e+01 1cdkA d.144.1.7 41635 1isiA 265 3.03e+01 e.4.1.1 71394 1ny1A 240 3.04e+01 c.6.2.3 86395 1ak1 310 3.07e+01 1ak1 c.92.1.1 35594 1bq3B 246 3.07e+01 1qhfA c.60.1.1 33979 1ten 90 3.07e+01 1ten b.1.2.1 21990 1mz4A 137 3.08e+01 1i40A 175 3.15e+01 b.40.5.1 66024 2pcfB 250 3.17e+01 1hcz i.4.1.1 45911 1k0eA 453 3.23e+01 d.161.1.1 67938 1bawA 105 3.25e+01 1plc b.6.1.1 22868 1c0pA 363 3.28e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1e69B 322 3.39e+01 1e69B c.37.1.12 32377 1q0sA 259 3.40e+01 1rr9A 200 3.42e+01 1o5iA 249 3.45e+01 1n13B 113 3.48e+01 1qh4A 380 3.50e+01 1qh4A a.83.1.1 18462 d.128.1.2 41197 3pgm 241 3.56e+01 1qhfA c.60.1.1 33982 1ris 101 3.57e+01 1ris d.58.14.1 39314 1pgl1 185 3.59e+01 1yuiA 54 3.65e+01 1yuiA g.37.1.1 45073 1fds 327 3.79e+01 1fds c.2.1.2 29838 1bpyA 335 3.90e+01 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1uwsA 489 3.92e+01 1dozA 309 3.94e+01 1ak1 c.92.1.1 35592