# 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 1d2zA 108 3.49e-01 1d2zA a.77.1.1 18437 4xiaA 393 4.96e-01 4xis c.1.15.3 29439 1i7pA 274 8.41e-01 b.43.4.2 66048 c.25.1.1 66049 1g2nA 264 9.19e-01 1lbd a.123.1.1 60227 1ndh 272 2.60e+00 1ndh b.43.4.2 25662 c.25.1.1 31552 1jj2M 186 2.62e+00 1ffkK c.55.4.1 63098 1reqB 637 2.67e+00 1reqB c.1.19.1 29621 c.23.6.1 31248 1e9mA 106 2.75e+00 1ayfA d.15.4.1 59397 1reqD 637 2.87e+00 1reqB c.1.19.1 29623 c.23.6.1 31250 1ncs 47 3.17e+00 1ncs g.37.1.1 45040 1qqfA 277 3.50e+00 1c3d a.102.4.4 18875 1bzg 34 3.69e+00 1bzg j.15.1.1 46166 1ayx 492 3.75e+00 1ayx a.102.1.1 18825 1g73C 121 3.80e+00 1g3fA g.52.1.1 45375 1b8sA 504 4.79e+00 1b8sA c.3.1.2 30335 d.16.1.1 37866 1g3fA 117 4.79e+00 1g3fA g.52.1.1 45378 1pytA 94 5.65e+00 1pytA d.58.3.1 39064 1b4vA 504 5.95e+00 1b8sA c.3.1.2 30334 d.16.1.1 37865 1ijhA 504 6.06e+00 c.3.1.2 66161 d.16.1.1 66162 1d2nA 272 6.44e+00 1d2nA c.37.1.13 32428 1b66A 140 6.65e+00 1b66A d.96.1.2 40657 1jljA 189 7.11e+00 c.57.1.1 63169 1ayoA 130 7.64e+00 1ayoA b.2.4.1 22431 1c4zA 358 7.85e+00 1c4zA d.148.1.1 41766 1nsf 273 8.55e+00 1d2nA c.37.1.13 32429 1ihcA 188 8.57e+00 1di6A c.57.1.1 62379 1prxA 224 8.88e+00 1prxA c.47.1.10 33076 1l5jA 865 9.38e+00 1gtqA 140 9.86e+00 1b66A d.96.1.2 40661 1ct9A 553 1.01e+01 1ct9A c.26.2.1 31616 d.153.1.1 41834 1acf 125 1.30e+01 3nul d.110.1.1 40882 1jj2R 84 1.33e+01 1ffkP d.12.1.1 63103 1lc0A 294 1.44e+01 1kp9B 287 1.52e+01 c.66.1.18 68734 1gcuA 295 1.60e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1aj8A 371 1.60e+01 1aj8A a.103.1.1 18900 1pls 113 1.63e+01 1pls b.55.1.1 26965 1a8l 226 1.69e+01 1a8l c.47.1.2 32777 c.47.1.2 32778 1ezvD 245 1.73e+01 1be3D a.3.1.3 59546 f.2.1.8 59547 1c3d 294 1.74e+01 1c3d a.102.4.4 18874 1ggwA 140 1.75e+01 1ggwA a.39.1.5 60490 1byqA 228 1.82e+01 1yer d.122.1.1 41100 1sxl 97 1.88e+01 1b7fA d.58.7.1 39180 1hqz9 141 1.91e+01 1hqz1 141 1.98e+01 1k1gA 131 1.99e+01 d.51.1.1 68015 1qe5A 266 2.05e+01 1b8oA c.56.2.1 33784 1qgtA 149 2.06e+01 1qgtA a.62.1.1 18135 1dljA 402 2.15e+01 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1jhgA 101 2.26e+01 1jhgA a.107.1.1 19009 1yer 228 2.35e+01 1yer d.122.1.1 41101 1f89A 291 2.37e+01 d.160.1.1 64988 1nseA 444 2.38e+01 1nseA d.174.1.1 42534 1ed5A 444 2.39e+01 1nseA d.174.1.1 42530 1hylA 230 2.40e+01 5ptp b.47.1.2 26076 2hlcA 230 2.40e+01 5ptp b.47.1.2 26074 1d1vA 444 2.41e+01 1nseA d.174.1.1 59101 1a6q 382 2.44e+01 1a6q d.158.1.1 42063 3cox 507 2.53e+01 1b8sA c.3.1.2 30332 d.16.1.1 37863 1g8yA 279 2.58e+01 1g8yA c.37.1.11 32302 1fohA 664 2.59e+01 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1d0cA 444 2.60e+01 d.174.1.1 64769 1jj2W 91 2.62e+01 1ffkU d.29.1.1 63108 1gp4A 356 2.72e+01 b.82.2.1 65439 1gp6A 356 2.77e+01 b.82.2.1 65441 1pmc 36 2.77e+01 1pmc g.4.1.1 44382 1jcrA 377 2.79e+01 a.118.6.1 66506 1qgeE 97 2.82e+01 1cvl 5nul 138 2.89e+01 5nul c.23.5.1 31191 1trrA 107 2.93e+01 1jhgA a.107.1.1 19017 1a49A 530 2.95e+01 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 2wrpR 107 2.98e+01 1jhgA a.107.1.1 19010 1qbqA 333 3.00e+01 1ft1A a.118.6.1 19187 1lghB 45 3.01e+01 1lghB f.3.1.1 43734 1e58A 249 3.07e+01 1qhfA c.60.1.1 59262 1d8dA 377 3.08e+01 1ft1A a.118.6.1 19185 1ld8A 382 3.10e+01 1lk5A 229 3.15e+01 1rip 81 3.16e+01 1rip b.40.4.5 25357 1d1rA 116 3.19e+01 1d1rA d.64.1.1 39548 1bco 327 3.21e+01 1bco b.48.1.1 26431 c.55.3.3 33676 1pcfA 66 3.30e+01 1pcfA d.18.1.1 38142 1f28A 297 3.33e+01 1bkpA d.117.1.1 59608 1phm 310 3.50e+01 1phm b.13.1.2 59015 b.13.1.2 59016 1iba 101 3.53e+01 1iba d.95.1.1 40567 1ft1A 377 3.57e+01 1ft1A a.118.6.1 19186 1jcqA 382 3.59e+01 a.118.6.1 66504 1qlwA 328 3.62e+01 1qlwA c.69.1.15 34722 1dliA 402 3.66e+01 1dliA a.100.1.4 18809 c.2.1.6 30213 c.26.3.1 31622 1diiC 80 3.81e+01 1diiC a.3.1.1 15925 1is2A 661 3.82e+01 1coi 31 3.85e+01 k.5.1.1 46408 1f9mA 112 3.86e+01 1erv c.47.1.1 32736 1i50J 70 3.97e+01 a.4.11.1 61764