# List of top-scoring protein chains for t2k-100-30-str 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 1qqfA 277 3.01e-01 1c3d a.102.4.4 18875 4xiaA 393 1.54e+00 4xis c.1.15.3 29439 1d2zA 108 1.82e+00 1d2zA a.77.1.1 18437 1i7pA 274 1.89e+00 b.43.4.2 66048 c.25.1.1 66049 1fnuA 221 1.91e+00 3seb b.40.2.2 25212 d.15.6.1 37801 1g2nA 264 1.96e+00 1lbd a.123.1.1 60227 1c3d 294 2.39e+00 1c3d a.102.4.4 18874 1f9mA 112 2.93e+00 1erv c.47.1.1 32736 1g73C 121 3.45e+00 1g3fA g.52.1.1 45375 1faaA 124 3.49e+00 1erv c.47.1.1 32738 1ndh 272 3.76e+00 1ndh b.43.4.2 25662 c.25.1.1 31552 1reqD 637 4.87e+00 1reqB c.1.19.1 29623 c.23.6.1 31250 1pmy 123 4.87e+00 1bqk b.6.1.1 22888 1b8sA 504 5.30e+00 1b8sA c.3.1.2 30335 d.16.1.1 37866 1m4vA 204 5.40e+00 1pls 113 5.88e+00 1pls b.55.1.1 26965 1b66A 140 6.15e+00 1b66A d.96.1.2 40657 1reqB 637 6.37e+00 1reqB c.1.19.1 29621 c.23.6.1 31248 1b4vA 504 6.60e+00 1b8sA c.3.1.2 30334 d.16.1.1 37865 1ijhA 504 6.61e+00 c.3.1.2 66161 d.16.1.1 66162 1doi 128 6.85e+00 1awd d.15.4.1 37676 1iibA 106 7.24e+00 1iibA c.44.2.1 32648 1d5mC 239 7.29e+00 3seb b.40.2.2 25185 d.15.6.1 37774 1g3fA 117 7.48e+00 1g3fA g.52.1.1 45378 1bzg 34 7.80e+00 1bzg j.15.1.1 46166 1kp9B 287 7.93e+00 c.66.1.18 68734 1jj2M 186 8.03e+00 1ffkK c.55.4.1 63098 1gtqA 140 8.11e+00 1b66A d.96.1.2 40661 1kwhA 492 8.14e+00 c.94.1.1 68876 1ezvD 245 8.55e+00 1be3D a.3.1.3 59546 f.2.1.8 59547 1h2aS 317 8.87e+00 2frvA e.19.1.1 43311 1hqz9 141 9.09e+00 1ffkK 186 9.38e+00 1ffkK c.55.4.1 33731 1hqz1 141 9.68e+00 1jljA 189 1.06e+01 c.57.1.1 63169 1jetA 517 1.07e+01 1jevA c.94.1.1 35718 1ihcA 188 1.08e+01 1di6A c.57.1.1 62379 1ex1A 605 1.08e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 1acf 125 1.09e+01 3nul d.110.1.1 40882 1jevA 517 1.10e+01 1jevA c.94.1.1 35720 2olbA 517 1.11e+01 1jevA c.94.1.1 35721 1ncs 47 1.12e+01 1ncs g.37.1.1 45040 1l5jA 865 1.12e+01 2trcP 217 1.17e+01 1b9yC c.47.1.6 33051 1b9yC 246 1.24e+01 1b9yC c.47.1.6 33052 1prxA 224 1.27e+01 1prxA c.47.1.10 33076 1iexA 605 1.34e+01 c.1.8.7 66127 c.23.11.1 66128 1pcfA 66 1.35e+01 1pcfA d.18.1.1 38142 1ggwA 140 1.42e+01 1ggwA a.39.1.5 60490 3nll 138 1.45e+01 5nul c.23.5.1 31206 5nul 138 1.45e+01 5nul c.23.5.1 31191 1byqA 228 1.56e+01 1yer d.122.1.1 41100 1h2rS 267 1.64e+01 2frvA e.19.1.1 43310 1irqA 71 1.75e+01 a.43.1.2 66297 1qgeE 97 1.82e+01 1cvl 1bco 327 1.82e+01 1bco b.48.1.1 26431 c.55.3.3 33676 1thx 115 1.83e+01 1thx c.47.1.1 32732 3cox 507 1.84e+01 1b8sA c.3.1.2 30332 d.16.1.1 37863 1dywA 173 1.96e+01 2cpl b.62.1.1 27505 1ayx 492 1.97e+01 1ayx a.102.1.1 18825 1fhoA 119 2.00e+01 1fhoA b.55.1.1 26982 1yer 228 2.01e+01 1yer d.122.1.1 41101 3seb 238 2.10e+01 3seb b.40.2.2 25184 d.15.6.1 37773 1ct9A 553 2.12e+01 1ct9A c.26.2.1 31616 d.153.1.1 41834 1pmc 36 2.12e+01 1pmc g.4.1.1 44382 1aj8A 371 2.16e+01 1aj8A a.103.1.1 18900 1ayoA 130 2.39e+01 1ayoA b.2.4.1 22431 1eiwA 111 2.47e+01 1eiwA c.23.3.1 31130 1cfyA 143 2.50e+01 1cof d.109.1.2 40858 1nsf 273 2.58e+01 1d2nA c.37.1.13 32429 1qg8A 255 2.64e+01 1qg8A c.68.1.1 34505 1pkn 530 2.74e+01 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1f89A 291 2.75e+01 d.160.1.1 64988 1gl1I 36 2.76e+01 g.4.1.1 65275 1ed5A 444 2.79e+01 1nseA d.174.1.1 42530 1d0cA 444 2.94e+01 d.174.1.1 64769 1d1vA 444 3.04e+01 1nseA d.174.1.1 59101 1ahjB 212 3.06e+01 2ahjB b.34.4.4 24601 1f28A 297 3.07e+01 1bkpA d.117.1.1 59608 1lc0A 294 3.16e+01 1fb6A 105 3.22e+01 1thx c.47.1.1 32739 1a6q 382 3.37e+01 1a6q d.158.1.1 42063 1bqk 124 3.44e+01 1bqk b.6.1.1 22889 1eljA 381 3.51e+01 4mbp c.94.1.1 35791 1i86A 389 3.52e+01 c.95.1.2 66068 c.95.1.2 66069 1i88A 389 3.59e+01 c.95.1.2 66070 c.95.1.2 66071 1jj2R 84 3.62e+01 1ffkP d.12.1.1 63103 1nseA 444 3.63e+01 1nseA d.174.1.1 42534 1d2nA 272 3.66e+01 1d2nA c.37.1.13 32428 1mmsA 140 3.67e+01 1mmsA a.4.7.1 16247 d.47.1.1 38766 1bi5A 389 3.70e+01 1bi5A c.95.1.2 35985 c.95.1.2 35986 1qgtA 149 3.72e+01 1qgtA a.62.1.1 18135 1jqlB 140 3.73e+01 c.37.1.13 63234 1ddlA 188 3.76e+01 1auyA b.10.1.2 23317 1bawA 105 3.83e+01 1plc b.6.1.1 22868 1hra 81 3.85e+01 2nllB g.39.1.2 45130 1diiC 80 3.90e+01 1diiC a.3.1.1 15925 2ahjB 212 3.92e+01 2ahjB b.34.4.4 24599