# List of top-scoring protein chains for T0295.t04-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 1zq9A 285 5.26e-26 1kdhA 363 8.82e-01 a.60.6.1,a.60.12.1,d.218.1.2 72349,75882,75883 1jmsA 381 9.12e-01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 8jdwA 386 1.08e+00 1jdw d.126.1.2 41132 2jdxA 385 1.08e+00 1jdw d.126.1.2 41139 1h6oA 204 1.21e+00 a.146.1.1 60689 4jdwA 423 1.24e+00 1jdw d.126.1.2 41137 1jdw 423 1.26e+00 1jdw d.126.1.2 41129 1vb3A 428 2.88e+00 2ftcK 98 6.73e+00 1w7jB 151 6.88e+00 1nxuA 333 7.19e+00 c.122.1.1 86389 1s20A 340 7.42e+00 c.122.1.1 98356 1fp1D 372 8.68e+00 1fpqA a.4.5.29,c.66.1.12 59939,59940 1qdlA 422 9.45e+00 1qdlA d.161.1.1 42088 1jc2A 76 1.02e+01 a.39.1.5 62862 1yadA 221 1.03e+01 1do0A 442 1.13e+01 1do0A c.37.1.20 32432 1g4aE 443 1.13e+01 1do0A c.37.1.20 32444 1e94E 449 1.14e+01 1do0A c.37.1.20 32442 2fnpA 124 1.49e+01 2crpA 150 1.54e+01 1fzpB 123 1.67e+01 1fznD a.4.5.28 19008 2frhA 127 1.74e+01 1g2bA 62 1.84e+01 1tud b.34.2.1 24488 1r2uA 89 1.85e+01 a.39.1.5 104783 1tnw 162 1.90e+01 1ncx a.39.1.5 17235 1a3aA 148 1.92e+01 1a3aA d.112.1.1 40917 1cbg 490 1.93e+01 1e70M c.1.8.4 28933 1ap4 89 1.97e+01 1ncx a.39.1.5 17253 1m5xA 170 2.16e+01 d.95.2.1 84844 1p9bA 442 2.19e+01 c.37.1.10 94385 1zc8K 130 2.30e+01 1oejA 193 2.39e+01 b.60.1.4 92798 1yf3A 259 2.43e+01 1a8y 367 2.44e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1yewA 382 2.48e+01 2f6kA 307 2.49e+01 2fewA 148 2.55e+01 1ybjA 178 2.61e+01 1txlA 215 2.69e+01 b.60.1.4 107429 1s7dA 216 2.70e+01 b.60.1.4 105348 1yfjA 259 2.71e+01 1dk0A 188 2.90e+01 1b2vA d.35.1.1 38530 1k8hA 133 3.02e+01 b.111.1.1 72176 1q0sA 259 3.04e+01 c.66.1.28 95509 1i4wA 353 3.11e+01 c.66.1.24 66028 1i5dA 191 3.33e+01 1b3qA d.122.1.3 61783 1i58A 189 3.33e+01 1b3qA d.122.1.3 61773 2bisA 440 3.49e+01 2blcA 238 3.60e+01 1n9dA 199 3.65e+01 a.26.1.1 85464 1nzpA 87 3.72e+01 a.60.6.1 92385 1jy5A 212 3.75e+01 d.124.1.1 71940 2mysC 149 3.77e+01 1wdcC a.39.1.5 17323 1ctj 89 3.79e+01 1ctj a.3.1.1 15798 1mvwC 147 3.83e+01 i.15.1.1 79525 1gq2A 555 3.90e+01 c.2.1.7,c.58.1.3 70308,70309 1qndA 123 3.98e+01 1qndA d.106.1.1 40794 2bl9A 238 3.99e+01 1fy1A 225 4.09e+01 b.47.1.2 65065 2ctn 89 4.12e+01 1ncx a.39.1.5 17242 1bk2 57 4.20e+01 1tuc b.34.2.1 24495 1pwt 61 4.26e+01 1tud b.34.2.1 24490 1la0A 161 4.27e+01 a.39.1.5 77864 1wrkA 88 4.35e+01 1wffA 85 4.57e+01 2gjmA 583 4.67e+01 1negA 83 4.79e+01 b.34.2.1 80425 1avsA 90 4.84e+01 1cll a.39.1.5 17226 1qkwA 62 4.85e+01 1tuc b.34.2.1 24494 1p6vA 156 4.87e+01 b.111.1.1 94191 1qkxA 62 4.91e+01 1tuc b.34.2.1 24491 2gj1A 583 4.98e+01 1sglA 209 5.09e+01 d.124.1.1 105536 1v9wA 130 5.09e+01 c.47.1.16 108453 1hd3A 62 5.09e+01 b.34.2.1 65802 2bzgA 232 5.26e+01 1ldkD 133 5.34e+01 a.157.1.1,d.42.1.1 73855,73856 1u06A 62 5.39e+01 1ponB 36 5.65e+01 1ponB 2bmkB 226 5.69e+01 1fs1B 141 5.81e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1uueA 62 5.87e+01 b.34.2.1 100005 1npqA 90 5.88e+01 a.39.1.5 85983 1o50A 157 5.97e+01 d.37.1.1,d.37.1.1 92478,92479 5tnc 162 6.14e+01 1ncx a.39.1.5 17246 1rjbA 344 6.17e+01 d.144.1.7 97557 1v5oA 102 6.17e+01 d.15.1.1 108381 4tnc 162 6.19e+01 1ncx a.39.1.5 17228 1smg 90 6.37e+01 1ncx a.39.1.5 17234 1e6hA 62 6.38e+01 b.34.2.1 70084 1sqiA 393 6.49e+01 d.32.1.3,d.32.1.3 105914,105915 1top 162 6.60e+01 1ncx a.39.1.5 17223 1aj4 161 6.74e+01 1ncx a.39.1.5 17244 1h8kA 62 6.78e+01 b.34.2.1 70915 1dtlA 161 6.80e+01 1ncx a.39.1.5 17229 2fpnA 216 6.92e+01 1r89A 437 7.14e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1l1jA 239 7.14e+01 b.47.1.1 84516 1a2xA 159 7.42e+01 1ncx a.39.1.5 17251 1hqvA 191 7.50e+01 1hqvA a.39.1.8 61160 1e7oA 62 7.56e+01 b.34.2.1 83169 1e6gA 62 7.74e+01 b.34.2.1 70083 1unlA 292 7.80e+01 1l1mA 62 7.89e+01 a.35.1.5 73474 1h4lA 292 7.93e+01 d.144.1.7 70871 1w0pA 781 8.00e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 2furA 209 8.10e+01 1trf 76 8.13e+01 1ncx a.39.1.5 17247 1gks 78 8.25e+01 1cc5 a.3.1.1 15909 1fcpA 705 8.77e+01 1by5A f.4.3.3 43805 1js1X 324 8.93e+01 c.78.1.1,c.78.1.1 71834,71835 2fcpA 723 8.94e+01 1by5A f.4.3.3 43802