# List of top-scoring protein chains for T0360.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 1dvoA 152 1.98e-11 1dvoA a.136.1.1 19623 1yr2A 741 1.15e+00 1p6bA 336 2.90e+00 c.1.9.3 94163 2gx8A 397 3.44e+00 1qdlA 422 4.08e+00 1qdlA d.161.1.1 42088 1o9gA 250 4.24e+00 c.66.1.29 86692 1o9hA 250 4.38e+00 c.66.1.29 86693 1agjA 242 1.53e+01 1agjA b.47.1.1 25827 1dueA 242 1.67e+01 b.47.1.1 76140 1z6cA 87 1.78e+01 1qydA 313 1.81e+01 c.2.1.2 96583 1la6B 146 2.01e+01 a.1.1.2 73783 2pviA 157 2.20e+01 3pviA c.52.1.6 33302 2b5nA 323 2.20e+01 2d2yA 145 2.22e+01 1rqgA 722 2.30e+01 a.27.1.1,c.26.1.1,g.41.1.1 105063,105064,105065 3gwxA 271 2.30e+01 2prgA a.123.1.1 19325 1y0sA 272 2.31e+01 2gwxA 267 2.33e+01 2prgA a.123.1.1 19323 1ni0A 159 2.33e+01 c.52.1.6 80522 2awhA 268 2.33e+01 1wh4A 127 2.36e+01 2b50A 272 2.37e+01 1wikA 109 2.40e+01 2b9mY 365 2.48e+01 1eyuA 157 2.57e+01 3pviA c.52.1.6 33304 1k0zA 156 2.74e+01 c.52.1.6 84273 2a9iA 113 2.85e+01 1z5hA 780 3.12e+01 1v4xB 146 3.24e+01 a.1.1.2 108364 1egjA 101 3.54e+01 1c8pA b.1.2.1 22039 1c8pA 102 3.55e+01 1c8pA b.1.2.1 22040 3pviA 157 3.83e+01 3pviA c.52.1.6 33300 1chuA 540 4.27e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1s4bP 674 4.58e+01 d.92.1.5 105252 1wkjA 137 4.60e+01 1njrA 284 4.69e+01 c.50.1.2 103858 1qleA 538 4.89e+01 2occA f.24.1.1 43620 1ar1A 558 4.90e+01 2occA f.24.1.1 43618 1knrA 540 5.20e+01 a.7.3.1,c.3.1.4,d.168.1.1 72788,72789,72790 1sezA 504 5.30e+01 c.3.1.2,d.16.1.5 98822,98823 1svfB 38 5.37e+01 1svfB h.3.2.1 45764 1wfmA 138 5.43e+01 1llfA 534 5.71e+01 c.69.1.17 78094 1v7cA 351 5.73e+01 c.79.1.1 100446 1cleA 534 5.76e+01 1thg c.69.1.17 34771 2b5lA 1140 5.76e+01 1t9kA 347 5.88e+01 c.124.1.5 106721 1fukA 165 5.96e+01 1fukA c.37.1.19 32409 1kyyA 159 6.03e+01 c.16.1.1 73307 1i51E 117 6.05e+01 2a59A 159 6.07e+01 1kz1A 159 6.16e+01 c.16.1.1 73318 1x9uA 116 6.18e+01 1kz9A 159 6.20e+01 c.16.1.1 73339 1v5iB 76 6.29e+01 1kkqA 269 6.29e+01 a.123.1.1 68679 2ch9A 131 6.30e+01 2cxxA 190 6.32e+01 1an7A 136 6.43e+01 1seiA d.140.1.1 41465 1k7lA 288 6.46e+01 a.123.1.1 68268 1kz4A 159 6.48e+01 c.16.1.1 73323 1i7gA 287 6.48e+01 a.123.1.1 71121 1kmcC 119 6.53e+01 1kz6A 159 6.62e+01 c.16.1.1 73328 1ky8A 501 6.63e+01 c.82.1.1 77628 1f53A 84 6.70e+01 1f53A b.11.1.4 23632 1fjgH 138 6.93e+01 1seiA d.140.1.1 41468 2fd6L 214 6.99e+01 1uxvA 501 7.07e+01 c.82.1.1 108127 1uxtA 501 7.12e+01 c.82.1.1 108125 1p91A 269 7.12e+01 c.66.1.33 94378 2g9iA 249 7.47e+01 1spiA 358 7.56e+01 1frpA e.7.1.1 42939 1nmoA 247 7.56e+01 c.135.1.1 91980 2bycA 137 7.61e+01 1vs1A 276 7.71e+01 1xriA 151 7.75e+01 1q60A 99 7.92e+01 2bqh 130 8.07e+01 3lzt d.2.1.2 36531 1fuuA 394 8.08e+01 1qvaA c.37.1.19 32412 1i4oC 141 8.13e+01 1b5zA 130 8.26e+01 3lzt d.2.1.2 36567 1dbzA 357 8.32e+01 1frpA e.7.1.1 42951 1lyvA 306 8.33e+01 c.45.1.2 74348 1xxpA 306 8.34e+01 1qz0A 306 8.37e+01 c.45.1.2 96607 1pa9A 284 8.37e+01 c.45.1.2 94411 1yptA 305 8.37e+01 1ytw c.45.1.2 32686 1xxvA 306 8.38e+01 1elvA 333 8.48e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1c9qA 117 8.52e+01 1c9qA g.52.1.1 45377 1thg 544 8.59e+01 1thg c.69.1.17 34763 1e6jL 210 8.59e+01 32c2A b.1.1.1,b.1.1.2 20496,21454 1yts 278 8.61e+01 1ytw c.45.1.2 32690 1i3oE 121 8.62e+01 1c9qA g.52.1.1 61605 1e6oL 212 8.64e+01 32c2A b.1.1.1,b.1.1.2 20494,21452 1dcuA 357 8.85e+01 1frpA e.7.1.1 42943 2f7wA 177 8.92e+01