# List of top-scoring protein chains for T0224.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 1jx7A 117 1.67e-01 c.114.1.1 77195 1d7yA 408 4.90e-01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1cfyA 143 5.70e-01 1cof d.109.1.2 40858 1uekA 275 2.46e+00 d.14.1.5 88483 d.58.26.5 88484 1ebpA 211 3.35e+00 1eerB b.1.2.1 22023 b.1.2.1 22024 1ernA 213 3.39e+00 1eerB b.1.2.1 22019 b.1.2.1 22020 1ogyA 802 3.44e+00 1ebaA 215 3.44e+00 1eerB b.1.2.1 22015 b.1.2.1 22016 1pkhA 204 3.63e+00 1eerB 227 3.83e+00 1eerB b.1.2.1 22011 b.1.2.1 22012 1cn4A 228 3.88e+00 1eerB b.1.2.1 22027 b.1.2.1 22028 1fukA 165 4.07e+00 1fukA c.37.1.19 32409 1cb0A 283 4.53e+00 1cb0A c.56.2.1 33790 1ahpA 797 7.01e+00 1a8i c.87.1.4 35544 2ecpA 796 7.33e+00 1a8i c.87.1.4 35546 1p9nA 170 7.86e+00 c.37.1.10 87997 1np6A 174 7.94e+00 c.37.1.10 85954 1bygA 278 9.89e+00 1fmk d.144.1.7 41705 1s29A 92 1.02e+01 1f6tA 155 1.02e+01 1npk d.58.6.1 39110 1f3fA 155 1.02e+01 1npk d.58.6.1 39101 1hlwA 155 1.03e+01 1npk d.58.6.1 39100 1npk 154 1.08e+01 1npk d.58.6.1 39099 1ndk 155 1.09e+01 1npk d.58.6.1 39118 1mn7A 155 1.11e+01 d.58.6.1 79316 1fnhA 271 1.15e+01 1fnhA b.1.2.1 21976 b.1.2.1 21977 b.1.2.1 21978 1fuuA 394 1.15e+01 1qvaA c.37.1.19 32412 1l81 164 1.23e+01 1l92 d.2.1.3 36881 1l80 164 1.25e+01 1l92 d.2.1.3 36698 1l25 164 1.25e+01 1l92 d.2.1.3 36761 1l82 164 1.26e+01 1l92 d.2.1.3 36919 1yagA 375 1.28e+01 1yagA c.55.1.1 33449 c.55.1.1 33450 1m32A 366 1.35e+01 c.67.1.3 78508 1leo 150 1.45e+01 1npk d.58.6.1 39125 1ncl 150 1.46e+01 1npk d.58.6.1 39109 1fc4A 401 1.55e+01 1bs0A c.67.1.4 59760 1mqmA 329 1.65e+01 1aquA 297 1.66e+01 1aquA c.37.1.5 31942 1jatB 138 1.68e+01 1jatB d.20.1.1 62819 1smlA 269 1.72e+01 1smlA d.157.1.1 42053 1k9aA 450 1.73e+01 b.34.2.1 72188 d.93.1.1 72189 d.144.1.7 72190 1my7A 114 1.94e+01 b.1.18.1 79675 2his 312 1.97e+01 1taxA c.1.8.3 28918 1lwxA 155 2.05e+01 1npk d.58.6.1 39119 1bftA 101 2.19e+01 1a3qA b.1.18.1 21934 1my5A 114 2.20e+01 b.1.18.1 79673 1oy3B 136 2.22e+01 b.1.18.1 87552 1leiA 274 2.30e+01 b.1.18.1 84599 b.2.5.3 84600 1iknA 286 2.30e+01 1a3qA b.1.18.1 21936 b.2.5.3 22449 1vkxA 273 2.30e+01 1a3qA b.1.18.1 21941 b.2.5.3 22454 2ramA 273 2.30e+01 1a3qA b.1.18.1 21937 b.2.5.3 22450 3hmgA 328 2.32e+01 1hgeA b.19.1.2 23825 1nfiA 301 2.49e+01 1a3qA b.1.18.1 21942 b.2.5.3 22455 2vitC 282 2.54e+01 1hgeA b.19.1.2 23808 2virC 282 2.57e+01 1hgeA b.19.1.2 23812 1ass 159 2.60e+01 1a6dA c.8.5.2 30818 1l26 164 2.66e+01 1l92 d.2.1.3 36730 1vecA 206 2.70e+01 1fh9A 312 2.74e+01 1taxA c.1.8.3 28913 2visC 282 2.76e+01 1hgeA b.19.1.2 23807 1pv8A 330 2.79e+01 1e51A 330 2.79e+01 1b4kA c.1.10.3 59254 1l30 164 2.79e+01 1l92 d.2.1.3 36670 1bia 321 2.81e+01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1m4yA 171 2.83e+01 d.153.1.4 84802 1lox 662 2.87e+01 1lox a.119.1.2 19238 b.12.1.1 23638 1s1hL 118 2.89e+01 1rypI 222 2.92e+01 d.153.1.4 41877 1jcuA 208 2.96e+01 d.115.1.1 71634 1l91 164 2.98e+01 1l92 d.2.1.3 36668 1hhqA 155 3.01e+01 1npk d.58.6.1 61044 1l79 164 3.02e+01 1l92 d.2.1.3 36825 1dj2A 443 3.03e+01 1adeA c.37.1.10 32237 1fntI 232 3.04e+01 1hgeA 328 3.05e+01 1hgeA b.19.1.2 23816 1hgjA 328 3.06e+01 1hgeA b.19.1.2 23801 2hmgA 328 3.06e+01 1hgeA b.19.1.2 23828 2viuA 328 3.06e+01 1hgeA b.19.1.2 23797 1p8tA 285 3.12e+01 c.10.2.7 87982 1oznA 285 3.12e+01 c.10.2.7 87621 3ncmA 92 3.16e+01 3ncmA b.1.1.4 21702 1ppfE 218 3.25e+01 1a7s b.47.1.2 26234 1m9sA 605 3.28e+01 b.1.18.15 78874 b.34.11.1 78875 b.34.11.1 78876 b.34.11.1 78877 c.10.2.1 78878 1fgkA 310 3.42e+01 1fgkA d.144.1.7 41693 1a2vA 655 3.49e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1ekmA 656 3.49e+01 1a2vA b.30.2.1 24413 d.17.2.1 38053 d.17.2.1 38054 1jm7A 112 3.55e+01 g.44.1.1 66880 1b0fA 218 3.55e+01 1a7s b.47.1.2 26237 1hneE 218 3.57e+01 1a7s b.47.1.2 26235 1k3sA 113 3.59e+01 d.198.1.1 68120 1l56 164 3.68e+01 1l92 d.2.1.3 36793 139l 164 3.80e+01 1l92 d.2.1.3 36643 1eq9A 222 3.81e+01 5ptp b.47.1.2 26068 1l28 164 3.92e+01 1l92 d.2.1.3 36708 1bk6A 422 3.99e+01 1bk5A a.118.1.1 19133 1lcuA 371 4.00e+01 c.55.1.1 73830 c.55.1.1 73831