# 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 1agdA 276 1.16e-01 1agdA b.1.1.2 20741 d.19.1.1 38260 1go4A 205 3.03e-01 1clqA 903 3.67e-01 1clqA c.55.3.5 33717 e.8.1.1 43006 8rucI 123 4.62e-01 1rboC d.73.1.1 39629 1fzkA 274 4.68e-01 1agdA b.1.1.2 60149 d.19.1.1 60150 1rboC 123 4.70e-01 1rboC d.73.1.1 39634 2ucz 165 5.80e-01 1u9aA d.20.1.1 38330 1gcyA 527 7.94e-01 1jdc b.71.1.1 27788 c.1.8.1 28775 1b3jA 274 9.04e-01 1agdA b.1.1.2 20855 d.19.1.1 38319 5fbpA 335 9.38e-01 1frpA e.7.1.1 42873 3rubS 123 9.93e-01 1rboC d.73.1.1 39616 1fpkA 335 1.05e+00 1frpA e.7.1.1 42930 1jdc 429 1.17e+00 1jdc b.71.1.1 27789 c.1.8.1 28776 1u9aA 160 1.48e+00 1u9aA d.20.1.1 38333 1ospO 257 1.48e+00 1ospO b.76.1.1 27971 1rdzA 337 1.51e+00 1frpA e.7.1.1 42882 1apyB 141 1.52e+00 1apyB 1f2tB 148 1.75e+00 1f2tB 1frpA 335 1.79e+00 1frpA e.7.1.1 42875 1g7pA 274 1.94e+00 1fzoA 274 2.08e+00 1agdA b.1.1.2 60155 d.19.1.1 60156 1qs8A 329 2.20e+00 1smrA b.50.1.2 26887 1a2vA 655 3.03e+00 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1jbbA 153 3.47e+00 1u9aA d.20.1.1 62842 1i88A 389 4.10e+00 c.95.1.2 66070 c.95.1.2 66071 1repC 251 4.10e+00 1repC a.4.5.10 16125 a.4.5.10 16126 1g8iA 190 4.60e+00 1rec a.39.1.5 60363 1jatA 155 4.65e+00 1u9aA d.20.1.1 62818 1tiiD 99 4.66e+00 1tiiD b.40.2.1 24965 1hp1A 516 5.07e+00 1cqxA 403 5.34e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1pda 315 5.43e+00 1pda c.94.1.1 35751 d.50.2.1 38794 1erjA 393 6.24e+00 1erjA b.69.4.1 27660 1duzA 275 6.30e+00 1agdA b.1.1.2 20670 d.19.1.1 38224 1qj4A 257 6.66e+00 1qj4A c.69.1.20 34796 1i4fA 275 6.73e+00 1agdA b.1.1.2 61687 d.19.1.1 61688 1gof 639 7.23e+00 1gof b.1.1.5 21807 b.18.1.1 23709 b.69.1.1 27631 2bidA 197 7.27e+00 2bidA f.1.4.1 43398 1dcjA 81 7.48e+00 1dcjA d.68.3.1 59115 1yasA 257 7.96e+00 1qj4A c.69.1.20 34801 1eylA 186 8.03e+00 1wba b.42.4.1 25593 1mwpA 96 8.46e+00 1mwpA d.170.2.1 42453 1cczA 171 9.41e+00 1cczA b.1.1.1 19758 b.1.1.3 21683 1kcvH 217 1.02e+01 1rlw 126 1.03e+01 1rlw b.7.1.1 23177 1gjuA 637 1.05e+01 b.71.1.1 60580 c.1.8.1 60581 1ikpA 613 1.08e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1knyA 253 1.10e+01 1knyA e.9.1.3 43232 1rec 201 1.13e+01 1rec a.39.1.5 17326 2btvA 901 1.14e+01 2btvA e.28.1.1 43376 2ts1 419 1.17e+01 2ts1 c.26.1.1 31564 1ush 550 1.34e+01 1ush d.114.1.1 40923 d.159.1.2 42079 1fokA 568 1.39e+01 2fokA a.4.5.12 16137 a.4.5.12 16138 a.4.5.12 16139 c.52.1.12 33325 1e1aA 314 1.45e+01 1e1aA b.68.6.1 59155 1goh 639 1.49e+01 1gof b.1.1.5 21809 b.18.1.1 23711 b.69.1.1 27633 1kanA 253 1.50e+01 1knyA e.9.1.3 43234 1gjwA 637 1.63e+01 b.71.1.1 60582 c.1.8.1 60583 1pfzA 380 1.63e+01 1smrA b.50.1.2 26881 1bj8 109 1.67e+01 1bquA b.1.2.1 22070 1nhp 447 1.78e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1qd9A 124 1.79e+01 1qu9A d.79.1.1 39758 1kzkA 99 1.84e+01 1i86A 389 1.84e+01 c.95.1.2 66068 c.95.1.2 66069 1nhs 447 1.86e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1kafA 108 1.87e+01 d.199.1.1 68372 1gmeA 151 1.88e+01 b.15.1.1 65305 1g5yA 238 1.88e+01 1lbd a.123.1.1 60294 1joa 447 1.93e+01 1nhp c.3.1.5 30563 c.3.1.5 30564 d.87.1.1 40203 1b35B 255 1.95e+01 1b35B b.10.1.3 23334 1dgkN 917 1.98e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1k3iA 656 1.99e+01 b.1.1.5 68113 b.18.1.1 68114 b.69.1.1 68115 1czaN 917 2.06e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1gotB 340 2.06e+01 1tbgA b.69.4.1 27648 1cruA 454 2.07e+01 1c9uA b.68.2.1 27617 1dqsA 393 2.11e+01 1dqsA e.22.1.1 43347 1blxA 326 2.11e+01 1hcl d.144.1.1 41596 1dkxA 219 2.15e+01 1dkzA e.20.1.1 43315 1bi5A 389 2.18e+01 1bi5A c.95.1.2 35985 c.95.1.2 35986 1dazC 99 2.23e+01 1hvc b.50.1.1 26501 1inp 400 2.28e+01 1inp e.7.1.1 42972 6paxA 133 2.32e+01 6paxA a.4.1.5 64758 a.4.1.5 64759 1jl5A 454 2.42e+01 c.10.2.6 66830 1gk8I 140 2.44e+01 d.73.1.1 65242 1l9mA 692 2.46e+01 1dwkA 156 2.53e+01 1dw9A a.35.1.4 17075 d.72.1.1 39606 1e2xA 243 2.55e+01 1e2xA a.4.5.6 16113 a.78.1.1 18443 1dw9A 156 2.55e+01 1dw9A a.35.1.4 17065 d.72.1.1 39596 1aohB 147 2.60e+01 1aohA b.2.2.2 22402 1aqcA 172 2.61e+01 1x11A b.55.1.2 26983 1g9uA 454 2.61e+01 c.10.2.6 65172 1bx2B 191 2.64e+01 1iakB b.1.1.2 21610 d.19.1.1 38184 1l0oA 150 2.69e+01 1qbiA 454 2.69e+01 1c9uA b.68.2.1 27619 1atiB 505 2.73e+01 1atiA c.51.1.1 33197 d.104.1.1 40746 1jtgB 165 2.76e+01 d.98.1.1 67267 1c9uA 454 2.78e+01 1c9uA b.68.2.1 27623 1atiA 505 2.78e+01 1atiA c.51.1.1 33196 d.104.1.1 40745 1qu0A 191 2.78e+01 1dykA b.29.1.4 24225 1k6wA 426 2.81e+01 b.92.1.2 68236 c.1.9.5 68237 1hsbA 270 2.82e+01 1agdA b.1.1.2 20736 d.19.1.1 38257 1boy 219 2.87e+01 1boy b.1.2.1 21955 b.1.2.1 21956 1fmaE 150 2.89e+01 1fmaE d.41.5.1 38630 1qs1A 462 2.92e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1azwA 313 3.03e+01 1qtrA c.69.1.7 34658 1e3mA 800 3.03e+01 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 1f1sA 814 3.08e+01 a.102.3.2 64928 b.1.1.5 64929 b.24.1.1 64930 b.30.3.1 64931 1fsoA 139 3.08e+01 1rhoA b.1.1.5 60007 1a2yB 116 3.09e+01 1gc1H b.1.1.1 19927 1ipwA 175 3.11e+01 2prd b.40.5.1 25427 1difA 99 3.14e+01 1fmb b.50.1.1 26503 1k1tA 99 3.26e+01 1lehA 364 3.27e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1dq3A 454 3.35e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1dkzA 219 3.36e+01 1dkzA e.20.1.1 43314 1fm0E 150 3.36e+01 1fmaE d.41.5.1 38629 1ib8A 164 3.41e+01 1dlfH 124 3.43e+01 1igtB b.1.1.1 20383 5hvpA 99 3.45e+01 1fmb b.50.1.1 26605 1g5hA 454 3.48e+01 1g5hA c.51.1.1 60270 d.104.1.1 60271 1e79H 146 3.54e+01 1e79H a.2.10.1 15721 b.93.1.1 28438 1pprM 312 3.55e+01 1pprM a.131.1.1 19502 a.131.1.1 19503 1eyhA 144 3.58e+01 1eduA a.118.9.1 19214 1pvl 301 3.58e+01 1pvl f.6.1.1 43819 1hw1A 239 3.58e+01 1e2xA a.4.5.6 16111 a.78.1.1 18441 1bg1A 722 3.59e+01 1bg1A a.47.1.1 17767 b.2.5.1 22461 d.93.1.1 40527 1jv2A 957 3.60e+01 b.1.15.1 67334 b.1.15.1 67335 b.1.15.1 67336 b.69.8.1 67337 1eduA 149 3.61e+01 1eduA a.118.9.1 19215 1fuxA 166 3.65e+01 1fjjA b.17.1.2 60034 1hvc 203 3.66e+01 1hvc b.50.1.1 26614 1qsmA 152 3.66e+01 1qsmA d.108.1.1 40808 1kxlA 199 3.68e+01 1h6zA 913 3.69e+01 1wdcB 156 3.72e+01 1wdcB a.39.1.5 17302 1aqt 138 3.76e+01 1aqt a.2.10.1 15718 b.93.1.1 28435 2hft 218 3.85e+01 1boy b.1.2.1 21951 b.1.2.1 21952 1jksA 294 3.90e+01 1gyfA 62 3.99e+01 1gyfA d.76.1.1 39749