# List of top-scoring protein chains for t04-100-30-near-backbone-11 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 1top 162 1.04e-01 1ncx a.39.1.5 17223 1s29A 92 8.08e-01 unknown_sccs -315 1aerA 205 1.78e+00 1aerA d.166.1.1 42249 1kgdA 180 2.26e+00 c.37.1.1 68582 1gd0A 122 2.41e+00 1dptA d.80.1.3 39834 1kl9A 182 2.46e+00 b.40.4.5 72681 1ggzA 148 3.41e+00 a.39.1.5 70176 1nmeA 146 3.52e+00 c.17.1.1 85874 1s96A 219 3.68e+00 c.37.1.1 -6972 1k4iA 233 3.78e+00 d.115.1.2 72056 1efyA 350 4.40e+00 1a26 a.41.1.1 17413 d.166.1.2 42275 7taa 478 4.68e+00 7taa b.71.1.1 27778 c.1.8.1 28765 3ladA 476 4.73e+00 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1nt4A 391 4.96e+00 c.60.1.2 -7942 1upiA 225 5.22e+00 b.82.1.1 -4823 1on2A 142 5.35e+00 a.4.5.24 87103 a.76.1.1 87104 1g4yR 148 5.39e+00 1cll a.39.1.5 60252 1qjtA 99 5.55e+00 1eh2 a.39.1.6 17335 1nf2A 268 6.51e+00 c.108.1.10 -6842 1geqA 248 7.21e+00 2tysA c.1.2.4 28589 1sedA 117 8.11e+00 1i60A 278 8.25e+00 c.1.15.4 71118 2sas 185 8.89e+00 2sas a.39.1.5 17258 1nuuA 252 9.10e+00 c.26.1.3 86209 1mu5A 471 1.04e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1bg4 302 1.06e+01 1taxA c.1.8.3 28806 1a4yA 460 1.07e+01 1a4yA c.10.1.1 30852 1veaA 148 1.11e+01 4icb 76 1.19e+01 4icb a.39.1.1 17145 1ig5A 75 1.20e+01 4icb a.39.1.1 62363 1s3jA 155 1.25e+01 a.4.5.28 -227 1rxxA 421 1.30e+01 unknown_sccs -10982 1pixA 587 1.31e+01 c.14.1.4 -6282 1g57A 217 1.33e+01 1g57A d.115.1.2 60253 1i2aA 219 1.42e+01 e.24.1.1 -12012 1rro 108 1.43e+01 1a75A a.39.1.4 17195 1eq9A 222 1.43e+01 5ptp b.47.1.2 26068 1lf6A 684 1.45e+01 a.102.1.5 77918 b.30.5.5 77919 1nhkL 144 1.46e+01 1npk d.58.6.1 39142 1rvkA 382 1.49e+01 c.1.11.2 -5568 d.54.1.1 -9826 1hp5A 512 1.53e+01 1hp4A c.1.8.6 61113 d.92.2.1 61114 3grs 478 1.58e+01 3grs c.3.1.5 30441 c.3.1.5 30442 d.87.1.1 40152 1n25A 368 1.60e+01 c.37.1.20 85264 5ptp 223 1.63e+01 5ptp b.47.1.2 25831 1jakA 512 1.81e+01 c.1.8.6 66472 d.92.2.1 66473 1lba 146 1.82e+01 1lba d.118.1.1 41062 1kqfA 1015 1.88e+01 b.52.2.2 72871 c.81.1.1 72872 1qx2A 76 1.89e+01 1kn1A 160 1.89e+01 a.1.1.3 77455 1gdhA 320 1.91e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355 2shpA 525 2.01e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1dqeA 137 2.02e+01 1dqeA a.39.2.1 17388 4ptp 223 2.04e+01 1pvaA 110 2.05e+01 1a75A a.39.1.4 17207 5pal 109 2.06e+01 1a75A a.39.1.4 17215 1gesA 450 2.06e+01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 1ik9A 213 2.07e+01 b.59.1.1 66176 h.1.11.1 66177 1m7jA 484 2.07e+01 b.92.1.6 78732 b.92.1.6 78733 c.1.9.11 78734 1p9qC 256 2.10e+01 1ueoA 63 2.10e+01 unknown_sccs -13343 1rk6A 496 2.11e+01 b.92.1.6 -5087 b.92.1.6 -5088 c.1.9.11 -5435 1e8aA 91 2.12e+01 1b4cA a.39.1.2 17188 1czaN 917 2.15e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1howA 373 2.17e+01 1hcl d.144.1.7 41679 1allA 160 2.21e+01 1qgwC a.1.1.3 15647 1bgp 309 2.27e+01 1bgp a.93.1.1 18690 1eg5A 384 2.29e+01 1ecxA c.67.1.3 34429 1rwyA 109 2.31e+01 a.39.1.4 -825 1hj9A 226 2.31e+01 b.47.1.2 65845 1olsA 400 2.32e+01 c.36.1.11 -6959 1ecfA 504 2.40e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1exrA 148 2.41e+01 1cll a.39.1.5 17299 1wdcC 156 2.41e+01 1wdcC a.39.1.5 17317 1brt 277 2.52e+01 1brt c.69.1.12 34699 1m45A 148 2.59e+01 a.39.1.5 78598 1s6cA 183 2.64e+01 a.39.1.5 -858 1oyjA 231 2.72e+01 a.45.1.1 87597 c.47.1.5 87598 1q8yA 373 2.76e+01 d.144.1.7 -11319 1r6lA 239 2.81e+01 d.14.1.4 -9057 d.101.1.1 -10747 4pep 326 2.83e+01 1smrA b.50.1.2 26843 1ri5A 298 2.84e+01 unknown_sccs -8063 1k6dA 220 2.92e+01 unknown_sccs 72082 1f0lA 535 2.96e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1vjpA 394 2.98e+01 c.2.1.3 -5897 d.81.1.3 -10480 1q0sA 259 3.05e+01 c.66.1.28 -8110 2gsq 202 3.05e+01 1pd21 a.45.1.1 17715 c.47.1.5 33009 1uq5A 263 3.08e+01 d.165.1.1 -11555 1bo4A 168 3.11e+01 1bo4A d.108.1.1 40798 1j4aA 333 3.17e+01 c.2.1.4 71502 c.23.12.1 71503 1m2xA 223 3.32e+01 d.157.1.1 84764 1opc 110 3.45e+01 1opc a.4.6.1 16231 1gydB 315 3.47e+01 b.67.2.1 70751 1gky 187 3.67e+01 1gky c.37.1.1 31839 1npk 154 3.67e+01 1npk d.58.6.1 39099 2pvbA 107 3.70e+01 1a75A a.39.1.4 17205 1g8mA 593 3.76e+01 1g8mA c.24.1.3 60371 c.97.2.1 60372 1broA 277 3.84e+01 1brt c.69.1.12 34700 1i1nA 226 3.86e+01 c.66.1.7 71102 1qopA 268 3.89e+01 2tysA c.1.2.4 28570 1k0sA 151 3.93e+01 b.40.7.1 67969