# 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.soe.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 1jtgB 165 1.56e-08 d.98.1.1 67267 2g2uB 165 1.80e-08 d.98.1.1 134541 2c2aA 258 3.68e-01 a.30.2.1 129662 d.122.1.3 129663 2h36X 112 5.84e-01 2oajA 902 6.31e-01 2cw9A 194 8.96e-01 d.17.4.13 130920 2pbiB 354 1.69e+00 1ucrA 78 2.66e+00 a.4.5.45 99188 1wdvA 152 3.20e+00 d.116.1.1 114539 1b8aA 438 4.75e+00 1b8aA b.40.4.1 25244 d.104.1.1 40765 1plq 258 4.83e+00 1plq 1plqA 258 4.83e+00 d.131.1.2 41388 d.131.1.2 41389 1zh5A 195 5.37e+00 a.4.5.46 125073 d.58.7.1 125074 1qniA 581 5.63e+00 1qniA b.6.1.4 23042 b.69.3.1 27642 1phkA 298 6.10e+00 d.144.1.7 41635 1ta8A 332 7.31e+00 d.142.2.2 112375 1ikpA 613 7.33e+00 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1cc1L 498 7.59e+00 1h2rL e.18.1.1 43301 2ix0A 663 8.31e+00 1el6A 219 8.69e+00 1el6B d.182.1.1 42606 2i0oA 304 8.81e+00 2i3oA 516 9.02e+00 d.153.1.6 137027 1b1gA 75 9.08e+00 1psrA a.39.1.1 17151 2b0vA 153 9.15e+00 d.113.1.1 127650 2aexA 346 9.86e+00 2edmA 161 1.00e+01 1uisA 231 1.01e+01 d.22.1.1 99431 2ip2A 334 1.05e+01 1o7fA 469 1.10e+01 a.4.5.31 81131 b.82.3.2 81132 b.82.3.2 81133 2id0A 644 1.12e+01 1xezA 721 1.17e+01 3bxtA 257 1.22e+01 2isbA 192 1.24e+01 c.8.9.1 137601 1foeA 377 1.28e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 2dkfA 431 1.45e+01 1sfp 114 1.46e+01 1sfp 1sfpA 114 1.46e+01 b.23.1.1 23895 2reiA 318 1.51e+01 3cbtA 237 1.56e+01 2a6hC 1119 1.61e+01 e.29.1.1 126264 1qnaA 200 1.61e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1h6vA 499 1.74e+01 3grs c.3.1.5 60693 c.3.1.5 60694 d.87.1.1 60695 2c9wA 169 1.75e+01 2yvdA 431 1.87e+01 2fgtA 417 1.88e+01 1zkiA 133 1.89e+01 d.38.1.5 125199 1uteA 313 1.91e+01 1uteA d.159.1.1 42078 2glcA 342 1.91e+01 1f8eA 388 1.94e+01 2qwc b.68.1.1 59694 1hlcA 129 1.94e+01 1c1lA b.29.1.3 24208 1ut1A 148 1.98e+01 b.2.3.6 108014 2rkpA 335 2.00e+01 2p36A 335 2.00e+01 1konA 249 2.01e+01 e.39.1.1 72823 2afbA 351 2.07e+01 c.72.1.1 126674 2g6yA 217 2.07e+01 2qwc 388 2.12e+01 2qwc 2fziA 206 2.21e+01 c.71.1.1 134448 2d5wA 603 2.22e+01 1ughI 82 2.23e+01 1ugiA d.17.5.1 38133 1ymiA 334 2.25e+01 2grvA 621 2.44e+01 1kebA 108 2.45e+01 c.47.1.1 77341 2a4vA 159 2.53e+01 c.47.1.10 126163 2b9wA 424 2.58e+01 1a0rB 340 2.59e+01 1tbgA b.69.4.1 27658 2p8gA 162 2.62e+01 2j8qA 227 2.62e+01 1iznB 277 2.63e+01 e.43.1.2 83848 2ib5A 233 2.68e+01 2be1A 339 2.70e+01 2va8A 715 2.73e+01 3bqcA 335 2.78e+01 2ivfA 976 2.84e+01 2oseA 234 2.95e+01 2pvrA 334 3.01e+01 1jl0A 334 3.04e+01 1jenA d.156.1.1 63155 1js8A 394 3.08e+01 a.86.1.1 67219 b.112.1.1 67220 1vr6A 350 3.13e+01 c.1.10.4 120439 2i7vA 459 3.21e+01 2nvmA 126 3.26e+01 d.326.1.1 138631 1vjnA 220 3.26e+01 d.157.1.4 100825 2hvqA 335 3.32e+01 2bw3A 534 3.41e+01 a.270.1.1 129317 c.55.3.12 129318 1s7jA 262 3.43e+01 d.21.1.2 98647 2awpA 198 3.48e+01 1dkgD 383 3.56e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 2fqpA 97 3.64e+01 1amuA 563 3.76e+01 1amuA e.23.1.1 43351 2trxA 108 3.77e+01 1thx c.47.1.1 32719 2a50B 168 3.80e+01 1ti6A 875 3.81e+01 b.52.2.2 106974 c.81.1.1 106975 1atnA 373 3.90e+01 1yagA c.55.1.1 33437 c.55.1.1 33438 2a2cA 478 3.92e+01 1nox 205 3.96e+01 1nox 1noxA 205 3.96e+01 d.90.1.1 40242 1d3uA 181 3.98e+01 1ytbA d.129.1.1 41290 d.129.1.1 41291 1pkoA 139 3.99e+01 b.1.1.1 88147