# List of top-scoring protein chains for T0240.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 1ihrA 76 7.07e-12 1ihrA d.212.1.2 62392 1lr0A 129 2.26e-04 d.212.1.1 74213 1f5mA 180 1.36e-01 1f5mB d.110.2.1 40895 1tolA 222 2.11e-01 1g3p b.37.1.1 24790 d.212.1.1 39587 1m112 254 3.01e+00 1s9aA 257 4.46e+00 1l1pA 106 5.59e+00 d.26.1.1 84518 1vkdA 338 6.58e+00 1cn3A 283 7.81e+00 1vpsA b.121.6.1 23346 1vpsA 289 7.96e+00 1vpsA b.121.6.1 23336 1fwqA 123 8.35e+00 1fwqA b.88.1.1 28394 1uf9A 203 9.26e+00 c.37.1.1 -7014 2gdm 153 9.35e+00 2gdm a.1.1.2 15212 1oyeA 1049 1.04e+01 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1iwgA 1053 1.04e+01 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1j6qA 136 1.05e+01 b.40.9.1 77091 1iwmA 186 1.07e+01 b.125.1.2 83758 1n8jA 186 1.08e+01 c.47.1.10 85401 1ja9A 274 1.10e+01 c.2.1.2 62817 1kygA 186 1.11e+01 c.47.1.10 68881 1sidA 383 1.12e+01 1vpsA b.121.6.1 23351 1ev12 254 1.13e+01 1aym2 1hngA 176 1.23e+01 1cczA b.1.1.1 19752 b.1.1.3 21681 1pjmB 460 1.25e+01 a.118.1.1 -1543 1q1sC 466 1.28e+01 a.118.1.1 -1545 1hxrA 115 1.38e+01 1fwqA b.88.1.1 28392 1pjcA 361 1.40e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 1g85A 159 1.40e+01 b.60.1.1 70159 1pboA 159 1.40e+01 1obpA b.60.1.1 27094 1obpA 159 1.40e+01 1obpA b.60.1.1 27092 1gt1A 159 1.40e+01 b.60.1.1 -4436 1sgfG 237 1.46e+01 5ptp b.47.1.2 26309 1p6gR 74 1.47e+01 i.1.1.1 87836 1axaA 99 1.48e+01 1hvc b.50.1.1 26633 1nq7A 244 1.52e+01 a.123.1.1 -1682 1gsvA 125 1.54e+01 d.110.3.1 65537 1hefE 99 1.58e+01 1fmb b.50.1.1 26637 1gsxA 125 1.58e+01 d.110.3.1 65539 1h8tB 262 1.61e+01 1k4wA 252 1.63e+01 a.123.1.1 72068 1n4hA 259 1.67e+01 a.123.1.1 -1681 1h8uA 117 1.74e+01 1h8uA d.169.1.1 60793 1jj2H 167 1.76e+01 1ffkF d.41.4.1 63093 1gp1A 197 1.76e+01 1gp1A c.47.1.10 33059 1bh9B 89 1.79e+01 1bh9B a.22.1.3 16485 1g5cA 170 1.88e+01 1g5cA c.53.2.1 60264 1p4pA 145 2.01e+01 b.76.1.1 -4738 1jh3A 107 2.04e+01 d.66.1.4 71661 1ocsA 162 2.05e+01 d.189.1.1 -9929 1omsA 121 2.05e+01 unknown_sccs -8993 1qs9A 162 2.06e+01 1l92 d.2.1.3 36922 1f98A 125 2.11e+01 3pyp d.110.3.1 40899 1k0mA 241 2.23e+01 a.45.1.1 67949 c.47.1.5 67950 1p9yA 121 2.23e+01 unknown_sccs -8996 1rk4A 243 2.34e+01 a.45.1.1 -948 c.47.1.5 -7473 1tcxA 99 2.35e+01 1hvc b.50.1.1 26748 1sgfA 240 2.40e+01 5ptp b.47.1.2 26308 1qthA 164 2.41e+01 1l92 d.2.1.3 36953 1ogdA 131 2.47e+01 unknown_sccs -8007 1l50 164 2.49e+01 1l92 d.2.1.3 36760 1qz7B 70 2.51e+01 1l51 164 2.51e+01 1l92 d.2.1.3 36805 1l49 164 2.51e+01 1l92 d.2.1.3 36739 1l48 164 2.51e+01 1l92 d.2.1.3 36696 1gnmA 99 2.54e+01 1hvc b.50.1.1 26672 1gnnA 99 2.56e+01 1fmb b.50.1.1 26676 1dgi2 268 2.57e+01 1hvsA 99 2.58e+01 1fmb b.50.1.1 26597 1aaqA 99 2.58e+01 1fmb b.50.1.1 26688 1nh0A 99 2.59e+01 b.50.1.1 -4299 1hvhA 99 2.59e+01 1hvc b.50.1.1 26585 1hivA 99 2.59e+01 1fmb b.50.1.1 26555 1lzqA 99 2.60e+01 b.50.1.1 84741 1hxs2 272 2.61e+01 1ar72 272 2.61e+01 1aym2 1merA 99 2.61e+01 1hvc b.50.1.1 26523 1cu6A 164 2.62e+01 1l92 d.2.1.3 36918 3tlhA 99 2.63e+01 1hvc b.50.1.1 26609 1d4sA 99 2.65e+01 1hvc b.50.1.1 26692 1bwbA 99 2.65e+01 1fmb b.50.1.1 26517 1odxA 99 2.66e+01 1fmb b.50.1.1 26577 1metA 99 2.70e+01 1fmb b.50.1.1 26593 1pqjA 164 2.75e+01 d.2.1.3 -8849 1xtcD 103 2.78e+01 3chbD b.40.2.1 25005 1pqdA 164 2.79e+01 d.2.1.3 -8847 1d4m2 261 2.82e+01 1aym2 1d3e2 252 2.83e+01 1ogoX 574 2.84e+01 unknown_sccs -3237 unknown_sccs -4783 1l34 164 2.84e+01 1l92 d.2.1.3 36828 1c8m2 252 2.88e+01 1aym2 236l 164 2.89e+01 1l92 d.2.1.3 36816 1psrA 100 2.95e+01 1psrA a.39.1.2 17180 1p3nA 164 3.05e+01 d.2.1.3 -8842 1aym2 261 3.07e+01 1aym2 1c0pA 363 3.08e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1a6pA 94 3.14e+01 1cdcA b.1.1.1 19748 1a64A 97 3.17e+01 1cdcA b.1.1.1 19750 1lwkA 164 3.18e+01 d.2.1.3 84730 1qs5A 162 3.18e+01 1l92 d.2.1.3 36974 1cdcA 99 3.18e+01 1cdcA b.1.1.1 19746 1jllB 388 3.18e+01 c.23.4.1 66853 d.142.1.4 66854 1lye 164 3.19e+01 1l92 d.2.1.3 36671 1jfrA 262 3.21e+01 1jfrA c.69.1.16 34724 1cqjB 385 3.21e+01 2scuB c.23.4.1 31143 d.142.1.4 41564 1pov 340 3.24e+01 b.121.4.1 23411 b.121.4.1 23413 b.121.4.1 23412 2scuB 388 3.25e+01 2scuB c.23.4.1 31141 d.142.1.4 41562 1p37A 164 3.26e+01 d.2.1.3 -8841 1cu0A 164 3.28e+01 1l92 d.2.1.3 36929 1qsbA 162 3.29e+01 1l92 d.2.1.3 36688 167lA 164 3.30e+01 1l92 d.2.1.3 36937 1cu3A 164 3.30e+01 1l92 d.2.1.3 36916 1lv1A 203 3.33e+01 b.50.1.1 74273 b.50.1.1 74274 1g6lA 203 3.33e+01 1hvc b.50.1.1 26559 b.50.1.1 26560 1l23 164 3.34e+01 1l92 d.2.1.3 36624 152l 164 3.36e+01 1l92 d.2.1.3 36904 1l81 164 3.41e+01 1l92 d.2.1.3 36881 1dxlA 470 3.42e+01 1lvl c.3.1.5 30585 c.3.1.5 30586 d.87.1.1 40214 1d3jA 164 3.45e+01 1l92 d.2.1.3 36871 1l80 164 3.46e+01 1l92 d.2.1.3 36698 1l82 164 3.46e+01 1l92 d.2.1.3 36919 1lwgA 164 3.54e+01 d.2.1.3 84729 1proA 99 3.57e+01 1fmb b.50.1.1 26509 1c6yA 99 3.57e+01 1hvc b.50.1.1 26670 1iziA 99 3.59e+01 b.50.1.1 76990 1lpyA 164 3.62e+01 d.2.1.3 74178 1thfD 253 3.64e+01 1thfD c.1.2.1 28535 1ffkF 157 3.64e+01 1ffkF d.41.4.1 38628 175lA 164 3.64e+01 1l92 d.2.1.3 36924 1gpwA 253 3.65e+01 c.1.2.1 65460 234l 164 3.69e+01 1l92 d.2.1.3 36844 1vh7A 265 3.77e+01 c.1.2.1 -5159 242l 164 3.81e+01 1l92 d.2.1.3 36707 1mroA 548 3.86e+01 1mroA a.89.1.1 18525 d.58.31.2 39443 1ctwA 164 3.90e+01 1l92 d.2.1.3 36913 1l91 164 3.90e+01 1l92 d.2.1.3 36668 1f9iA 125 3.97e+01 3pyp d.110.3.1 40898 1iov 306 3.98e+01 1iow c.30.1.2 31714 d.142.1.1 41482 1l79 164 3.98e+01 1l92 d.2.1.3 36825 1p2lA 164 4.00e+01 d.2.1.3 -8838