# List of top-scoring protein chains for T0230.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 1nhoA 85 3.84e-02 c.47.1.1 -7408 1a8l 226 6.30e-01 1a8l c.47.1.2 32777 c.47.1.2 32778 1d3gA 367 8.18e-01 1d3gA c.1.4.1 28600 1mxiA 160 9.36e-01 c.116.1.1 79646 1uumA 372 1.06e+00 c.1.4.1 -5193 1osdA 72 1.22e+00 1fo5A 85 1.71e+00 1fo5A c.47.1.1 59922 1o8xA 146 1.78e+00 c.47.1.10 86681 1ads 315 1.92e+00 1frb c.1.7.1 28671 1az1 315 1.92e+00 1frb c.1.7.1 28677 1el3A 316 1.93e+00 1frb c.1.7.1 28672 1abn 315 1.93e+00 1frb c.1.7.1 28683 1us0A 316 1.93e+00 c.1.7.1 -5233 2acu 315 1.94e+00 1frb c.1.7.1 28676 1kgyA 181 1.95e+00 b.18.1.4 72449 1shwB 181 1.95e+00 1nukA 183 1.97e+00 1nukA b.18.1.4 23721 1agqA 135 2.36e+00 1agqA g.17.1.2 44789 1j08A 226 2.54e+00 c.47.1.2 83855 c.47.1.2 83856 1uvjA 664 2.95e+00 e.8.1.6 -11964 2ayqA 366 2.96e+00 1cnzA c.77.1.1 35057 1i5gA 144 2.99e+00 1ewxA c.47.1.10 61784 1udkA 51 3.80e+00 g.3.14.1 -12520 1r26A 125 4.40e+00 c.47.1.1 -7389 1afi 72 4.49e+00 1aw0 d.58.17.1 39339 1jhb 106 5.07e+00 1kte c.47.1.1 32772 1kte 105 6.19e+00 1kte c.47.1.1 32771 1ha4A 87 7.68e+00 b.11.1.1 65745 1oc9A 152 7.81e+00 c.47.1.10 86797 1fg4A 149 8.15e+00 1ewxA c.47.1.10 59814 1o6jA 150 8.20e+00 c.47.1.10 81089 1o81A 152 8.29e+00 c.47.1.10 81175 1durA 55 8.69e+00 2fdn d.58.1.1 38943 1ezkA 153 8.84e+00 1ewxA c.47.1.10 33063 1ewxA 146 8.92e+00 1ewxA c.47.1.10 33062 1qk8A 146 8.93e+00 1ewxA c.47.1.10 33061 1okdA 154 8.98e+00 c.47.1.10 -7490 1opzA 76 9.17e+00 d.58.17.1 -10069 1g8jB 133 1.03e+01 1g8jB b.33.1.1 24439 1g8kB 133 1.03e+01 1g8jB b.33.1.1 24435 1rro 108 1.06e+01 1a75A a.39.1.4 17195 1jjoC 261 1.08e+01 1d03A 169 1.10e+01 1rcf c.23.5.1 31182 1hcnB 145 1.10e+01 1hcnB g.17.1.4 44810 1deg 142 1.11e+01 1cll a.39.1.5 17280 1czkA 169 1.20e+01 1rcf c.23.5.1 31186 1cznA 169 1.23e+01 1rcf c.23.5.1 31181 1czrA 169 1.24e+01 1rcf c.23.5.1 31187 1sw8A 79 1.28e+01 a.39.1.5 -841 1o73A 144 1.31e+01 c.47.1.10 86638 1amf 233 1.33e+01 1wod c.94.1.1 35833 1a7hA 86 1.34e+01 1amm b.11.1.1 23600 1iyrA 111 1.40e+01 a.164.1.1 76973 1lehA 364 1.41e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1rniA 216 1.44e+01 unknown_sccs -11389 1i36A 264 1.48e+01 a.100.1.8 71108 c.2.1.6 71109 1ro2A 216 1.48e+01 unknown_sccs -11391 1rgxA 114 1.51e+01 1aw0 72 1.52e+01 1aw0 d.58.17.1 39342 1ahr 146 1.56e+01 1cll a.39.1.5 17287 1iclA 27 1.59e+01 k.26.1.1 62268 1cpzA 68 1.60e+01 1aw0 d.58.17.1 39351 1oojA 149 1.76e+01 a.39.1.5 87198 1mxeA 148 1.77e+01 a.39.1.5 79644 1qubA 319 1.77e+01 1qubA g.18.1.1 44863 g.18.1.1 44864 g.18.1.1 44865 g.18.1.1 44866 g.18.1.1 44867 1c1zA 326 1.80e+01 1qubA g.18.1.1 44868 g.18.1.1 44869 g.18.1.1 44870 g.18.1.1 44871 g.18.1.1 44872 1f70A 76 1.94e+01 1cll a.39.1.5 17288 1nbaA 264 1.96e+01 1nbaA unknown_sccs 31753 1k93D 144 1.96e+01 a.39.1.5 68330 1ak8 76 1.96e+01 1cll a.39.1.5 17281 1cdmA 144 1.97e+01 1cll a.39.1.5 17270 1cdlA 147 1.99e+01 1cll a.39.1.5 17272 1g4yR 148 1.99e+01 1cll a.39.1.5 60252 1prwA 149 2.00e+01 a.39.1.5 -842 1iq5A 149 2.00e+01 a.39.1.5 62643 3cln 148 2.07e+01 1cll a.39.1.5 17286 1s1iT 83 2.08e+01 1danT 80 2.12e+01 1boy b.1.2.1 21953 1ic9A 27 2.33e+01 k.26.1.1 62261 1ijvA 36 2.35e+01 g.9.1.1 66169 1txxA 108 2.38e+01 1thx c.47.1.1 32724 1k0pA 31 2.38e+01 g.67.1.1 84272 1mcpH 222 2.52e+01 1igtB b.1.1.1 19859 b.1.1.2 20959 2fbjH 220 2.58e+01 1igtB b.1.1.1 19851 b.1.1.2 20955 1gnlA 544 2.71e+01 e.26.1.1 70287 1pxeA 63 2.88e+01 unknown_sccs -12873 1cokA 68 3.00e+01 1cokA a.60.1.2 17945 1qheA 168 3.05e+01 1rcf c.23.5.1 31177 1iloA 77 3.05e+01 c.47.1.1 66205 1rcf 169 3.06e+01 1rcf c.23.5.1 31170 1ku9A 152 3.07e+01 a.4.5.36 77544 1qlaB 239 3.07e+01 1qlaB a.1.2.1 15679 d.15.4.2 37707 1bg7 176 3.11e+01 2fha a.25.1.1 16686 1lu4A 136 3.11e+01 c.47.1.10 -7509 1obvA 169 3.15e+01 c.23.5.1 86782 1dx9A 169 3.16e+01 1rcf c.23.5.1 31171 1n5gA 38 3.34e+01 g.67.1.1 -12863 1p6tA 151 3.37e+01 d.58.17.1 -10067 d.58.17.1 -10068 1qozA 207 3.58e+01 1bs9 unknown_sccs 31332 1hxmA 229 3.65e+01 1hxmA b.1.1.1 61367 b.1.1.2 61368 1dxsA 80 3.67e+01 1cokA a.60.1.2 17944 1rfxA 94 3.69e+01 1o7zA 77 3.72e+01 d.9.1.1 86660