# List of top-scoring protein chains for t04-100-30-stride-ebghtl-scores 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 1zpwX 90 2.47e-13 1vdxA 184 2.48e-02 1vgjA 184 2.53e-02 1t8qA 336 3.04e-02 c.1.18.3 106669 1ydyA 356 3.78e-02 1oz9A 150 4.62e-01 d.92.1.15 93808 1gyxA 76 7.16e-01 d.80.1.1 76387 1yqgA 263 9.89e-01 1fmcA 255 1.19e+00 1cydA c.2.1.2 29856 1ta9A 450 2.02e+00 1eyqA 222 2.66e+00 1eypA d.36.1.1 38534 1m7bA 184 4.09e+00 c.37.1.8 74572 1sqgA 429 4.40e+00 a.79.1.3,c.66.1.38 105912,105913 1v5iB 76 4.58e+00 2ge3A 170 6.32e+00 1iv3A 152 7.27e+00 d.79.5.1 76828 1uw1A 80 7.40e+00 k.42.1.1 100069 2ebn 289 7.74e+00 2ebn c.1.8.5 28990 1dt9A 437 7.83e+00 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 1qysA 106 7.96e+00 k.41.1.1 96603 1wzcA 249 8.71e+00 1r2qA 170 8.81e+00 c.37.1.8 96874 2bkaA 242 9.89e+00 1us5A 314 9.92e+00 c.94.1.1 99856 1iv8A 720 1.01e+01 b.71.1.1,c.1.8.1 76842,76843 1isiA 265 1.01e+01 e.4.1.1 71394 2b9eA 303 1.07e+01 1gz2A 142 1.12e+01 d.169.1.1 83392 1t0yA 122 1.18e+01 d.15.1.1 99066 1huqA 164 1.32e+01 1byuA c.37.1.8 32020 1otfA 62 1.39e+01 1otfA d.80.1.1 39820 1vm6A 228 1.41e+01 c.2.1.3,d.81.1.3 108876,108877 3rabA 169 1.47e+01 1ctqA c.37.1.8 32018 1omoA 322 1.51e+01 c.2.1.13 104017 1oaoC 729 1.52e+01 e.26.1.3 86746 2axiA 115 1.54e+01 2gq1A 332 1.62e+01 1vkkA 154 1.66e+01 d.109.1.2 108669 1zdzA 302 1.68e+01 2a5jA 191 1.69e+01 2bgkA 278 1.70e+01 2abqA 306 1.70e+01 1azo 232 1.71e+01 1azo c.52.1.14 33329 2b3yA 888 1.77e+01 1qu9A 128 1.84e+01 1qu9A d.79.1.1 39755 1t6nA 220 1.88e+01 c.37.1.19 106576 1m7vA 363 1.88e+01 d.174.1.1 78748 1m1eB 81 1.91e+01 a.161.1.1 78400 1z3eA 132 1.92e+01 2bmeA 186 1.97e+01 1mwwA 128 1.98e+01 d.80.1.4 91483 2d13A 227 2.05e+01 1sr9A 644 2.16e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1j93A 353 2.16e+01 c.1.22.1 66454 1nh2B 53 2.20e+01 a.32.1.1 91874 2awdA 323 2.23e+01 1ytfB 53 2.26e+01 1ytfB a.32.1.1 16997 1rlhA 173 2.29e+01 d.256.1.1 97646 2f02A 323 2.31e+01 1vl8A 267 2.44e+01 c.2.1.2 108733 1han 297 2.44e+01 1han d.32.1.3,d.32.1.3 38506,38507 1lkdA 297 2.45e+01 d.32.1.3,d.32.1.3 78059,78060 1uarA 285 2.45e+01 c.46.1.2,c.46.1.2 107762,107763 1z08A 170 2.57e+01 1vllA 334 2.60e+01 c.2.1.13 108834 2fiuA 99 2.63e+01 1mxiA 160 2.67e+01 c.116.1.1 79646 1td5A 202 2.72e+01 d.110.2.2 106767 1t4fM 110 2.74e+01 1ugjA 141 2.83e+01 b.41.1.3 107826 1aisA 182 2.84e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 2fafA 608 2.97e+01 1ga8A 311 2.98e+01 1ga8A c.68.1.4 34516 1hxhA 253 3.07e+01 c.2.1.2 76725 1i88A 389 3.08e+01 c.95.1.2,c.95.1.2 66070,66071 1ih8A 271 3.09e+01 2nsyA c.26.2.1 62377 1c93A 265 3.12e+01 2ebn c.1.8.5 28998 1kqpA 271 3.13e+01 c.26.2.1 72883 2dbsA 90 3.30e+01 1vmiA 355 3.33e+01 1ja9A 274 3.33e+01 c.2.1.2 62817 1ukvY 206 3.38e+01 c.37.1.8 107918 1af7 274 3.45e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1gd0A 122 3.52e+01 1dptA d.80.1.3 39834 1fo1A 271 3.54e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 1y74A 57 3.70e+01 5ukdA 194 3.71e+01 1zin c.37.1.1 31851 1udh 244 3.75e+01 3eugA c.18.1.1 31015 1bc5A 269 3.76e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1vheA 373 3.76e+01 b.49.3.1,c.56.5.4 100669,100670 1vb3A 428 3.83e+01 2ae2A 260 3.89e+01 1bdb c.2.1.2 29945 1lj8A 493 3.95e+01 a.100.1.9,c.2.1.6 90392,90393 1vcvA 226 4.04e+01 2bcgY 206 4.12e+01 1xqiA 195 4.14e+01 1aua 296 4.18e+01 1aua a.5.3.1,c.13.1.1 16290,30882 1s0yA 76 4.20e+01 d.80.1.1 98314 1kq3A 376 4.23e+01 e.22.1.2 68790 2c07A 285 4.27e+01 2frnA 278 4.30e+01 1jsxA 207 4.39e+01 c.66.1.20 71846 1kay 381 4.40e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1bupA 386 4.43e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1mqeA 207 4.60e+01 d.113.1.1 91394 2c9wA 169 4.61e+01 2aorA 223 4.63e+01 1j57A 143 4.74e+01 d.221.1.1 77079 1mp4A 292 4.84e+01 c.68.1.6 79376 1vjtA 483 4.88e+01 c.2.1.5,d.162.1.2 100833,100834 2gf9A 189 4.88e+01 1xh3A 276 4.88e+01 1vm8A 534 4.95e+01 2comA 124 4.99e+01 1m5wA 243 5.02e+01 c.1.24.1 84836 1qf9A 194 5.09e+01 1zin c.37.1.1 31848 2aexA 346 5.11e+01 1wy1A 172 5.15e+01 1j0dA 341 5.16e+01 c.79.1.1 83902 2gdzA 267 5.22e+01 1t6t1 118 5.22e+01 1n0wA 243 5.23e+01 c.37.1.11 79772 1h5rA 293 5.35e+01 c.68.1.6 65623 1f2dA 341 5.38e+01 1f2dA c.79.1.1 35298 2bs6A 90 5.48e+01 1ve4A 206 5.50e+01 1zxq 192 5.53e+01 1zxq b.1.1.3,b.1.1.4 21657,21693 1dqnA 230 5.59e+01 1dqnA c.61.1.1 34067 1qd9A 124 5.66e+01 1qu9A d.79.1.1 39758 1afwA 393 5.69e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 1fjgM 126 5.69e+01 1fjfM a.156.1.1 16293 2bt9A 90 5.73e+01 2ftxA 90 5.73e+01 2sas 185 5.73e+01 2sas a.39.1.5 17258 1fcjA 322 5.78e+01 1oasA c.79.1.1 35289 1pbuA 162 5.79e+01 d.58.46.1 88030 1dqpA 230 5.81e+01 1dqnA c.61.1.1 34069 1pl8A 356 5.82e+01 b.35.1.2,c.2.1.1 94878,94879 1pz4A 116 5.82e+01 d.106.1.1 95400 1km4A 247 5.86e+01 c.1.2.3 72740 1w30A 201 5.87e+01 1xg5A 279 5.88e+01 1regX 122 5.91e+01 1regX d.58.27.1 39406 1z5yE 149 5.95e+01 1mwmA 320 5.99e+01 c.55.1.1,c.55.1.1 79580,79581 1l6rA 227 6.09e+01 c.108.1.10 77768 1akz 223 6.19e+01 3eugA c.18.1.1 31007 1m6yA 301 6.35e+01 a.60.13.1,c.66.1.23 78716,78717 1r4kA 169 6.39e+01 b.34.14.1 96997 1gklA 297 6.46e+01 c.69.1.2 65250 1ss9A 311 6.47e+01 c.68.1.4 105978 2bvpA 276 6.52e+01 1f3aA 222 6.61e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1gjwA 637 6.61e+01 b.71.1.1,c.1.8.1 60582,60583 2fq3A 104 6.63e+01 1hl9A 449 6.64e+01 b.71.1.3,c.1.8.11 90650,90651 1u0kA 288 6.74e+01 d.21.1.2,d.21.1.2 107547,107548 1eziA 228 6.76e+01 1eyrA c.68.1.13 34512 1ccr 112 6.83e+01 1ycc a.3.1.1 15877 1ho1A 242 7.09e+01 1ho1A c.1.24.1 61097 1u55A 188 7.12e+01 d.278.1.1 107677 5csmA 256 7.16e+01 5csmA a.130.1.2 19494 1ugiA 84 7.18e+01 1ugiA d.17.5.1 38125 1vmbA 140 7.18e+01 1adjA 421 7.22e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1tvlA 454 7.22e+01 c.1.16.4 107366 1ytqA 204 7.24e+01 1id1A 153 7.33e+01 1id1A c.2.1.9 62286 1v6fA 151 7.33e+01 d.109.1.2 108395 1c1yB 77 7.37e+01 1c1yB d.15.1.5 37618 1jflA 228 7.39e+01 c.78.2.1,c.78.2.1 71656,71657 1l3iA 192 7.41e+01 c.66.1.22 77676 2b4zA 104 7.49e+01 1u6mA 199 7.56e+01 1ughI 82 7.64e+01 1ugiA d.17.5.1 38133 1dptA 117 7.71e+01 1dptA d.80.1.3 39862 1wnfA 328 7.72e+01 1t5yA 190 7.74e+01 b.122.1.1,d.17.6.3 106495,106496 1thg 544 7.76e+01 1thg c.69.1.17 34763 1o63A 219 7.77e+01 c.94.1.1 92540 2ethA 154 7.78e+01 1w1oA 534 7.81e+01 d.58.32.4,d.145.1.1 109071,109072 1s0yB 71 7.84e+01 d.80.1.1 98315 1k5nA 276 7.87e+01 b.1.1.2,d.19.1.1 77266,77267 1tu5A 746 7.87e+01 2cw8A 537 7.89e+01 1e79D 482 7.93e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1ev0A 58 7.94e+01 1ev0A d.71.1.1 39594 1zdnA 158 7.94e+01 1h4vB 421 7.96e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1ycqA 107 7.99e+01 1ycqA a.42.1.1 17419 2bh7A 261 8.02e+01 1qsgA 265 8.03e+01 1eny c.2.1.2 29935 1lqpA 135 8.04e+01 d.32.1.2 78151 1zl8A 53 8.07e+01 2cmxA 118 8.09e+01 1vjlA 164 8.11e+01 d.257.1.1 100822 1wb4A 297 8.17e+01 1edt 271 8.18e+01 2ebn c.1.8.5 28993 1l7aA 318 8.19e+01 c.69.1.25 77772 1x23A 155 8.21e+01 1pjcA 361 8.24e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1ixkA 315 8.35e+01 c.66.1.38 90716 1u1hA 765 8.36e+01 c.1.22.2,c.1.22.2 107580,107581 1v71A 323 8.38e+01 1h4lD 147 8.43e+01 a.74.1.1 70873 2ck3D 482 8.48e+01 1dw0A 112 8.48e+01 1dw0A a.3.1.1 15911 5cytR 104 8.55e+01 1ycc a.3.1.1 15878 1oapA 109 8.59e+01 d.79.7.1 92706 1h8eD 482 8.62e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1u6zA 513 8.70e+01 1l1eA 287 8.71e+01 c.66.1.18 73454 1fseA 74 8.76e+01 1fseA a.4.6.2 60000 1u1jA 765 8.78e+01 c.1.22.2,c.1.22.2 107590,107591 1mqoA 227 8.84e+01 d.157.1.1 103846 1vl4A 447 8.88e+01 d.283.1.1 108718 2bg1A 494 8.90e+01 1seiA 130 8.92e+01 1seiA d.140.1.1 41463