# List of top-scoring protein chains for T0520.t2k-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.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 3et6A 190 6.89e-30 1yk9A 204 3.12e-29 2w01A 208 2.78e-28 1culA 217 1.37e-26 1azsA d.58.29.1 39417 1cs4A 225 1.39e-26 1azsA d.58.29.1 39418 1azsA 220 1.53e-26 1azsA d.58.29.1 39416 2wz1A 219 4.83e-26 1wc3A 219 2.18e-24 d.58.29.1 114495 1wc1A 226 3.00e-24 d.58.29.1 114492 1ab8A 220 8.83e-23 1azsA d.58.29.1 39414 1culB 208 1.09e-22 1azsA d.58.29.1 39424 1azsB 212 1.11e-22 1azsA d.58.29.1 39423 1fx4A 231 7.61e-21 1fx2A d.58.29.1 39431 1fx2A 235 7.66e-21 1fx2A d.58.29.1 39430 1ybtA 184 1.78e-19 1y10A 407 1.20e-18 3iclA 171 5.64e-02 2hkxA 221 7.26e-01 2dskA 311 7.52e-01 2fmyA 220 9.21e-01 2aydA 76 1.84e+00 2qv6A 268 1.86e+00 3lmbA 165 3.47e+00 1pl5A 142 4.12e+00 h.1.23.1 104186 2cgqA 113 7.03e+00 1nyhA 166 7.11e+00 h.1.23.1 86403 2jjhA 449 7.26e+00 1hy8A 76 7.85e+00 a.28.1.1 65959 1xcgA 368 7.98e+00 a.87.1.1,b.55.1.1 115120,115121 2x2bA 78 8.10e+00 2jjeA 449 8.21e+00 3l70A 446 8.32e+00 2cjgA 449 8.33e+00 1f80D 81 8.59e+00 1acp a.28.1.1 59686 2jjfA 449 9.04e+00 1jihA 513 9.09e+00 d.240.1.1,e.8.1.7 90374,90375 2wtfA 536 9.12e+00 1wj2A 78 9.27e+00 g.79.1.1 114689 3l0qA 554 9.37e+00 1o75A 415 9.50e+00 b.1.20.1,b.1.20.1,b.120.1.1 81117,81118,81119 1x52A 124 1.00e+01 d.79.3.2 145854 2r8jA 554 1.01e+01 d.240.1.1,e.8.1.7 151723,151724 2bjkA 516 1.17e+01 1uzbA 516 1.18e+01 c.82.1.1 100220 2f2bA 246 1.39e+01 1zj8A 566 1.55e+01 d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 146003,146004,146005,146006 2wabA 341 1.59e+01 2biiA 424 1.65e+01 2bihA 474 1.71e+01 1mx3A 347 1.79e+01 c.2.1.4,c.23.12.1 79638,79639 1ywtA 248 1.87e+01 3lw1A 253 1.91e+01 2obdA 476 1.91e+01 1xaxA 154 1.97e+01 3gmgA 170 2.05e+01 1p88A 216 2.13e+01 d.68.2.2 111631 3ldhA 330 2.17e+01 i.12.1.1 46015 3i5aA 334 2.25e+01 2pgnA 589 2.29e+01 1r8gA 372 2.43e+01 d.128.1.3 104845 2o1bA 404 2.44e+01 2va8A 715 2.48e+01 3gb0A 373 2.80e+01 1j36A 607 2.82e+01 d.92.1.5 84054 2isbA 192 2.87e+01 c.8.9.1 137601 1skyB 502 2.89e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18313,26478,32358 2fncA 381 2.96e+01 2waoA 341 3.01e+01 3gjzA 336 3.03e+01 1i2sA 282 3.05e+01 e.3.1.1 71104 2o5aA 125 3.10e+01 d.218.1.12 148593 1h4gA 207 3.10e+01 b.29.1.11 70863 2wk0A 265 3.12e+01 2wh1Y 351 3.35e+01 3e4bA 452 3.41e+01 1w7fA 307 3.42e+01 3cmuA 2050 3.44e+01 3cmwA 1706 3.48e+01 3cmvA 1357 3.50e+01 1h4hA 209 3.55e+01 b.29.1.11 70865 3eh8A 254 3.56e+01 2b9mY 365 3.57e+01 2ihr1 365 3.57e+01 2r9vA 515 3.61e+01 2rebA 352 3.65e+01 c.37.1.11,d.48.1.1 32282,38767 2recA 353 3.65e+01 2reb i.2.1.1 45879 1q15A 503 3.66e+01 c.26.2.1,d.153.1.1 95538,95539 3f1eX 378 3.68e+01 1u94A 356 3.68e+01 c.37.1.11,d.48.1.1 107743,107744 1ldmA 329 3.72e+01 c.2.1.5,d.162.1.1 30160,42127 6ldhA 330 3.73e+01 c.2.1.5,d.162.1.1 30161,42128 3busA 273 4.01e+01 1m41A 380 4.07e+01 c.1.16.4 78595 1nqkA 381 4.08e+01 c.1.16.4 92050 2p6rA 702 4.22e+01 a.4.5.43,a.289.1.2,c.37.1.19,c.37.1.19 149270,149271,149272,149273 3ezuA 342 4.23e+01 1g66A 207 4.34e+01 1bs9 c.69.1.30 31329 2yyyA 343 4.39e+01 2ausA 334 4.43e+01 3bf5A 306 4.71e+01 3bypA 94 4.72e+01 d.52.9.1 155726 2f6bA 206 4.91e+01 2d69A 430 4.96e+01 c.1.14.1,d.58.9.1 131292,131293 3a5cG 223 5.00e+01 2i5qA 415 5.23e+01 2c63A 247 5.97e+01 2qjpC 179 5.99e+01 2vqeH 138 6.07e+01 d.140.1.1 153432 1rwtA 232 6.14e+01 f.43.1.1 97992 3cx5E 185 6.20e+01 b.33.1.1,f.23.12.1 157084,157085 1an7A 136 6.21e+01 1seiA d.140.1.1 41465 2f93B 122 6.23e+01 f.17.4.1 145151 1w63Q 158 6.30e+01 i.23.1.1 109208 1zakA 222 6.41e+01 1zin c.37.1.1,g.41.2.1 31913,45202 1kzlA 208 6.52e+01 b.43.4.3,b.43.4.3 77635,77636 3d47A 405 6.58e+01 2gshA 414 6.66e+01 3boxA 415 6.66e+01 2ey4A 333 6.97e+01 b.122.1.1,d.265.1.2 132578,132579 3hjwA 327 7.03e+01 2j1dG 483 7.03e+01 3haxA 346 7.05e+01 3d3kA 259 7.07e+01 2qojZ 254 7.09e+01 1vf5D 179 7.23e+01 b.33.1.1,f.23.12.1 100583,100584 2w6jD 528 7.23e+01 2jfrA 234 7.37e+01 1hkuA 358 7.40e+01 c.2.1.4,c.23.12.1 83557,83558 1tisA 286 7.48e+01 d.117.1.1 41040 1tbuA 118 7.48e+01 d.38.1.3 119223 2d4aA 308 7.49e+01 2q4iA 193 7.54e+01 b.159.1.1 139857 1s1hE 149 7.62e+01 i.1.1.1 105158 1ocxA 182 7.62e+01 b.81.1.3 86814 2vwkA 773 7.71e+01 c.55.3.5,e.8.1.1 153677,153678 2vwjA 773 7.71e+01 c.55.3.5,e.8.1.1 153675,153676 2e74D 179 7.77e+01 b.33.1.1,f.23.12.1 132049,132050 3jywX 86 7.78e+01 3jyvE 162 7.95e+01 1e79D 482 7.96e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 2o02A 230 7.99e+01 a.118.7.1 148541