# List of top-scoring protein chains for T0297.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.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 1fxwF 229 3.96e-27 c.23.10.3 65058 1wab 232 4.40e-27 1wab c.23.10.3 31341 1es9A 232 6.63e-27 1wab c.23.10.3 31340 1bwr 233 9.03e-27 1wab c.23.10.3 31344 1bwp 233 1.14e-26 1wab c.23.10.3 31342 1bwq 233 1.19e-26 1wab c.23.10.3 31343 1jrlA 190 3.57e-23 c.23.10.5 84205 1ivnA 190 7.41e-23 c.23.10.5 83719 1j00A 190 2.40e-22 c.23.10.5 83854 1yzfA 195 1.83e-21 1vjgA 218 2.87e-19 c.23.10.6 100810 1k7cA 233 1.43e-07 c.23.10.4 68267 1esc 306 9.23e-05 1esc c.23.10.1 31334 1vbuA 328 5.15e-03 1zmbA 290 3.23e-02 1z0jA 170 5.18e-01 1wd3A 482 5.50e-01 b.29.1.21,b.42.8.1 109233,109234 1yvdA 169 6.59e-01 2ftsA 419 8.29e-01 1t3eA 421 8.30e-01 b.85.6.1,b.103.1.1,c.57.1.2 106348,106349,106350 2ax4A 198 1.16e+00 2apjA 260 1.16e+00 1x6vA 630 3.92e+00 1nxzA 246 4.85e+00 b.122.1.2,c.116.1.5 86391,86392 1vhyA 257 4.93e+00 b.122.1.2,c.116.1.5 100714,100715 1v9nA 360 5.61e+00 1eisA 89 6.03e+00 1hev g.3.1.1,g.3.1.1 44052,44053 2c27A 315 6.14e+00 1ouwA 152 6.16e+00 b.77.3.1 93571 1p0hA 318 6.18e+00 d.108.1.1 93866 2c2xA 281 6.20e+00 1c96A 753 6.36e+00 1amj c.8.2.1,c.83.1.1 30727,35403 1c97A 753 6.42e+00 1amj c.8.2.1,c.83.1.1 30731,35407 1b0jA 754 6.43e+00 1amj c.8.2.1,c.83.1.1 30719,35395 1b0mA 753 6.44e+00 1amj c.8.2.1,c.83.1.1 30722,35398 7acn 754 6.45e+00 1amj c.8.2.1,c.83.1.1 30717,35393 1dqdH 222 6.57e+00 1igtB b.1.1.1,b.1.1.2 20441,21407 1nis 754 6.87e+00 1amj c.8.2.1,c.83.1.1 30730,35406 8acn 754 6.87e+00 1amj c.8.2.1,c.83.1.1 30724,35400 1fx0A 507 6.93e+00 a.69.1.1,b.49.1.1,c.37.1.11 60080,60081,60082 1n82A 331 6.98e+00 c.1.8.3 91703 1jt2A 268 7.17e+00 c.69.1.2 71858 1en2A 89 7.57e+00 1hev g.3.1.1,g.3.1.1 44048,44049 1o6cA 388 7.71e+00 c.87.1.3 92565 1jjfA 268 8.39e+00 c.69.1.2 66765 2cw6A 298 8.91e+00 1um8A 376 1.10e+01 c.37.1.20 99580 1fg7A 356 1.21e+01 1gewA c.67.1.1 59819 1ehdA 89 1.24e+01 1hev g.3.1.1,g.3.1.1 44050,44051 1vgjA 184 1.31e+01 1b5tA 275 1.36e+01 1b5tA c.1.23.1 29676 1h1dA 221 1.43e+01 c.66.1.1 83452 1r89A 437 1.46e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1mc3A 296 1.49e+01 c.68.1.6 78943 1t6t1 118 1.52e+01 1w1fA 65 1.53e+01 1zp4A 304 1.56e+01 1ffyA 917 1.61e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 2fmnA 304 1.65e+01 1zp3A 304 1.69e+01 1qg0A 308 1.74e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1qgaA 308 1.75e+01 1fnc b.43.4.2,c.25.1.1 25637,31527 1qfzA 308 1.75e+01 1fnc b.43.4.2,c.25.1.1 25633,31523 1jymA 183 1.79e+01 d.167.1.1 71957 1pyfA 312 1.80e+01 c.1.7.1 95334 1wkbA 810 1.83e+01 1tib 269 1.97e+01 3tgl c.69.1.17 34738 1wsaA 330 1.98e+01 4pgaA c.88.1.1 35558 1r6vA 671 2.16e+01 1wz2A 967 2.19e+01 1b3bA 415 2.20e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1rl4A 188 2.23e+01 d.167.1.1 97636 1a04A 215 2.24e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1cjtC 402 2.27e+01 1cipA a.66.1.1,c.37.1.8 18206,32089 1rqcA 185 2.30e+01 d.167.1.1 97732 1uktA 686 2.37e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 99525,99526,99527,99528 1ojuA 294 2.42e+01 c.2.1.5,d.162.1.1 103990,103991 1rzfL 213 2.55e+01 b.1.1.1,b.1.1.2 98152,98153 1pamA 686 2.58e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 1ur1A 378 2.59e+01 c.1.8.3 99804 1v3kA 686 2.59e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 108313,108314,108315,108316 1v3jA 686 2.60e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 108305,108306,108307,108308 1p88A 216 2.63e+01 1gmlA 178 2.71e+01 c.8.5.2 70273 1wa9A 368 2.73e+01 1d7fA 686 2.87e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21848,22517,27755,28742 1lfi 691 2.91e+01 1cb6A c.94.1.2,c.94.1.2 35850,35851 1lfh 691 2.92e+01 1cb6A c.94.1.2,c.94.1.2 35856,35857 2an9A 207 2.93e+01 1s96A 219 2.93e+01 c.37.1.1 98740 1wtlA 108 2.98e+01 8fabA b.1.1.1 20530 1ic4H 114 2.99e+01 1f3rB b.1.1.1 62251 1ozaA 371 3.01e+01 c.2.1.3,d.81.1.1 104045,104046 1pqwA 198 3.02e+01 c.2.1.1 88278 1ic7H 114 3.06e+01 1f3rB b.1.1.1 62258 1j6uA 469 3.23e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1culC 380 3.28e+01 1cipA a.66.1.1,c.37.1.8 18204,32087 1vkmA 297 3.41e+01 c.138.1.1 108670 2c0hA 353 3.41e+01 1u32A 293 3.55e+01 d.159.1.3 107631 1ytkA 398 3.56e+01 1sm4A 296 3.60e+01 b.43.4.2,c.25.1.1 98913,98914 1q1jL 215 3.61e+01 b.1.1.1,b.1.1.2 95585,95586 1ass 159 3.62e+01 1a6dA c.8.5.2 30818 1en7A 157 3.64e+01 1en7A a.140.4.1,d.4.1.5 64733,64734 1bu8A 452 3.68e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 1j9lA 247 3.70e+01 c.106.1.1 62762 1deqA 390 3.71e+01 i.9.1.1 45987 1lcf 691 3.71e+01 1cb6A c.94.1.2,c.94.1.2 35838,35839 1lfg 691 3.72e+01 1cb6A c.94.1.2,c.94.1.2 35845,35846 1kq3A 376 3.74e+01 e.22.1.2 68790 1b0lA 691 3.75e+01 1cb6A c.94.1.2,c.94.1.2 35847,35848 1cb6A 691 3.77e+01 1cb6A c.94.1.2,c.94.1.2 35840,35841 1fckA 692 3.78e+01 1cb6A c.94.1.2,c.94.1.2 35843,35844 1sctB 151 3.78e+01 3sdhA a.1.1.2 15003 1eweA 363 3.80e+01 1fbaA c.1.10.1 29136 1b1xA 689 3.82e+01 1cb6A c.94.1.2,c.94.1.2 35865,35866 1hdoA 206 3.84e+01 1he2A c.2.1.2 60965 1sqyA 691 3.87e+01 c.94.1.2,c.94.1.2 98973,98974 1f9bA 695 3.89e+01 1cb6A c.94.1.2,c.94.1.2 35869,35870 1t64A 377 3.89e+01 c.42.1.2 106543 1yacA 208 4.03e+01 1yacA c.33.1.3 31757 1x4mA 94 4.03e+01 1adoA 363 4.05e+01 1fbaA c.1.10.1 29124 1zaiA 363 4.07e+01 1ald 363 4.10e+01 1fbaA c.1.10.1 29100 1ybfA 268 4.18e+01 1ecfA 504 4.27e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 2c1hA 328 4.32e+01 2fb2A 340 4.33e+01 1iznB 277 4.35e+01 e.43.1.2 83848 1v6yA 324 4.36e+01 c.1.8.3 108401 1ewdA 363 4.38e+01 1fbaA c.1.10.1 29132 1u2gC 203 4.41e+01 1eny 268 4.41e+01 1eny c.2.1.2 29910 1e7lA 157 4.43e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 6aldA 363 4.45e+01 1fbaA c.1.10.1 29144 1xc4A 268 4.50e+01 1j4eA 363 4.52e+01 c.1.10.1 66375 1bvrA 268 4.53e+01 1eny c.2.1.2 29913 1v7bA 185 4.55e+01 1pr3A 371 4.59e+01 c.2.1.3,d.81.1.1 104300,104301 2b35A 269 4.61e+01 1n76A 690 4.63e+01 c.94.1.2,c.94.1.2 80226,80227 2bjjX 692 4.66e+01 1eexA 554 4.69e+01 1dioA c.1.19.3 29650 1q45A 391 4.71e+01 c.1.4.1 95780 1zq1C 633 4.84e+01 1thg 544 4.89e+01 1thg c.69.1.17 34763 1j1xH 114 4.89e+01 b.1.1.1 77063 1nfvA 179 4.89e+01 a.25.1.1 85642 1r75A 141 4.92e+01 b.134.1.1 97189 1tv8A 340 4.94e+01 c.1.28.3 107352 1wq5A 268 4.95e+01 1ic5H 114 4.98e+01 1f3rB b.1.1.1 62254 1x25A 128 5.02e+01 1jykA 254 5.05e+01 c.68.1.13 67458 1jk7A 323 5.21e+01 1auiA d.159.1.3 63144 1hxmA 229 5.25e+01 1hxmA b.1.1.1,b.1.1.2 61367,61368 1nwcA 371 5.27e+01 c.2.1.3,d.81.1.1 92229,92230 1pquA 371 5.35e+01 c.2.1.3,d.81.1.1 104288,104289 1nwhA 371 5.37e+01 c.2.1.3,d.81.1.1 92233,92234 1u0sY 118 5.38e+01 c.23.1.1 107566 1zbmA 280 5.39e+01 1cs4C 394 5.40e+01 1cipA a.66.1.1,c.37.1.8 18205,32088 1tmy 120 5.42e+01 1dbwA c.23.1.1 31083 1ps8A 371 5.45e+01 c.2.1.3,d.81.1.1 104304,104305 2fsvC 203 5.45e+01 1azsC 402 5.46e+01 1cipA a.66.1.1,c.37.1.8 18203,32086 1pqpA 371 5.49e+01 c.2.1.3,d.81.1.1 104286,104287 2c5sA 413 5.66e+01 1b26A 416 5.93e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 1uuqA 440 5.94e+01 c.1.8.3 100015 1ewgA 363 5.96e+01 1fbaA c.1.10.1 29128 1pu2A 371 5.99e+01 c.2.1.3,d.81.1.1 104308,104309 1uacH 114 6.00e+01 b.1.1.1 99132 1mb3A 124 6.00e+01 c.23.1.1 78907 1n62A 166 6.05e+01 a.56.1.1,d.15.4.2 80090,80091 1toaA 313 6.15e+01 1toaA c.92.2.2 35598 1o0yA 260 6.30e+01 c.1.10.1 80756 1q2xA 371 6.32e+01 c.2.1.3,d.81.1.1 104503,104504 2f2uA 402 6.37e+01 1ex5A 363 6.40e+01 1fbaA c.1.10.1 29140 1enz 268 6.45e+01 1eny c.2.1.2 29912 1uksA 686 6.48e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 99517,99518,99519,99520 1b74A 254 6.52e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 2au5A 139 6.58e+01 1tjpA 268 6.72e+01 2tmgA 415 6.81e+01 1hwyA c.2.1.7,c.58.1.1 30238,33886 1kfbA 268 6.86e+01 c.1.2.4 77369 1e19A 314 6.97e+01 1b7bA c.73.1.1 34967 1u4gA 301 7.13e+01 d.92.1.2 107670 1sr9A 644 7.14e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1beuA 268 7.33e+01 2tysA c.1.2.4 28574 1j0aA 325 7.42e+01 c.79.1.1 83871 1xcfA 268 7.56e+01 1kohA 277 7.56e+01 c.10.2.3,d.58.7.2 68719,68720 1x5fA 120 7.76e+01 3hfmH 215 7.78e+01 1igtB b.1.1.1,b.1.1.2 19977,21033 1o08A 221 7.88e+01 c.108.1.6 86525 1qopA 268 8.03e+01 2tysA c.1.2.4 28570 1yvmA 264 8.11e+01 1c24A 263 8.12e+01 1c24A d.127.1.1 41148 1ldnA 316 8.12e+01 1hyhA c.2.1.5,d.162.1.1 30166,42133 1ldbA 317 8.13e+01 3matA 265 8.14e+01 1c24A d.127.1.1 41149 1kfcA 268 8.20e+01 c.1.2.4 77371 1uosB 126 8.29e+01 1umrC 125 8.35e+01 d.169.1.1 99628 2bdtA 189 8.36e+01 1m0wA 491 8.48e+01 c.30.1.4,d.142.1.6 78363,78364 4matA 278 8.54e+01 1c24A d.127.1.1 41150 1zmtA 254 8.58e+01 2f91A 237 8.58e+01 1xnzA 264 8.61e+01 1ofuA 320 8.65e+01 c.32.1.1,d.79.2.1 86972,86973 1x7dA 350 8.71e+01 1vblA 416 8.83e+01 2fg5A 192 8.84e+01 1e1hA 287 8.91e+01 d.92.1.7 83167 1wu6A 396 8.97e+01