# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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 1ldm 329 1.74e-01 3ldh c.2.1.5,d.162.1.1 30160,42127 1fobA 334 1.83e-01 c.1.8.3 83255 1yuwA 554 2.76e-01 6ldh 330 3.25e-01 3ldh c.2.1.5,d.162.1.1 30161,42128 1z47A 355 6.79e-01 1svfB 38 9.30e-01 1svfB h.3.2.1 45764 2fo1D 85 9.38e-01 1ldnA 316 1.41e+00 1hyhA c.2.1.5,d.162.1.1 30166,42133 1pm3A 78 1.56e+00 b.41.1.2 94889 2ffcA 353 2.05e+00 1qrvA 73 3.20e+00 1cktA a.21.1.1 16425 1l2tA 235 3.21e+00 c.37.1.12 73514 1qrvB 73 3.32e+00 a.21.1.1 16426 1ccwA 137 3.40e+00 1be1 c.23.6.1 31238 1e19A 314 3.62e+00 1b7bA c.73.1.1 34967 1hma 73 3.76e+00 1cktA a.21.1.1 16427 1vypX 364 4.13e+00 c.1.4.1 108905 2b5dX 528 4.31e+00 1gvoA 364 4.31e+00 c.1.4.1 76357 1tmy 120 4.67e+00 1dbwA c.23.1.1 31083 1vp8A 201 4.99e+00 1vjoA 393 5.39e+00 c.67.1.3 100827 1b1a 137 5.65e+00 1be1 c.23.6.1 31242 1lwyA 324 6.06e+00 a.96.1.3,d.129.1.2 78285,78286 1h61A 364 6.09e+00 1oyc c.1.4.1 60657 2anuA 255 6.13e+00 1jfvA 131 6.31e+00 c.44.1.1 66654 1dr8B 344 6.60e+00 1cnzA c.77.1.1 35052 1srrA 124 6.64e+00 1dz3A c.23.1.1 31110 1ko9A 345 6.82e+00 a.96.1.3,d.129.1.2 68717,68718 1ebmA 317 6.84e+00 1ebmA a.96.1.3,d.129.1.2 18751,41300 1hu4A 288 7.15e+00 1hu4A 1u0sY 118 7.22e+00 c.23.1.1 107566 1ats 386 7.29e+00 1ba1 c.55.1.1,c.55.1.1 33423,33424 1n5dA 288 7.57e+00 c.2.1.2 80030 9ldtA 332 7.66e+00 3ldh c.2.1.5,d.162.1.1 30154,42121 1pmi 440 8.30e+00 1pmi b.82.1.3 28114 1v71A 323 8.77e+00 1pcxA 810 8.86e+00 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 2fsp 124 8.87e+00 1dz3A c.23.1.1 31119 1m6kA 251 8.87e+00 e.3.1.1 78695 1a04A 215 9.55e+00 1a04A a.4.6.2,c.23.1.1 16234,31089 2abbA 364 9.56e+00 1mvoA 136 1.01e+01 c.23.1.1 79513 1ba1 386 1.02e+01 1ba1 c.55.1.1,c.55.1.1 33387,33388 1vyrA 364 1.04e+01 c.1.4.1 108906 1lldA 319 1.06e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1jf8A 131 1.09e+01 c.44.1.1 66621 1atr 386 1.16e+01 1ba1 c.55.1.1,c.55.1.1 33421,33422 1m5tA 124 1.28e+01 c.23.1.1 78660 1h54B 754 1.31e+01 a.102.1.4,b.30.5.3 60636,60637 1icrA 217 1.34e+01 1vfrA d.90.1.1 62274 1bupA 386 1.35e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1kay 381 1.36e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1hpm 386 1.37e+01 1ba1 c.55.1.1,c.55.1.1 33381,33382 1ydwA 362 1.37e+01 1ykiA 217 1.40e+01 1cm7A 363 1.47e+01 1cnzA c.77.1.1 35063 1ehyA 294 1.54e+01 1ehyA c.69.1.11 34693 1mb3A 124 1.61e+01 c.23.1.1 78907 1cnzA 363 1.62e+01 1cnzA c.77.1.1 35061 1b0uA 262 1.81e+01 1b0uA c.37.1.12 32370 1kagA 173 1.83e+01 c.37.1.2 72249 1a8l 226 2.06e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1a0sP 413 2.07e+01 1a0tP f.4.3.2 43797 1bxnA 485 2.10e+01 1burA c.1.14.1,d.58.9.1 29376,39282 2b99A 156 2.12e+01 1ipd 345 2.16e+01 1cnzA c.77.1.1 35038 1a0tP 413 2.23e+01 1a0tP f.4.3.2 43794 1po5A 476 2.28e+01 a.104.1.1 94963 1ao7E 245 2.29e+01 1bec b.1.1.1,b.1.1.2 20646,21575 1uv4A 293 2.36e+01 1xaa 345 2.41e+01 1cnzA c.77.1.1 35033 1h54A 754 2.42e+01 a.102.1.4,b.30.5.3 60634,60635 1oqcA 125 2.45e+01 a.24.15.1 87264 1rp0A 284 2.46e+01 1bk0 331 2.47e+01 1bk0 b.82.2.1 28118 1g10A 102 2.47e+01 1g10A d.137.1.1 60191 2b61A 377 2.51e+01 5ldh 334 2.57e+01 3ldh c.2.1.5,d.162.1.1 30158,42125 1idm 343 2.74e+01 1cnzA c.77.1.1 35035 1wovA 250 2.84e+01 1m3qA 317 2.84e+01 a.96.1.3,d.129.1.2 91184,91185 1odmA 331 2.90e+01 b.82.2.1 86875 1m6pA 152 2.90e+01 1m6pA b.64.1.1 27519 1nekA 588 2.98e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 2scuB 388 3.00e+01 2scuB c.23.4.1,d.142.1.4 31141,41562 1j5sA 463 3.04e+01 c.1.9.8 71580 1sc3A 178 3.12e+01 c.17.1.1 105416 2coeA 120 3.12e+01 1n57A 291 3.24e+01 c.23.16.2 85328 1ozhA 566 3.24e+01 c.31.1.3,c.36.1.5,c.36.1.9 93833,93834,93835 1itm 130 3.47e+01 1rcb a.26.1.2 16858 1e55A 512 3.52e+01 1e70M c.1.8.4 28934 1dfoA 417 3.64e+01 1bj4A c.67.1.4 34480 2bf5A 98 3.66e+01 1ibcA 194 3.77e+01 1pauA c.17.1.1 30997 2fxaA 207 3.86e+01 1v1pA 211 3.88e+01 b.40.2.2,d.15.6.1 108268,108269 2int 129 3.89e+01 1rcb a.26.1.2 16855 1a49A 530 3.92e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1ltzA 297 4.05e+01 d.178.1.1 74254 1fr1A 361 4.16e+01 1gceA e.3.1.1 42734 2gpiA 91 4.31e+01 2d13A 227 4.32e+01 1ctn 540 4.36e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 2cqnA 77 4.36e+01 1ve1A 304 4.38e+01 2gclA 261 4.43e+01 1rwxA 178 4.47e+01 1kcxA 518 4.50e+01 b.92.1.3,c.1.9.6 90953,90954 1fzqA 181 4.53e+01 1hurA c.37.1.8 32060 1gc5A 467 4.55e+01 1gc5A c.72.1.3 60429 2g50A 530 4.57e+01 1k9tA 540 4.62e+01 b.1.18.2,c.1.8.5,d.26.3.1 77298,77299,77300 1pkm 530 4.66e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27051,29254,33108 1k30A 368 4.81e+01 c.112.1.1 68067 1pkn 530 4.87e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27042,29271,33125 1m2vB 926 4.89e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78497,78498,78499,78500,78501 1qg3A 195 4.89e+01 1qg3A b.1.2.1,b.1.2.1 21993,21994 1hziA 129 4.92e+01 1rcb a.26.1.2 61449 1y1xA 191 4.98e+01 1u9lA 70 5.03e+01 a.60.4.2 107751 1f8gA 384 5.04e+01 1sayA c.2.1.4,c.23.12.2 59695,59696 1ep3A 311 5.18e+01 2dorA c.1.4.1 28597 1szoA 257 5.26e+01 c.14.1.3 106164 1a6dA 545 5.45e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 1h0cA 392 5.56e+01 c.67.1.3 83424 2bl5A 140 5.59e+01 1dv2A 452 5.64e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1irl 133 5.73e+01 3inkC a.26.1.2 16883 1wzuA 300 5.75e+01 1vl6A 388 5.83e+01 c.2.1.7,c.58.1.3 108724,108725 1jnxX 214 5.91e+01 c.15.1.3,c.15.1.3 63201,63202 1rgyA 360 5.98e+01 e.3.1.1 97456 2d48A 129 6.02e+01 1zhvA 134 6.04e+01 1x05A 129 6.11e+01 2czdA 208 6.16e+01 1a2zA 220 6.17e+01 1a2zA c.56.4.1 33794 1xwiA 322 6.20e+01 1yh3A 256 6.36e+01 1pkhA 204 6.48e+01 b.85.4.1 94832 1iuqA 367 6.48e+01 c.112.1.1 90703 1szt 68 6.54e+01 1aikN h.3.2.1 45725 1uor 585 6.59e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19396,19397,19398 1fmtA 314 6.59e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1o5kA 306 6.65e+01 c.1.10.1 92504 1h49A 512 6.75e+01 c.1.8.4 83477 1ur1A 378 6.78e+01 c.1.8.3 99804 1ua4A 455 6.84e+01 c.72.1.3 99128 1vk9A 151 6.88e+01 c.139.1.1 108640 1t15A 214 6.93e+01 c.15.1.3,c.15.1.3 99067,99068 1ffkL 115 6.98e+01 1ffkL c.12.1.1 30881 1xrhA 351 7.07e+01 1w0dA 337 7.09e+01 1nrjA 158 7.11e+01 d.110.4.4 86124 1ibjA 464 7.20e+01 1ibjA c.67.1.3 62162 1rcb 129 7.38e+01 1rcb a.26.1.2 16854 2ey4C 82 7.40e+01 1k8bA 52 7.42e+01 d.241.1.1 72171 1rsy 152 7.66e+01 1rsy b.7.1.2 23192 1hq0A 295 7.67e+01 1hzgA d.194.1.1 61122 2ethA 154 7.74e+01 1ntyA 311 7.74e+01 a.87.1.1,b.55.1.1 103873,103874 1o8vA 134 7.79e+01 b.60.1.2 86680 1ermA 263 7.83e+01 1btl e.3.1.1 42690 1gd1O 334 7.84e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1gy8A 397 7.95e+01 c.2.1.2 83376 1o58A 303 8.02e+01 c.79.1.1 92491 1ayoA 130 8.10e+01 1ayoA b.2.4.1 22431 1bj5 585 8.12e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19369,19370,19371 1fmtB 314 8.14e+01 1fmtA b.46.1.1,c.65.1.1 25759,34175 1xniA 118 8.26e+01 1cktA 71 8.27e+01 1cktA a.21.1.1 16417 2gqrA 237 8.30e+01 2ac4A 309 8.36e+01 1bl1 31 8.41e+01 1bl1 j.15.1.1 46154 1khbA 625 8.64e+01 c.91.1.1,c.109.1.1 68606,68607 1oghA 204 8.65e+01 b.85.4.1 86994 1zglP 249 8.68e+01 2occE 109 8.69e+01 2occE a.118.11.1 19224 1ej8A 140 8.82e+01 1qupA b.1.8.1 22300 1dozA 309 8.86e+01 1ak1 c.92.1.1 35592 3pchA 200 8.89e+01 3pchA b.3.6.1 22653 1bbn 133 8.97e+01 1rcb a.26.1.2 16861 1c9kA 180 8.97e+01 1c9kB c.37.1.11 32363 1lehA 364 8.97e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1oihA 301 8.98e+01 b.82.2.5 93051