# 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 1fobA 334 1.31e-01 c.1.8.3 83255 1yuwA 554 2.76e-01 1ldm 329 3.47e-01 3ldh c.2.1.5,d.162.1.1 30160,42127 1ldnA 316 4.99e-01 1hyhA c.2.1.5,d.162.1.1 30166,42133 1z47A 355 7.22e-01 6ldh 330 7.62e-01 3ldh c.2.1.5,d.162.1.1 30161,42128 1svfB 38 1.25e+00 1svfB h.3.2.1 45764 2fo1D 85 1.34e+00 1vjoA 393 1.61e+00 c.67.1.3 100827 1pm3A 78 2.18e+00 b.41.1.2 94889 1o58A 303 2.60e+00 c.79.1.1 92491 1ydwA 362 2.69e+00 1l2tA 235 2.91e+00 c.37.1.12 73514 1h0cA 392 3.40e+00 c.67.1.3 83424 1hu4A 288 3.68e+00 1hu4A 1zr6A 503 3.71e+00 1n5dA 288 3.83e+00 c.2.1.2 80030 2ffcA 353 3.92e+00 1e19A 314 4.08e+00 1b7bA c.73.1.1 34967 1ccwA 137 4.11e+00 1be1 c.23.6.1 31238 1qrvA 73 4.18e+00 1cktA a.21.1.1 16425 1qrvB 73 4.34e+00 a.21.1.1 16426 1vypX 364 4.45e+00 c.1.4.1 108905 2b5dX 528 4.57e+00 1hma 73 4.96e+00 1cktA a.21.1.1 16427 1gvoA 364 5.24e+00 c.1.4.1 76357 1b1a 137 5.64e+00 1be1 c.23.6.1 31242 1tmy 120 6.88e+00 1dbwA c.23.1.1 31083 1vp8A 201 7.58e+00 1lwyA 324 7.62e+00 a.96.1.3,d.129.1.2 78285,78286 1ko9A 345 7.89e+00 a.96.1.3,d.129.1.2 68717,68718 2anuA 255 8.05e+00 1lldA 319 8.20e+00 3ldh c.2.1.5,d.162.1.1 30177,42144 1ebmA 317 8.99e+00 1ebmA a.96.1.3,d.129.1.2 18751,41300 1ats 386 9.04e+00 1ba1 c.55.1.1,c.55.1.1 33423,33424 9ldtA 332 9.29e+00 3ldh c.2.1.5,d.162.1.1 30154,42121 1srrA 124 9.55e+00 1dz3A c.23.1.1 31110 1c7nA 399 9.57e+00 1d2fA c.67.1.3 34413 1v71A 323 9.61e+00 1h61A 364 9.65e+00 1oyc c.1.4.1 60657 1dr8B 344 9.65e+00 1cnzA c.77.1.1 35052 1a48 306 9.82e+00 1a48 d.143.1.1 41590 1b0uA 262 1.01e+01 1b0uA c.37.1.12 32370 1ba1 386 1.02e+01 1ba1 c.55.1.1,c.55.1.1 33387,33388 1xclA 235 1.02e+01 1pmi 440 1.03e+01 1pmi b.82.1.3 28114 1u0sY 118 1.03e+01 c.23.1.1 107566 1jfvA 131 1.12e+01 c.44.1.1 66654 1pcxA 810 1.16e+01 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 1atr 386 1.19e+01 1ba1 c.55.1.1,c.55.1.1 33421,33422 2c31A 568 1.20e+01 1vyrA 364 1.24e+01 c.1.4.1 108906 1m6kA 251 1.24e+01 e.3.1.1 78695 1bupA 386 1.25e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1n57A 291 1.25e+01 c.23.16.2 85328 1a04A 215 1.26e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1kay 381 1.26e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 2fsp 124 1.28e+01 1dz3A c.23.1.1 31119 1nekA 588 1.29e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1hpm 386 1.29e+01 1ba1 c.55.1.1,c.55.1.1 33381,33382 1mvoA 136 1.39e+01 c.23.1.1 79513 2a1xA 308 1.41e+01 1m5tA 124 1.45e+01 c.23.1.1 78660 2abbA 364 1.57e+01 1icrA 217 1.64e+01 1vfrA d.90.1.1 62274 1ykiA 217 1.74e+01 1mb3A 124 1.75e+01 c.23.1.1 78907 8rucA 475 1.89e+01 1burA c.1.14.1,d.58.9.1 29339,39245 1wmaA 276 1.89e+01 1jf8A 131 1.91e+01 c.44.1.1 66621 1burA 475 2.00e+01 1burA 1wddA 477 2.08e+01 1y6iA 233 2.08e+01 1cm7A 363 2.10e+01 1cnzA c.77.1.1 35063 1rp0A 284 2.17e+01 1cnzA 363 2.23e+01 1cnzA c.77.1.1 35061 2b99A 156 2.24e+01 1kutA 230 2.29e+01 d.143.1.1 73017 1ua4A 455 2.31e+01 c.72.1.3 99128 1a8l 226 2.37e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1kagA 173 2.38e+01 c.37.1.2 72249 1a0sP 413 2.41e+01 1a0tP f.4.3.2 43797 1ao7E 245 2.50e+01 1bec b.1.1.1,b.1.1.2 20646,21575 1nxmA 197 2.52e+01 b.82.1.1 86385 5ldh 334 2.56e+01 3ldh c.2.1.5,d.162.1.1 30158,42125 1jnxX 214 2.58e+01 c.15.1.3,c.15.1.3 63201,63202 2b61A 377 2.60e+01 1a0tP 413 2.61e+01 1a0tP f.4.3.2 43794 1te0A 318 2.65e+01 1vl6A 388 2.68e+01 c.2.1.7,c.58.1.3 108724,108725 1oqcA 125 2.72e+01 a.24.15.1 87264 1xrhA 351 2.74e+01 1po5A 476 2.80e+01 a.104.1.1 94963 1ipd 345 2.90e+01 1cnzA c.77.1.1 35038 1bxnA 485 2.93e+01 1burA c.1.14.1,d.58.9.1 29376,39282 1ws0A 156 3.06e+01 1f8gA 384 3.07e+01 1sayA c.2.1.4,c.23.12.2 59695,59696 1t15A 214 3.15e+01 c.15.1.3,c.15.1.3 99067,99068 1xaa 345 3.24e+01 1cnzA c.77.1.1 35033 1ehyA 294 3.30e+01 1ehyA c.69.1.11 34693 1wzuA 300 3.33e+01 1m6pA 152 3.36e+01 1m6pA b.64.1.1 27519 1ve1A 304 3.44e+01 1m3qA 317 3.44e+01 a.96.1.3,d.129.1.2 91184,91185 1uv4A 293 3.52e+01 1g10A 102 3.65e+01 1g10A d.137.1.1 60191 1obdA 306 3.70e+01 d.143.1.1 86767 2scuB 388 3.70e+01 2scuB c.23.4.1,d.142.1.4 31141,41562 1idm 343 3.77e+01 1cnzA c.77.1.1 35035 2coeA 120 3.87e+01 2awaA 390 3.92e+01 1itm 130 3.97e+01 1rcb a.26.1.2 16858 1sc3A 178 4.03e+01 c.17.1.1 105416 2fxaA 207 4.18e+01 1dv2A 452 4.25e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28238,31645,41490 1zx0A 236 4.30e+01 1dfoA 417 4.31e+01 1bj4A c.67.1.4 34480 2int 129 4.32e+01 1rcb a.26.1.2 16855 1gk8A 475 4.39e+01 c.1.14.1,d.58.9.1 65234,65235 1ozhA 566 4.47e+01 c.31.1.3,c.36.1.5,c.36.1.9 93833,93834,93835 1kcxA 518 4.47e+01 b.92.1.3,c.1.9.6 90953,90954 1dl5A 317 4.74e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1gyfA 62 4.76e+01 1gyfA d.76.1.1 39749 1bk0 331 4.80e+01 1bk0 b.82.2.1 28118 1ltzA 297 4.81e+01 d.178.1.1 74254 1ibcA 194 4.82e+01 1pauA c.17.1.1 30997 1gc5A 467 4.87e+01 1gc5A c.72.1.3 60429 1svdA 473 4.88e+01 1u9lA 70 4.94e+01 a.60.4.2 107751 1woqA 267 5.00e+01 c.55.1.10,c.55.1.10 109462,109463 2cqnA 77 5.12e+01 1y1xA 191 5.35e+01 1hziA 129 5.40e+01 1rcb a.26.1.2 61449 1odmA 331 5.63e+01 b.82.2.1 86875 1rwxA 178 5.64e+01 1wovA 250 5.65e+01 1lt8A 406 5.67e+01 c.1.26.1 78186 1wiwA 290 5.69e+01 1ep3A 311 5.72e+01 2dorA c.1.4.1 28597 1wd5A 208 5.77e+01 1a49A 530 5.81e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1k9tA 540 5.92e+01 b.1.18.2,c.1.8.5,d.26.3.1 77298,77299,77300 2d13A 227 6.11e+01 2gclA 261 6.12e+01 1ctn 540 6.15e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 1fr1A 361 6.18e+01 1gceA e.3.1.1 42734 1cz7A 406 6.25e+01 1bg2 c.37.1.9 32194 2b8wA 328 6.31e+01 1kcfA 258 6.31e+01 a.140.2.1,c.55.3.7 68434,68435 1xwiA 322 6.32e+01 1j5sA 463 6.33e+01 c.1.9.8 71580 2d48A 129 6.46e+01 1m2vB 926 6.47e+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 1rsy 152 6.56e+01 1rsy b.7.1.2 23192 2tpsA 227 6.58e+01 2tpsA c.1.3.1 28591 1fzqA 181 6.59e+01 1hurA c.37.1.8 32060 1a6dA 545 6.63e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 2czdA 208 6.70e+01 1r3sA 367 6.82e+01 c.1.22.1 96963 1irl 133 6.86e+01 3inkC a.26.1.2 16883 1pkm 530 6.92e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27051,29254,33108 1yd7A 395 6.93e+01 2bf5A 98 6.94e+01 1uor 585 6.94e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19396,19397,19398 1v1pA 211 7.02e+01 b.40.2.2,d.15.6.1 108268,108269 1hq0A 295 7.03e+01 1hzgA d.194.1.1 61122 2bl5A 140 7.10e+01 1szt 68 7.11e+01 1aikN h.3.2.1 45725 1zhvA 134 7.24e+01 1nf2A 268 7.25e+01 c.108.1.10 91849 2g50A 530 7.28e+01 1q7zA 566 7.47e+01 c.1.21.2,c.1.26.1 96090,96091 1a2zA 220 7.57e+01 1a2zA c.56.4.1 33794 1k77A 260 7.61e+01 c.1.15.5 72096 1nrjA 158 7.61e+01 d.110.4.4 86124 1h6dA 433 7.62e+01 c.2.1.3,d.81.1.5 65656,65657 1e55A 512 7.72e+01 1e70M c.1.8.4 28934 1pkn 530 7.83e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27042,29271,33125 1c9kA 180 7.88e+01 1c9kB c.37.1.11 32363 1n2sA 299 7.88e+01 c.2.1.2 79857 1bj5 585 7.93e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19369,19370,19371 1rcb 129 7.98e+01 1rcb a.26.1.2 16854 1ww8A 439 7.98e+01 1syxB 86 8.07e+01 1h54B 754 8.10e+01 a.102.1.4,b.30.5.3 60636,60637 1k30A 368 8.22e+01 c.112.1.1 68067 1x05A 129 8.29e+01 1rgyA 360 8.32e+01 e.3.1.1 97456 1xttA 216 8.32e+01 1ffkL 115 8.38e+01 1ffkL c.12.1.1 30881 3ldh 330 8.54e+01 3ldh i.12.1.1 46015 1vk9A 151 8.58e+01 c.139.1.1 108640 1pkhA 204 8.61e+01 b.85.4.1 94832 1gweA 503 8.68e+01 e.5.1.1 70667 1r5mA 425 8.71e+01 1u4gA 301 8.71e+01 d.92.1.2 107670 1cktA 71 8.78e+01 1cktA a.21.1.1 16417 1bl1 31 8.85e+01 1bl1 j.15.1.1 46154 1zglP 249 8.93e+01