# 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 1vin 268 6.93e-26 1vin a.74.1.1,a.74.1.1 18354,18355 2cchB 260 2.78e-25 1qmzB 259 3.29e-25 1vin a.74.1.1,a.74.1.1 18338,18339 1kxu 333 3.98e-22 1jkw a.74.1.1,a.74.1.1 18358,18359 1jkw 323 4.42e-22 1jkw a.74.1.1,a.74.1.1 18356,18357 1w98B 283 6.05e-18 1g3nC 257 1.27e-12 1bu2A a.74.1.1,a.74.1.1 18366,18367 1bu2A 229 1.55e-12 1bu2A a.74.1.1,a.74.1.1 18360,18361 1c9bA 207 2.61e-10 1tfb a.74.1.2,a.74.1.2 18372,18373 1volA 204 1.12e-09 1tfb a.74.1.2,a.74.1.2 18370,18371 1f5qB 252 3.75e-09 1f5qB a.74.1.1,a.74.1.1 18362,18363 1tfb 208 1.01e-08 1tfb a.74.1.2,a.74.1.2 18382,18383 1d3uB 201 2.08e-07 1aisB a.74.1.2,a.74.1.2 18386,18387 1aisB 200 3.55e-07 1aisB a.74.1.2,a.74.1.2 18384,18385 1atu 374 1.56e-01 1ovaA e.1.1.1 42636 1qlpA 394 3.97e-01 1ovaA e.1.1.1 42628 9apiA 347 6.99e-01 1ovaA e.1.1.1 42630 1wmaA 276 1.25e+00 1c3pA 375 2.29e+00 1c3pA c.42.1.2 32606 1fkx 349 2.61e+00 1a4mA c.1.9.1 29018 1y75A 118 2.90e+00 1a4mA 349 3.13e+00 1a4mA c.1.9.1 29014 2bsjA 133 3.65e+00 1add 349 3.66e+00 1a4mA c.1.9.1 29020 1guxB 152 3.86e+00 1guxB a.74.1.3 18389 1r29A 127 3.86e+00 d.42.1.1 96856 1kf6B 243 4.48e+00 a.1.2.1,d.15.4.2 72397,72398 4bp2 130 5.12e+00 1poa a.133.1.2 19584 1q6aA 107 5.17e+00 a.186.1.1 95966 1yxhA 126 5.48e+00 1r9dA 787 5.61e+00 c.7.1.1 104865 1u2xA 474 5.66e+00 c.72.1.3 107622 1v2zA 111 6.11e+00 a.186.1.1 108300 2dfkA 402 6.18e+00 2bshA 125 6.80e+00 1une 123 7.00e+00 1poa a.133.1.2 19583 1kvnA 104 7.20e+00 d.201.1.1 73066 1g4iA 123 7.73e+00 1poa a.133.1.2 60241 3nodB 423 8.87e+00 1nseA d.174.1.1 42513 1y75B 118 8.94e+00 1bn7A 294 9.62e+00 1bn6A c.69.1.8 34677 1r1hA 696 1.17e+01 d.92.1.4 104756 1qr6A 584 1.23e+01 1qr6A c.2.1.7,c.58.1.3 30293,33941 1cqwA 295 1.29e+01 1b6g c.69.1.8 34679 1v6tA 255 1.34e+01 1psyA 125 1.36e+01 a.52.1.3 95081 1ww8A 439 1.39e+01 1bn6A 294 1.39e+01 1bn6A c.69.1.8 34678 1h3nA 878 1.41e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1fjcA 96 1.45e+01 1fjcA d.58.7.1 39212 1oniA 137 1.54e+01 d.79.1.1 87144 1kshA 186 1.57e+01 c.37.1.8 72914 1opjA 293 1.61e+01 d.144.1.7 87230 1dmtA 696 1.70e+01 1dmtA d.92.1.4 40296 1u0mA 382 1.71e+01 c.95.1.2,c.95.1.2 107557,107558 1qahA 136 1.72e+01 d.79.1.1 96338 1cjbA 231 1.73e+01 1qk3A c.61.1.1 34079 1s6bB 119 1.75e+01 a.133.1.2 98593 1ctn 540 1.76e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 1poa 118 1.79e+01 1poa a.133.1.2 19514 1na6A 404 1.85e+01 b.142.1.1,c.52.1.22 91748,91749 1s6bA 119 1.85e+01 a.133.1.2 98592 1foaA 348 1.87e+01 1foaA c.68.1.10 59929 1jwhA 337 1.96e+01 d.144.1.7 71913 1hu4A 288 1.98e+01 1hu4A 1n5dA 288 2.03e+01 c.2.1.2 80030 1n6bA 473 2.06e+01 a.104.1.1 85359 1g8lA 411 2.06e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1tz9A 367 2.07e+01 c.1.15.6 107466 1gp7A 151 2.13e+01 a.133.1.2 76251 1qdlA 422 2.18e+01 1qdlA d.161.1.1 42088 1l9fA 389 2.22e+01 c.3.1.2,d.16.1.3 73716,73717 1iqpA 327 2.29e+01 a.80.1.1,c.37.1.20 62649,62650 2b33A 140 2.33e+01 1yioA 208 2.35e+01 1ir6A 424 2.38e+01 c.107.1.2 71342 1el5A 389 2.43e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1zxoA 291 2.44e+01 1tj9A 121 2.49e+01 a.133.1.2 107015 1tk4A 121 2.49e+01 a.133.1.2 107073 1fjeB 175 2.52e+01 1fj7A d.58.7.1,d.58.7.1 39210,39211 1hn4A 131 2.58e+01 a.133.1.2 65893 1edqA 540 2.67e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1fv0A 121 2.68e+01 a.133.1.2 70147 1yzfA 195 2.72e+01 1r59O 505 2.73e+01 1ae7 119 2.76e+01 1poa a.133.1.2 19553 2c2pA 199 2.83e+01 1p9qC 256 2.93e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1mku 123 2.93e+01 1poa a.133.1.2 19590 1kpmA 121 2.96e+01 a.133.1.2 72844 2g58A 121 2.97e+01 1as4A 341 2.98e+01 1sek e.1.1.1 42623 1s1hD 179 2.99e+01 i.1.1.1 105157 1a3d 119 3.01e+01 1poa a.133.1.2 19517 1b3mA 389 3.06e+01 1b3mA 1x0vA 354 3.07e+01 1sqzA 121 3.19e+01 a.133.1.2 98975 1zwpA 121 3.20e+01 1rrmA 386 3.35e+01 e.22.1.2 105081 1w9gA 104 3.38e+01 1fbnA 230 3.40e+01 1fbnA c.66.1.3 34181 1wz7A 111 3.40e+01 1w1iE 357 3.51e+01 c.1.9.1 109051 1g8sA 230 3.54e+01 c.66.1.3 90507 2c2qA 199 3.57e+01 1lnzA 342 3.60e+01 b.117.1.1,c.37.1.8 78112,78113 1yxlA 119 3.76e+01 1zd3A 555 3.80e+01 1vflA 356 3.81e+01 1vj5A 555 3.88e+01 c.108.1.2,c.69.1.11 100799,100800 1na3A 91 3.91e+01 k.38.1.1 85481 1dugA 234 3.93e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 7fd1A 106 3.97e+01 1a6l d.58.1.2 38953 1xngA 268 4.09e+01 1w2xA 758 4.16e+01 c.14.1.4,c.14.1.4 109134,109135 2bhoA 130 4.18e+01 1im2A 444 4.22e+01 1do0A c.37.1.20 62564 1vr0A 247 4.31e+01 1v1pA 211 4.33e+01 b.40.2.2,d.15.6.1 108268,108269 1yv5A 374 4.34e+01 1om4A 422 4.38e+01 d.174.1.1 87067 1wlsA 328 4.44e+01 1lqaA 346 4.45e+01 c.1.7.1 84674 1qdeA 224 4.46e+01 1qvaA c.37.1.19 32410 1ofhA 310 4.46e+01 c.37.1.20 86948 1gpeA 587 4.50e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1fo8A 343 4.55e+01 1foaA c.68.1.10 59927 1ctt 294 4.65e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1ac5 483 4.82e+01 1ac5 c.69.1.5 34653 1xi1A 575 4.83e+01 1ibrB 462 4.86e+01 1qgrA a.118.1.1 19120 1k9tA 540 4.88e+01 b.1.18.2,c.1.8.5,d.26.3.1 77298,77299,77300 1cr6B 554 4.96e+01 1cr6B c.69.1.11,c.108.1.2 34688,43338 1ar1A 558 5.00e+01 2occA f.24.1.1 43618 1fo9A 348 5.00e+01 1foaA c.68.1.10 59928 1fxpA 267 5.02e+01 1d9eA c.1.10.4 60106 1jr3A 373 5.11e+01 a.80.1.1,c.37.1.20 63245,63246 1so2A 420 5.22e+01 a.211.1.2 98936 1j1vA 94 5.24e+01 a.4.12.2 83981 1jcxA 267 5.30e+01 c.1.10.4 66510 2a7kA 250 5.31e+01 1sa3A 262 5.37e+01 c.52.1.23 105400 1jkeA 145 5.44e+01 c.110.1.1 66791 1h4lD 147 5.62e+01 a.74.1.1 70873 1bak 119 5.63e+01 1bak b.55.1.1 26973 1b6g 310 5.63e+01 1b6g c.69.1.8 34661 1p0kA 349 5.68e+01 c.1.4.1 87648 1e29A 135 5.70e+01 1e29A a.3.1.1 59161 1pe1A 267 5.71e+01 c.1.10.4 94591 1t95A 240 5.82e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1booA 323 5.95e+01 1booA c.66.1.11 34248 1ede 310 6.02e+01 1b6g c.69.1.8 34662 1unlD 208 6.06e+01 1w6kA 732 6.10e+01 1bc9 200 6.13e+01 1pbv a.118.3.1 19180 1nr6A 473 6.39e+01 a.104.1.1 92085 1wz8A 264 6.58e+01 1nu7D 282 6.61e+01 a.8.6.1,a.8.6.1 92191,92192 1j1bA 420 6.61e+01 d.144.1.7 90758 1yq7A 374 6.64e+01 1n0uA 842 6.65e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 2achA 360 6.72e+01 1c8oA e.1.1.1 42626 1fnsA 196 6.79e+01 1auq c.62.1.1 34136 2gx9A 129 6.91e+01 1fwsA 267 6.93e+01 1d9eA c.1.10.4 60063 1ta0A 197 6.94e+01 c.108.1.16 106729 1ymiA 334 7.03e+01 1n4qB 377 7.08e+01 a.102.4.3 91636 1l5xA 280 7.16e+01 c.106.1.1 77718 1zhaA 267 7.18e+01 1gab 53 7.19e+01 1gab a.8.1.2 16353 1fd2 106 7.22e+01 1a6l d.58.1.2 38962 1vliA 385 7.34e+01 b.85.1.1,c.1.10.6 108830,108831 1laxA 370 7.47e+01 c.94.1.1 84576 1b0vA 106 7.53e+01 1a6l d.58.1.2 38982 1jffB 445 7.62e+01 c.32.1.1,d.79.2.1 62934,62935 1t8xA 267 7.66e+01 1ffyA 917 7.67e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1qu2A 917 7.67e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16925,26890,31592 1mmvB 419 7.72e+01 d.174.1.1 91318 2aheA 267 7.77e+01 1gzqA 300 7.79e+01 b.1.1.2,d.19.1.1 70818,70819 1v54K 56 7.83e+01 f.23.5.1 100332 2occK 56 7.83e+01 2occK f.23.5.1 43525 1a2aA 122 7.91e+01 1poa a.133.1.2 19540 1bw9A 356 8.04e+01 1bw9A c.2.1.7,c.58.1.1 30274,33922 1umvX 122 8.06e+01 a.133.1.2 99630 1vjzA 341 8.08e+01 c.1.8.3 100838 1zpdA 568 8.09e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1h6zA 913 8.10e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1bunA 120 8.12e+01 1poa a.133.1.2 19614 1dt6A 473 8.43e+01 1dt6A a.104.1.1 18977 1c1dA 355 8.46e+01 1bw9A c.2.1.7,c.58.1.1 30270,33918 1kmdA 117 8.47e+01 d.189.1.1 72744 1xzoA 174 8.47e+01 1qqfA 277 8.52e+01 1c3d a.102.4.4 18875 1gxmA 332 8.52e+01 a.102.5.1 76371 1fkqA 124 8.57e+01 3lzt d.2.1.2 36601 1i4nA 251 8.57e+01 c.1.2.4 71114 1qc7A 101 8.65e+01 1qc7A a.118.14.1 18456 1f6yA 262 8.79e+01 1f6yA c.1.21.2 29673 1j7gA 144 8.79e+01 c.110.1.1 84130 1g01A 364 8.89e+01 7a3hA c.1.8.3 60161 1e94F 449 8.94e+01 1do0A c.37.1.20 32443