# List of top-scoring protein chains for T0338.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 2g9xB 262 3.61e-29 1vin 268 3.63e-29 1vin a.74.1.1,a.74.1.1 18354,18355 1h1rB 258 7.45e-29 a.74.1.1,a.74.1.1 76490,76491 2c5nB 259 7.47e-29 1e9hB 261 7.47e-29 a.74.1.1,a.74.1.1 64813,64814 1oiuB 260 7.49e-29 a.74.1.1,a.74.1.1 103959,103960 2cchB 260 7.50e-29 1vywB 265 7.60e-29 a.74.1.1,a.74.1.1 108923,108924 1jkw 323 2.23e-24 1jkw a.74.1.1,a.74.1.1 18356,18357 1kxu 333 2.23e-24 1jkw a.74.1.1,a.74.1.1 18358,18359 1zp2A 235 7.83e-21 1w98B 283 1.24e-19 1g3nC 257 7.01e-12 1bu2A a.74.1.1,a.74.1.1 18366,18367 1xo2A 254 9.30e-12 1bu2A 229 1.18e-11 1bu2A a.74.1.1,a.74.1.1 18360,18361 1c9bA 207 1.95e-09 1tfb a.74.1.2,a.74.1.2 18372,18373 1tfb 208 1.95e-09 1tfb a.74.1.2,a.74.1.2 18382,18383 1volA 204 7.02e-09 1tfb a.74.1.2,a.74.1.2 18370,18371 1f5qB 252 6.41e-08 1f5qB a.74.1.1,a.74.1.1 18362,18363 1d3uB 201 5.19e-05 1aisB a.74.1.2,a.74.1.2 18386,18387 1aisB 200 5.21e-05 1aisB a.74.1.2,a.74.1.2 18384,18385 1ecfA 504 2.45e-01 1ecfB c.61.1.1,d.153.1.1 34053,41820 2fwuA 157 6.45e-01 1uufA 369 1.30e+00 b.35.1.2,c.2.1.1 100006,100007 1fkx 349 1.50e+00 1a4mA c.1.9.1 29018 1fkw 349 1.56e+00 1a4mA c.1.9.1 29019 1uio 349 1.56e+00 1a4mA c.1.9.1 29021 1a4mA 349 1.57e+00 1a4mA c.1.9.1 29014 2ada 352 1.57e+00 1a4mA c.1.9.1 29027 1uip 349 1.64e+00 1a4mA c.1.9.1 29022 1g5hA 454 2.12e+00 1g5hA c.51.1.1,d.104.1.1 60270,60271 2c27A 315 2.48e+00 1p0hA 318 2.49e+00 d.108.1.1 93866 1u2xA 474 3.60e+00 c.72.1.3 107622 2d26A 358 3.90e+00 1iz2A 394 4.01e+00 e.1.1.1 76975 1ophA 394 4.03e+00 e.1.1.1 93404 1atu 374 4.32e+00 1ovaA e.1.1.1 42636 1urhA 280 4.37e+00 c.46.1.2,c.46.1.2 99829,99830 1gpeA 587 4.66e+00 1gpeA c.3.1.2,d.16.1.1 30387,37951 1s16A 390 4.67e+00 d.14.1.3,d.122.1.2 98331,98332 1yzfA 195 4.77e+00 1tw6A 133 6.20e+00 1kct 394 7.09e+00 1ovaA e.1.1.1 42637 1ukcA 522 8.05e+00 c.69.1.17 107911 1w36C 1122 9.03e+00 1hp7A 394 1.00e+01 1ovaA e.1.1.1 61117 1oxnA 140 1.13e+01 g.52.1.1 93704 1xaxA 154 1.34e+01 2gfwA 427 1.43e+01 1ryyA 652 1.45e+01 1nx9A 652 1.48e+01 b.18.1.13,c.69.1.21 92285,92286 2b9vA 652 1.51e+01 1qxlA 356 1.51e+01 c.1.9.1 104644 1w1iE 357 1.51e+01 c.1.9.1 109051 2gfyA 427 1.57e+01 1kas 412 1.57e+01 1dd8A c.95.1.1,c.95.1.1 35964,35965 2awfA 172 1.60e+01 2gfvA 427 1.61e+01 2bgnE 363 1.62e+01 1jr3A 373 1.69e+01 a.80.1.1,c.37.1.20 63245,63246 1vflA 356 1.75e+01 1kf6B 243 1.76e+01 a.1.2.1,d.15.4.2 72397,72398 1jd5A 124 1.81e+01 g.52.1.1 66544 1rioH 73 1.89e+01 a.4.13.2 97515 1ku3A 73 2.22e+01 a.4.13.2 73000 1y8qA 346 2.23e+01 1kxf 264 2.32e+01 1svpA b.47.1.3 26380 1xxiB 368 2.38e+01 1ld4A 264 2.48e+01 i.6.1.1 77886 1xfbA 365 2.94e+01 1gz3A 554 2.98e+01 c.2.1.7,c.58.1.3 83393,83394 1v1pA 211 3.00e+01 b.40.2.2,d.15.6.1 108268,108269 1nlnA 204 3.08e+01 d.3.1.7 91962 1vr0A 247 3.32e+01 1r29A 127 3.33e+01 d.42.1.1 96856 1uocA 289 3.39e+01 c.55.3.9 99686 1dp2A 293 3.46e+01 1rhs c.46.1.2,c.46.1.2 32705,32706 1rhs 296 3.48e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1gz4A 551 3.49e+01 c.2.1.7,c.58.1.3 70794,70795 1yw3A 208 3.58e+01 1rt8A 513 3.63e+01 a.40.1.1 105095 1qr6A 584 3.64e+01 1qr6A c.2.1.7,c.58.1.3 30293,33941 1pj3A 564 3.64e+01 c.2.1.7,c.58.1.3 94726,94727 1qmnA 401 3.76e+01 1ovaA e.1.1.1 42624 1u83A 276 3.76e+01 c.1.27.1 107732 1q6aA 107 3.77e+01 a.186.1.1 95966 1dtvA 67 3.87e+01 1dtvA g.30.1.1 44963 1rhd 293 3.89e+01 1rhs c.46.1.2,c.46.1.2 32715,32716 1fdr 248 4.24e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1qoqB 396 4.31e+01 2tysB c.79.1.1 35271 1kfeB 394 4.39e+01 c.79.1.1 77374 1qopB 396 4.40e+01 2tysB c.79.1.1 35270 1kfcB 397 4.41e+01 c.79.1.1 77372 1ubsB 397 4.43e+01 2tysB c.79.1.1 35273 1a50B 396 4.43e+01 2tysB c.79.1.1 35280 1beuB 397 4.43e+01 2tysB c.79.1.1 35274 2tysB 397 4.44e+01 2tysB c.79.1.1 35272 1ttqB 397 4.44e+01 2tysB c.79.1.1 35268 1psi 394 4.53e+01 1ovaA e.1.1.1 42634 1ud3A 480 4.55e+01 b.71.1.1,c.1.8.1 88471,88472 1v2zA 111 4.58e+01 a.186.1.1 108300 2abzC 67 4.59e+01 1obbA 480 4.67e+01 c.2.1.5,d.162.1.2 86760,86761 1kxe 159 4.75e+01 1svpA b.47.1.3 26393 1k8yB 396 4.81e+01 c.79.1.1 72184 1vmaA 306 5.09e+01 a.24.13.1,c.37.1.10 108887,108888 1qapA 296 5.12e+01 1qpoA c.1.17.1,d.41.2.1 29559,38595 2trcP 217 5.12e+01 1b9yC c.47.1.6 33051 1fuyB 396 5.16e+01 2tysB c.79.1.1 35279 1efvA 315 5.61e+01 1efvA c.26.2.3,c.31.1.2 31633,31728 1e29A 135 5.67e+01 1e29A a.3.1.1 59161 2a1uA 333 5.72e+01 1a0rP 245 5.83e+01 1b9yC c.47.1.6 33054 2fxaA 207 5.83e+01 1x9mA 698 5.87e+01 1b9xC 246 5.92e+01 1b9yC c.47.1.6 33053 1iuz 98 5.96e+01 1plc b.6.1.1 22861 1zyqA 698 6.07e+01 1zk4A 251 6.10e+01 1zjyA 251 6.33e+01 1gmvA 143 6.37e+01 b.107.1.1,d.58.38.1 65343,65344 1ud2A 480 6.48e+01 b.71.1.1,c.1.8.1 88469,88470 1r8jA 289 6.55e+01 a.186.1.1,c.23.1.5 104847,104848 1kxc 159 6.56e+01 1svpA b.47.1.3 26391 1kxb 159 6.63e+01 1svpA b.47.1.3 26390 1kxd 159 6.64e+01 1svpA b.47.1.3 26392 1svpA 161 6.64e+01 1svpA b.47.1.3 26384 1kxa 159 6.68e+01 1svpA b.47.1.3 26383 1rocA 155 6.72e+01 b.1.22.1 97673 1zq1C 633 6.78e+01 2snwA 158 6.79e+01 1svpA b.47.1.3 26381 1a56 81 6.92e+01 451c a.3.1.1 15832 1qtwA 285 6.96e+01 1qumA c.1.15.1 29392 1crl 534 7.07e+01 1thg c.69.1.17 34765 1qmbA 326 7.25e+01 1ovaA e.1.1.1 42633 1v1pB 213 7.40e+01 b.40.2.2,d.15.6.1 108270,108271 1lpp 549 7.44e+01 1thg c.69.1.17 34764 1nrgA 261 7.46e+01 b.45.1.1 80694 1wykA 153 7.65e+01 1svpA b.47.1.3 26386 1dtdB 61 7.66e+01 1dtvA g.30.1.1 44962 1yxaA 398 7.69e+01 2esvE 240 7.77e+01 1zb9A 143 7.90e+01 1ks9A 291 8.14e+01 a.100.1.7,c.2.1.6 68857,68858 2bn4A 682 8.17e+01 1b9yC 246 8.21e+01 1b9yC c.47.1.6 33052 1qlpA 394 8.30e+01 1ovaA e.1.1.1 42628 2et6A 604 8.33e+01 7apiA 347 8.40e+01 1ovaA e.1.1.1 42631 1ttyA 87 8.48e+01 1yonA 303 8.54e+01 2snv 151 8.54e+01 1svpA b.47.1.3 26394 1d5sA 334 8.59e+01 e.1.1.1 42635 1qbhA 101 8.59e+01 1g3fA g.52.1.1 45374 1wg3A 175 8.61e+01 1tlhB 81 8.62e+01 1t95A 240 8.68e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 2aebA 322 8.75e+01 1ezxA 335 8.77e+01 1ovaA e.1.1.1 42629 1wvbA 322 8.81e+01 2afpA 129 9.00e+01 2afpA d.169.1.1 42349