# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1xv2A 237 1.69e-01 1vphA 149 8.80e-01 1vdxA 184 9.81e-01 1i1kA 309 1.48e+00 1daaA e.17.1.1 61533 1a3gA 308 1.73e+00 1daaA e.17.1.1 43286 1iyeA 309 2.31e+00 e.17.1.1 83786 1c7iA 489 3.27e+00 1thg c.69.1.1 34632 1vgjA 184 3.29e+00 1r6fA 310 3.62e+00 e.46.1.1 97149 1mioB 458 3.65e+00 1qguB c.92.2.3 35602 1wrvA 308 3.72e+00 2al3A 90 4.61e+00 2boqA 331 4.61e+00 1p5tA 127 4.88e+00 b.55.1.2 94148 1xngA 268 4.89e+00 1vcoA 550 5.01e+00 c.23.16.1,c.37.1.10 108508,108509 1jpaA 312 5.24e+00 d.144.1.7 67011 3daaA 277 6.31e+00 1daaA e.17.1.1 43272 1zwxA 301 7.31e+00 2f96A 224 7.54e+00 1lay 256 8.14e+00 1lay b.57.1.1 27014 1ys7A 233 8.30e+00 1gskA 513 8.92e+00 b.6.1.3,b.6.1.3,b.6.1.3 83314,83315,83316 1cs1C 386 9.25e+00 1ibjA c.67.1.3 34401 1a0gA 282 9.70e+00 1daaA e.17.1.1 43276 2gnxA 365 9.78e+00 2a5dA 175 1.02e+01 1vqrA 297 1.05e+01 1h05A 146 1.05e+01 c.23.13.1 76433 1ak1 310 1.07e+01 1ak1 c.92.1.1 35594 2dhqA 146 1.08e+01 2dhqA c.23.13.1 31382 1b1yA 500 1.11e+01 1byb c.1.8.1 28796 2dabA 282 1.12e+01 1daaA e.17.1.1 43274 1cs1A 386 1.26e+01 1ibjA c.67.1.3 34399 1u9cA 224 1.29e+01 1r8sA 164 1.31e+01 c.37.1.8 97247 1vmjA 151 1.36e+01 1o3yA 166 1.40e+01 c.37.1.8 86618 1xklA 273 1.57e+01 1j6oA 268 1.62e+01 c.1.9.12 77088 1qstA 160 1.66e+01 1yghA d.108.1.1 40804 1ln1A 214 1.72e+01 d.129.3.2 74038 1y9wA 140 1.73e+01 1ni9A 338 1.76e+01 e.7.1.2 85739 1hurA 180 1.86e+01 1hurA c.37.1.8 32052 1c3kA 147 1.97e+01 1jotA b.77.3.1 27984 1gqoF 143 1.99e+01 c.23.13.1 76300 1pt6A 213 2.00e+01 c.62.1.1 95091 1xp8A 366 2.02e+01 1daaA 282 2.08e+01 1daaA e.17.1.1 43270 1u32A 293 2.09e+01 d.159.1.3 107631 1gqoK 143 2.09e+01 c.23.13.1 76305 1sffA 426 2.10e+01 c.67.1.4 105482 1gqoS 143 2.10e+01 c.23.13.1 76313 1gqoM 143 2.13e+01 c.23.13.1 76307 1fjmA 330 2.17e+01 1auiA d.159.1.3 42082 1gqoN 143 2.19e+01 c.23.13.1 76308 2a5vA 213 2.20e+01 1iv0A 98 2.26e+01 c.55.3.8 90706 1z4rA 168 2.27e+01 1ym3A 215 2.28e+01 2fiqA 420 2.28e+01 1gqoL 143 2.31e+01 c.23.13.1 76306 2flsA 132 2.33e+01 2ac4A 309 2.36e+01 1jk7A 323 2.39e+01 1auiA d.159.1.3 63144 1b00A 127 2.39e+01 3chy c.23.1.1 31122 1fsyA 358 2.40e+01 1gceA e.3.1.1 60016 1gqoC 143 2.41e+01 c.23.13.1 76297 1hqkA 154 2.43e+01 c.16.1.1 65902 1pi4A 358 2.52e+01 e.3.1.1 94700 1gqoO 143 2.58e+01 c.23.13.1 76309 1hl9A 449 2.59e+01 b.71.1.3,c.1.8.11 90650,90651 1gqoU 143 2.60e+01 c.23.13.1 76315 1bif 469 2.62e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1gqoG 143 2.63e+01 c.23.13.1 76301 1c3mA 147 2.64e+01 1jotA b.77.3.1 27983 2cvjA 180 2.68e+01 1l0gA 358 2.70e+01 e.3.1.1 73400 1k4jA 230 2.75e+01 d.108.1.3 72057 2bb6A 414 2.77e+01 1xyzA 347 2.93e+01 1taxA c.1.8.3 28804 1gqoD 143 2.93e+01 c.23.13.1 76298 1gqoT 143 2.94e+01 c.23.13.1 76314 1qy1A 174 3.03e+01 b.60.1.1 96568 1qc5A 192 3.04e+01 1aoxA c.62.1.1 34147 1nv8A 284 3.07e+01 c.66.1.30 86224 2bifA 469 3.08e+01 1bif c.37.1.7,c.60.1.4 31963,34009 3bifA 468 3.09e+01 1bif c.37.1.7,c.60.1.4 31962,34008 1gqoV 143 3.12e+01 c.23.13.1 76316 1h7mA 102 3.13e+01 d.79.3.1 83485 2pfkA 320 3.22e+01 3pfk c.89.1.1 35577 1ub0A 258 3.41e+01 c.72.1.2 88394 1chmA 401 3.53e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1kvlA 358 3.61e+01 e.3.1.1 73062 1iq0A 592 3.61e+01 a.27.1.1,c.26.1.1,d.67.2.1 66257,66258,66259 1kzfA 230 3.62e+01 d.108.1.3 73354 1svcP 365 3.64e+01 1a3qA b.1.18.1,b.2.5.3 21924,22443 1zndA 174 3.65e+01 2ddrA 306 3.69e+01 1gqoQ 143 3.75e+01 c.23.13.1 76311 1gqoE 143 3.81e+01 c.23.13.1 76299 1g59A 468 3.81e+01 a.97.1.1,c.26.1.1 60257,60258 1kf6A 602 3.89e+01 a.7.3.1,c.3.1.4,d.168.1.1 72394,72395,72396 1jclA 260 3.91e+01 c.1.10.1 66501 1wn2A 121 4.00e+01 1vjzA 341 4.04e+01 c.1.8.3 100838 1f89A 291 4.08e+01 d.160.1.1 64988 1wdaA 670 4.12e+01 b.2.9.1,b.6.1.6,d.126.1.5 109243,109244,109245 2fug7 129 4.18e+01 1moq 368 4.20e+01 1moq c.80.1.1 35302 1yghA 164 4.25e+01 1yghA d.108.1.1 40802 5gcnA 166 4.26e+01 1yghA d.108.1.1 40807 1dozA 309 4.26e+01 1ak1 c.92.1.1 35592 1tz9A 367 4.27e+01 c.1.15.6 107466 1rwrA 301 4.29e+01 b.80.1.11 97990 1df3A 162 4.40e+01 1mup b.60.1.1 27134 1oxxK 353 4.40e+01 b.40.6.3,c.37.1.12 93715,93716 1z2lA 423 4.41e+01 1nwbA 124 4.43e+01 b.124.1.1 86296 2dexX 671 4.45e+01 1w6tA 444 4.45e+01 2a8lA 420 4.46e+01 1gqoX 143 4.51e+01 c.23.13.1 76317 1a3qA 285 4.58e+01 1a3qA b.1.18.1,b.2.5.3 21932,22447 1pv9A 348 4.61e+01 c.55.2.1,d.127.1.1 95157,95158 1pfkA 320 4.69e+01 3pfk c.89.1.1 35575 1p1xA 260 4.74e+01 c.1.10.1 104060 1oxsC 353 4.79e+01 b.40.6.3,c.37.1.12 87519,87520 1jv4A 162 4.79e+01 b.60.1.1 67343 1qe3A 489 4.81e+01 2bce c.69.1.1 34630 1gqoY 143 4.84e+01 c.23.13.1 76318 2pgd 482 4.86e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 2blsA 358 4.93e+01 1gceA e.3.1.1 42747 1gln 468 4.97e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1v6tA 255 4.98e+01 1hl8A 449 5.01e+01 b.71.1.3,c.1.8.11 90646,90647 1nfkA 325 5.06e+01 1a3qA b.1.18.1,b.2.5.3 21929,22444 1gqoB 143 5.07e+01 c.23.13.1 76296 1vmfA 145 5.08e+01 1xcrA 316 5.14e+01 1jcjA 260 5.25e+01 c.1.10.1 66499 1i8dA 213 5.28e+01 b.43.4.3,b.43.4.3 61953,61954 1yhtA 367 5.31e+01 1kmqA 184 5.34e+01 c.37.1.8 84412 1i06A 180 5.49e+01 1mup b.60.1.1 27131 1j09A 468 5.57e+01 a.97.1.1,c.26.1.1 77025,77026 3sdhA 146 5.75e+01 3sdhA a.1.1.2 14984 2b99A 156 5.76e+01 1a5kC 566 5.86e+01 1ubpC b.92.1.1,c.1.9.2 28425,29047 1r4aA 165 5.88e+01 c.37.1.8 96986 2mev2 256 5.98e+01 1aym2 1vc1A 110 6.02e+01 c.13.2.1 108493 2yhx 457 6.06e+01 2yhx i.12.1.1 46024 1wgmA 98 6.07e+01 1eyyA 510 6.09e+01 1eyyA c.82.1.1 35389 1akn 579 6.11e+01 2bce c.69.1.1 34626 1sr2A 116 6.11e+01 1i05A 180 6.14e+01 1mup b.60.1.1 27130 2ac2A 309 6.23e+01 1rfa 79 6.23e+01 1c1yB d.15.1.5 37620 6pfkA 319 6.24e+01 3pfk c.89.1.1 35583 1yioA 208 6.32e+01 1hizA 379 6.34e+01 c.1.8.3 65841 1oyzA 280 6.38e+01 a.118.1.16 93775 1jhb 106 6.41e+01 1kte c.47.1.1 32772 1wvhA 134 6.43e+01 1bn7A 294 6.45e+01 1bn6A c.69.1.8 34677 1kolA 398 6.55e+01 b.35.1.2,c.2.1.1 77474,77475 1tidB 119 6.69e+01 c.13.2.1 107000 1fwcC 567 6.86e+01 1ubpC b.92.1.1,c.1.9.2 28410,29032 1az9 457 6.91e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 1gqoR 143 6.96e+01 c.23.13.1 76312 1gqoH 143 7.01e+01 c.23.13.1 76302 1aqlA 532 7.07e+01 2bce c.69.1.1 34627 2eifA 136 7.15e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1q2yA 140 7.19e+01 d.108.1.1 95655 2aheA 267 7.29e+01 1broA 277 7.33e+01 1brt c.69.1.12 34700 3pfk 319 7.37e+01 3pfk c.89.1.1 35581 1r85A 379 7.39e+01 c.1.8.3 104839 1d9nA 75 7.47e+01 1d9nA d.10.1.3 37486 1xebA 150 7.48e+01 1a5mC 566 7.56e+01 1ubpC b.92.1.1,c.1.9.2 28423,29045 1kufA 203 7.62e+01 d.92.1.9 73007 1kugA 203 7.70e+01 d.92.1.9 73008 1vl4A 447 7.71e+01 d.283.1.1 108718 2ffyA 358 7.86e+01 2bce 581 7.90e+01 2bce c.69.1.1 34625 1vkcA 158 7.92e+01 1kqpA 271 7.97e+01 c.26.2.1 72883 1vjgA 218 7.97e+01 c.23.10.6 100810 1im5A 180 7.98e+01 c.33.1.3 66211 2cpl 165 8.07e+01 2cpl b.62.1.1 27420 2hnp 321 8.15e+01 1pty c.45.1.2 32678 1m0qA 433 8.16e+01 c.67.1.4 78350 1uk8A 282 8.19e+01 c.69.1.10 107907 1iupA 282 8.25e+01 c.69.1.10 76815 1ji7A 89 8.26e+01 a.60.1.1 71682 1siqA 392 8.36e+01 a.29.3.1,e.6.1.1 105585,105586 2basA 431 8.41e+01 1guaB 81 8.46e+01 1c1yB d.15.1.5 37619 1bn6A 294 8.49e+01 1bn6A c.69.1.8 34678 1w36D 608 8.49e+01 2fyxA 143 8.49e+01 1ejrC 567 8.53e+01 1ubpC b.92.1.1,c.1.9.2 28420,29042 1ez0A 510 8.62e+01 1eyyA c.82.1.1 35385 1w41A 101 8.73e+01 1va0A 239 8.75e+01 2f71A 298 8.87e+01 1hskA 326 8.91e+01 2mbr d.145.1.2,d.146.1.1 61241,61242 1wl9A 440 8.98e+01