# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 2g0qA 173 8.43e-05 1vkbA 161 8.71e-05 d.269.1.1 108643 1v30A 124 1.77e-03 1eejA 216 5.28e-01 1eejA c.47.1.9,d.17.3.1 33057,38071 1wfuA 120 1.12e+00 1qwtA 255 2.06e+00 b.26.1.3 96501 1zs7A 190 4.32e+00 1m2oA 768 4.40e+00 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 2ab5A 269 4.63e+00 1ubi 76 4.78e+00 1ubi d.15.1.1 37584 1ubq 76 4.78e+00 1ubi d.15.1.1 37585 1nbfD 76 4.79e+00 d.15.1.1 80390 1ogwA 76 4.81e+00 d.15.1.1 87001 1kqaA 203 5.49e+00 b.81.1.3 72868 1krrA 203 5.49e+00 b.81.1.3 72899 1es9A 232 5.66e+00 1wab c.23.10.3 31340 2bs9A 503 5.75e+00 1g5cA 170 6.15e+00 1g5cA c.53.2.1 60264 2eiaB 206 6.26e+00 1eia a.28.3.1,a.73.1.1 16950,18330 2bfgA 503 6.30e+00 1d3zA 76 6.33e+00 1ubi d.15.1.1 37592 1z94A 147 6.40e+00 2d1eA 248 6.64e+00 1p32C 209 7.21e+00 1p32A d.25.1.1 38381 2cx1A 187 7.35e+00 2fvgA 340 7.90e+00 1wab 232 8.43e+00 1wab c.23.10.3 31341 1qr7A 350 8.75e+00 1qr7A c.1.10.4 29191 1ukuA 102 8.83e+00 d.58.5.2 99533 1yl31 118 9.08e+00 1v9nA 360 9.51e+00 1ecmA 109 9.66e+00 1ecmA a.130.1.1 19492 1uv4A 293 9.73e+00 1p0yA 444 1.01e+01 a.166.1.1,b.85.7.3 87654,87655 1qfhA 212 1.04e+01 1qfhA b.1.18.10,b.1.18.10 21893,21894 1m4zA 238 1.09e+01 b.34.12.1 78630 1gg1A 350 1.12e+01 1qr7A c.1.10.4 29187 1fggA 261 1.14e+01 1fggA c.68.1.7 34576 1n8fA 350 1.15e+01 c.1.10.4 85397 1kwsA 261 1.16e+01 c.68.1.7 73083 1mlvA 444 1.33e+01 a.166.1.1,b.85.7.3 79283,79284 2fkbA 180 1.35e+01 1b34A 119 1.38e+01 1d3bA b.38.1.1 24796 1luzA 88 1.39e+01 b.40.4.5 74271 1qo7A 394 1.39e+01 1qo7A c.69.1.11 34697 2fl7A 232 1.53e+01 1uxzA 131 1.56e+01 b.18.1.10 100170 1zz1A 369 1.56e+01 1y2qA 143 1.57e+01 2h21A 440 1.59e+01 1i1iP 681 1.72e+01 1i1iP d.92.1.5 40297 3rnt 104 1.73e+01 9rnt d.1.1.4 36069 1blxA 326 1.74e+01 1hcl d.144.1.7 41596 2cab 261 1.76e+01 2cba b.74.1.1 27906 1yj1A 76 1.79e+01 1z4rA 168 1.79e+01 2foyA 260 1.83e+01 1g4uS 383 1.86e+01 1g4uS a.24.11.1,c.45.1.2 16643,32691 1nnwA 252 1.91e+01 d.159.1.5 80674 1q3iA 214 1.92e+01 d.220.1.1 104524 1hcb 260 1.92e+01 2cba b.74.1.1 27814 1ejrC 567 2.10e+01 1ubpC b.92.1.1,c.1.9.2 28420,29042 2g8yA 385 2.20e+01 2gasA 307 2.23e+01 2ffsA 157 2.25e+01 1b2vA 188 2.25e+01 1b2vA d.35.1.1 38532 1v0aA 178 2.30e+01 1fwcC 567 2.36e+01 1ubpC b.92.1.1,c.1.9.2 28410,29032 1wveC 80 2.39e+01 1an7A 136 2.40e+01 1seiA d.140.1.1 41465 1diiC 80 2.43e+01 1diiC a.3.1.1 15925 1ejxC 567 2.47e+01 b.92.1.1,c.1.9.2 83184,83185 1fsu 492 2.47e+01 1auk c.76.1.2 35032 1a5mC 566 2.50e+01 1ubpC b.92.1.1,c.1.9.2 28423,29045 1a5lC 566 2.51e+01 1ubpC b.92.1.1,c.1.9.2 28426,29048 1a5kC 566 2.51e+01 1ubpC b.92.1.1,c.1.9.2 28425,29047 1i0vA 104 2.52e+01 9rnt d.1.1.4 36054 9rnt 104 2.62e+01 9rnt d.1.1.4 36055 2a5hA 416 2.64e+01 1k0sA 151 2.70e+01 b.40.7.1 67969 1dq3A 454 2.86e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1i7fA 292 2.94e+01 1i7fA d.193.1.1 61888 2f02A 323 3.01e+01 2awdA 323 3.02e+01 1rpa 342 3.03e+01 1cviA c.60.1.2 33983 2fn0A 437 3.10e+01 1n7zA 334 3.11e+01 b.127.1.1 85380 1khbA 625 3.16e+01 c.91.1.1,c.109.1.1 68606,68607 1dk0A 188 3.24e+01 1b2vA d.35.1.1 38530 1p32A 209 3.29e+01 1p32A d.25.1.1 38379 1xkrA 206 3.29e+01 1dmwA 307 3.29e+01 4pah d.178.1.1 42580 1h65A 270 3.30e+01 c.37.1.8 65640 1a43 87 3.31e+01 1a8o a.28.3.1 16955 1pah 308 3.35e+01 4pah d.178.1.1 42578 1q9uA 130 3.37e+01 d.129.7.1 96314 1agnA 373 3.41e+01 2ohxA b.35.1.2,c.2.1.1 24737,29753 1h09A 338 3.42e+01 b.109.1.1,c.1.8.8 83420,83421 1pbp 321 3.43e+01 1ixh c.94.1.1 35768 1qusA 322 3.43e+01 1ltm d.2.1.6 36991 1pjzA 203 3.49e+01 c.66.1.36 94794 1j8uA 325 3.49e+01 d.178.1.1 71611 2f6kA 307 3.50e+01 1cz4A 185 3.54e+01 1cz4A b.52.2.3,d.31.1.1 26934,38468 1eexB 224 3.58e+01 1dioB c.51.3.1 33213 1n00A 321 3.60e+01 a.65.1.1 85241 1fadA 99 3.64e+01 1fadA a.77.1.2 18428 1ykdA 398 3.64e+01 1hw7A 255 3.66e+01 1i7fA d.193.1.1 61297 1ei9A 279 3.67e+01 1ei9A c.69.1.13 34713 1bu5A 147 3.83e+01 5nul c.23.5.1 31155 1ltm 320 3.84e+01 1ltm d.2.1.6 36992 1tcvA 287 3.90e+01 4pah 308 3.91e+01 4pah d.178.1.1 42576 1pp7U 131 3.96e+01 a.4.5.44 94973 1ux8A 132 3.98e+01 1jb0D 138 4.01e+01 1jb0D d.187.1.1 62823 1ghpA 258 4.06e+01 1btl e.3.1.1 60520 1j0dA 341 4.07e+01 c.79.1.1 83902 2acaA 189 4.08e+01 3blm 257 4.19e+01 1btl e.3.1.1 42709 2bkrB 77 4.20e+01 1dioB 224 4.33e+01 1dioB c.51.3.1 33219 1am3 70 4.41e+01 1nvmB 312 4.44e+01 c.2.1.3,d.81.1.1 86251,86252 1pioA 257 4.44e+01 1btl e.3.1.1 42719 1a8o 70 4.50e+01 1a8o a.28.3.1 16953 1nd6A 354 4.52e+01 c.60.1.2 80407 1sqiA 393 4.58e+01 d.32.1.3,d.32.1.3 105914,105915 2cfeA 162 4.60e+01 1k8wA 327 4.61e+01 b.122.1.1,d.265.1.2 83094,90388 1pq4A 291 4.64e+01 c.92.2.2 94995 1offA 97 4.76e+01 d.15.4.1 86947 1byfA 125 4.82e+01 1byfA d.169.1.1 42419 1tlgA 125 4.82e+01 1byfA d.169.1.1 42421 1ukkA 142 4.86e+01 d.227.1.1 99491 1r5tA 142 4.95e+01 c.97.1.1 104812 1ffkK 186 5.06e+01 1ffkK c.55.4.1 33731 1dqqA 214 5.15e+01 8fabA b.1.1.1,b.1.1.2 20420,21390 1c0nA 406 5.16e+01 1c0nA c.67.1.3 34433 1pv0A 46 5.22e+01 a.2.12.1 95141 1ib2A 349 5.33e+01 1ib2A a.118.1.8 62141 1z6nA 167 5.35e+01 1nddD 76 5.35e+01 1ubi d.15.1.1 37602 1baj 101 5.35e+01 1a8o a.28.3.1 16954 1nc5A 373 5.37e+01 a.102.1.6 85548 1iqzA 81 5.40e+01 d.58.1.4 66281 1d2pA 373 5.42e+01 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1lnzA 342 5.49e+01 b.117.1.1,c.37.1.8 78112,78113 1aum 70 5.50e+01 1a8o a.28.3.1 16957 1pty 321 5.67e+01 1pty c.45.1.2 32656 1g4wR 383 5.68e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1bvyF 191 5.71e+01 1bvyF c.23.5.1 31207 1peeA 180 5.74e+01 b.60.1.1 104126 1nddA 76 5.76e+01 1ubi d.15.1.1 37599 1s72N 187 5.76e+01 c.55.4.1 105333 1r9kA 172 5.83e+01 a.168.1.1 104869 1q08A 99 5.83e+01 a.6.1.3 95497 1vqoN 187 5.85e+01 1eeoA 321 5.94e+01 1pty c.45.1.2 32655 1bs0A 384 5.94e+01 1bs0A c.67.1.4 34490 1jj2M 186 5.97e+01 1ffkK c.55.4.1 63098 1ml8A 134 6.04e+01 d.227.1.2 85013 1vjeA 166 6.05e+01 d.185.1.2 100807 1aax 321 6.09e+01 1pty c.45.1.2 32657 1yo8A 634 6.10e+01 1i37A 260 6.18e+01 1a28A a.123.1.1 61583 1gzsB 165 6.21e+01 a.168.1.1 76425 1y9kA 157 6.23e+01 2fb7A 95 6.25e+01 1innA 166 6.32e+01 1j98A d.185.1.2 62608 1guzA 310 6.34e+01 c.2.1.5,d.162.1.1 65586,65587 1bw0A 416 6.35e+01 1bw0A c.67.1.1 34385 1cviA 342 6.35e+01 1cviA c.60.1.2 33989 2fgeA 995 6.36e+01 1uyrA 737 6.40e+01 c.14.1.4,c.14.1.4 100188,100189 1od2A 805 6.41e+01 c.14.1.4,c.14.1.4 86821,86822 1ot5A 477 6.41e+01 b.18.1.20,c.41.1.1 87409,87410 1nnvA 110 6.42e+01 d.17.7.1 92012 1r64A 481 6.53e+01 b.18.1.20,c.41.1.1 97140,97141 1ji6A 589 6.54e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1l3lA 234 6.56e+01 a.4.6.2,d.110.5.1 73541,73542 1uy4A 145 6.60e+01 b.18.1.10 108131 1wduA 245 6.66e+01 d.151.1.1 109286 1dgwX 79 6.67e+01 1caxB b.82.1.2 28091 2aqwA 332 6.68e+01 1olrA 224 6.71e+01 b.29.1.11 93330 1vjuA 309 6.75e+01 d.248.1.1 100835 1h2kA 349 6.77e+01 b.82.2.6 76572 1pmhX 185 6.78e+01 b.18.1.18 104193 1bxoA 323 6.79e+01 2er7E b.50.1.2 26805 2a1kA 233 6.87e+01 2atzA 180 6.91e+01 1oaiA 59 6.95e+01 a.5.2.3 81255 2f71A 298 6.95e+01 2fkiA 126 7.08e+01 2hpaA 342 7.11e+01 1cviA c.60.1.2 33985 1b5eA 246 7.12e+01 1b5eA d.117.1.1 41056 1a5y 330 7.14e+01 1pty c.45.1.2 32673 1jf9A 408 7.20e+01 1c0nA c.67.1.3 62931 1yn9A 169 7.24e+01 1p5hA 428 7.26e+01 c.123.1.1 87802 1pcxA 810 7.31e+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 1kekA 1231 7.33e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1il6 185 7.34e+01 1alu a.26.1.1 16827 1akr 147 7.37e+01 1rcf c.23.5.1 31152 1epwA 1290 7.42e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1e8yA 966 7.46e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1nepA 130 7.60e+01 b.1.18.7 80440 1pg4A 652 7.65e+01 e.23.1.1 88067 1dysA 348 7.73e+01 1bvwA c.6.1.1 30669 1z7dA 433 7.75e+01 1ln1A 214 7.81e+01 d.129.3.2 74038 1euoA 180 7.83e+01 1np1A b.60.1.1 27163 1b0pA 1231 7.83e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 1gk8A 475 7.84e+01 c.1.14.1,d.58.9.1 65234,65235 1mzeA 351 7.90e+01 b.82.2.6 79694 1koiA 184 7.93e+01 b.60.1.1 68725 2c3mA 1231 8.01e+01 1y43B 173 8.04e+01 1vi2A 300 8.08e+01 c.2.1.7,c.58.1.5 100726,100727 1uacL 107 8.10e+01 b.1.1.1 99133 1lfpA 249 8.13e+01 e.39.1.1 73885 1ejjA 511 8.20e+01 1ejjA c.105.1.1,c.76.1.3 59422,59423 1tu1A 148 8.22e+01 d.107.1.3 107316 1wddA 477 8.22e+01 2fdsA 352 8.22e+01 1a40 321 8.25e+01 1ixh c.94.1.1 35767 1mw7A 240 8.37e+01 e.39.1.1 79557 2b49A 287 8.43e+01 1d3yA 301 8.49e+01 1d3yA e.12.1.1 43252 1ay1H 213 8.51e+01 1igtB b.1.1.1,b.1.1.2 20243,21255 1cixA 44 8.58e+01 g.3.6.2 70066 1lc5A 364 8.59e+01 c.67.1.1 73827 1hrnA 337 8.60e+01 1smrA b.50.1.2 26869 1pm1X 180 8.65e+01 b.60.1.1 104189 1qcsA 211 8.65e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1f2dA 341 8.68e+01 1f2dA c.79.1.1 35298 1huvA 380 8.78e+01 c.1.4.1 61277 1azl 147 8.79e+01 5nul c.23.5.1 31154 1lurA 339 8.89e+01 b.30.5.4 84717 1xyzA 347 8.90e+01 1taxA c.1.8.3 28804 1ixh 321 8.91e+01 1ixh c.94.1.1 35761 1rbp 182 8.95e+01 1aqb b.60.1.1 27085 1jmvA 141 8.96e+01 c.26.2.4 66897