# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 2.03e-06 1vkbA 161 4.87e-05 d.269.1.1 108643 1v30A 124 1.11e-03 1eejA 216 6.10e-01 1eejA c.47.1.9,d.17.3.1 33057,38071 1g5cA 170 6.65e-01 1g5cA c.53.2.1 60264 1wfuA 120 8.84e-01 2bfgA 503 1.78e+00 1m2oA 768 1.98e+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 1qo7A 394 2.46e+00 1qo7A c.69.1.11 34697 1pah 308 3.21e+00 4pah d.178.1.1 42578 4pah 308 3.22e+00 4pah d.178.1.1 42576 1dmwA 307 3.22e+00 4pah d.178.1.1 42580 1j8uA 325 3.43e+00 d.178.1.1 71611 2bs9A 503 3.61e+00 2eiaB 206 3.71e+00 1eia a.28.3.1,a.73.1.1 16950,18330 1es9A 232 3.96e+00 1wab c.23.10.3 31340 2ab5A 269 3.99e+00 1wab 232 4.00e+00 1wab c.23.10.3 31341 2fvgA 340 4.39e+00 1y2qA 143 4.40e+00 2cx1A 187 4.49e+00 1n7zA 334 5.37e+00 b.127.1.1 85380 1m4zA 238 5.86e+00 b.34.12.1 78630 1i1iP 681 6.10e+00 1i1iP d.92.1.5 40297 1qfhA 212 6.48e+00 1qfhA b.1.18.10,b.1.18.10 21893,21894 1zs7A 190 6.63e+00 1v9nA 360 6.80e+00 1ukuA 102 6.86e+00 d.58.5.2 99533 1n8fA 350 6.89e+00 c.1.10.4 85397 1gg1A 350 6.90e+00 1qr7A c.1.10.4 29187 1qr7A 350 7.03e+00 1qr7A c.1.10.4 29191 1qwtA 255 7.59e+00 b.26.1.3 96501 1ecmA 109 7.88e+00 1ecmA a.130.1.1 19492 1luzA 88 7.96e+00 b.40.4.5 74271 1ogwA 76 8.02e+00 d.15.1.1 87001 1pvxA 194 8.26e+00 1axkA b.29.1.11 24341 1ubi 76 8.30e+00 1ubi d.15.1.1 37584 1wddA 477 8.38e+00 1yl31 118 8.52e+00 1h65A 270 8.52e+00 c.37.1.8 65640 1ubq 76 8.82e+00 1ubi d.15.1.1 37585 1p32C 209 8.90e+00 1p32A d.25.1.1 38381 1n00A 321 9.04e+00 a.65.1.1 85241 1kqaA 203 9.13e+00 b.81.1.3 72868 1krrA 203 9.13e+00 b.81.1.3 72899 1d3zA 76 9.22e+00 1ubi d.15.1.1 37592 1z94A 147 9.83e+00 1fggA 261 1.01e+01 1fggA c.68.1.7 34576 1gk8A 475 1.03e+01 c.1.14.1,d.58.9.1 65234,65235 1nbfD 76 1.05e+01 d.15.1.1 80390 1b5eA 246 1.08e+01 1b5eA d.117.1.1 41056 1q3iA 214 1.11e+01 d.220.1.1 104524 1uv4A 293 1.16e+01 1dioB 224 1.19e+01 1dioB c.51.3.1 33219 2d1eA 248 1.20e+01 3rnt 104 1.21e+01 9rnt d.1.1.4 36069 1eexB 224 1.24e+01 1dioB c.51.3.1 33213 2g8yA 385 1.24e+01 1an7A 136 1.30e+01 1seiA d.140.1.1 41465 1od2A 805 1.33e+01 c.14.1.4,c.14.1.4 86821,86822 9rnt 104 1.35e+01 9rnt d.1.1.4 36055 1b34A 119 1.36e+01 1d3bA b.38.1.1 24796 1cz4A 185 1.40e+01 1cz4A b.52.2.3,d.31.1.1 26934,38468 1am3 70 1.42e+01 8rucA 475 1.44e+01 1burA c.1.14.1,d.58.9.1 29339,39245 1pq4A 291 1.44e+01 c.92.2.2 94995 1dysA 348 1.47e+01 1bvwA c.6.1.1 30669 1i0vA 104 1.55e+01 9rnt d.1.1.4 36054 1mwsA 646 1.60e+01 d.17.4.5,d.175.1.1,e.3.1.1 79592,79593,79594 1odkA 235 1.61e+01 c.56.2.1 86863 1vqqA 646 1.65e+01 1z4rA 168 1.71e+01 1a8o 70 1.76e+01 1a8o a.28.3.1 16953 1i7fA 292 1.79e+01 1i7fA d.193.1.1 61888 2f6kA 307 1.82e+01 1aum 70 1.84e+01 1a8o a.28.3.1 16957 1mlvA 444 1.88e+01 a.166.1.1,b.85.7.3 79283,79284 1eia 207 1.88e+01 1eia a.28.3.1,a.73.1.1 16951,18331 2fl7A 232 1.89e+01 2h21A 440 1.95e+01 1c0aA 585 1.96e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 1blxA 326 1.99e+01 1hcl d.144.1.7 41596 1a43 87 2.00e+01 1a8o a.28.3.1 16955 1xyzA 347 2.02e+01 1taxA c.1.8.3 28804 2a5hA 416 2.08e+01 1diiC 80 2.14e+01 1diiC a.3.1.1 15925 1wveC 80 2.15e+01 1g4uS 383 2.19e+01 1g4uS a.24.11.1,c.45.1.2 16643,32691 1g4wR 383 2.21e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 2cab 261 2.24e+01 2cba b.74.1.1 27906 1pp7U 131 2.24e+01 a.4.5.44 94973 1j8rA 196 2.28e+01 1j8rA b.2.3.3 62745 1z7dA 433 2.37e+01 1fsu 492 2.41e+01 1auk c.76.1.2 35032 1r9kA 172 2.41e+01 a.168.1.1 104869 1innA 166 2.43e+01 1j98A d.185.1.2 62608 1mw7A 240 2.49e+01 e.39.1.1 79557 1gzsB 165 2.49e+01 a.168.1.1 76425 1b12A 248 2.50e+01 1b12A b.87.1.2 28388 1baj 101 2.50e+01 1a8o a.28.3.1 16954 1vjeA 166 2.50e+01 d.185.1.2 100807 1vi2A 300 2.52e+01 c.2.1.7,c.58.1.5 100726,100727 1ghpA 258 2.54e+01 1btl e.3.1.1 60520 1ukkA 142 2.57e+01 d.227.1.1 99491 1yr0A 175 2.64e+01 1pioA 257 2.65e+01 1btl e.3.1.1 42719 1ymiA 334 2.68e+01 2fgeA 995 2.70e+01 1ji6A 589 2.72e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1rpa 342 2.72e+01 1cviA c.60.1.2 33983 2foyA 260 2.72e+01 1u6mA 199 2.79e+01 1ffkK 186 2.79e+01 1ffkK c.55.4.1 33731 1j4aA 333 2.81e+01 c.2.1.4,c.23.12.1 71502,71503 1mwrA 646 2.82e+01 d.17.4.5,d.175.1.1,e.3.1.1 79586,79587,79588 1vqoN 187 2.86e+01 1s72N 187 2.91e+01 c.55.4.1 105333 1p0yA 444 2.93e+01 a.166.1.1,b.85.7.3 87654,87655 1r85A 379 2.96e+01 c.1.8.3 104839 1hizA 379 2.96e+01 c.1.8.3 65841 1burA 475 2.97e+01 1burA 1jj2M 186 2.98e+01 1ffkK c.55.4.1 63098 1fnmA 691 3.00e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 25709,32144,37546,39302,39303 2acaA 189 3.03e+01 1kn9A 249 3.05e+01 b.87.1.2 68699 2ffsA 157 3.09e+01 1khbA 625 3.12e+01 c.91.1.1,c.109.1.1 68606,68607 1t13A 158 3.13e+01 1m5q1 130 3.18e+01 1agnA 373 3.25e+01 2ohxA b.35.1.2,c.2.1.1 24737,29753 2b49A 287 3.26e+01 1v0aA 178 3.28e+01 1yemA 179 3.28e+01 1r61A 207 3.31e+01 c.8.8.1 97138 1jb0D 138 3.31e+01 1jb0D d.187.1.1 62823 1ospO 257 3.35e+01 1ospO b.76.1.1 27971 1pbwA 216 3.39e+01 1pbwA a.116.1.1 19103 2fx2 147 3.39e+01 1rcf c.23.5.1 31158 2f1rA 171 3.43e+01 1uxzA 131 3.46e+01 b.18.1.10 100170 1mt6A 280 3.50e+01 b.76.2.1,b.85.7.1 79446,79447 3blm 257 3.55e+01 1btl e.3.1.1 42709 1ejxC 567 3.62e+01 b.92.1.1,c.1.9.2 83184,83185 1k8wA 327 3.63e+01 b.122.1.1,d.265.1.2 83094,90388 1fx7A 230 3.63e+01 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 60088,60089,60090 2hpaA 342 3.67e+01 1cviA c.60.1.2 33985 1s4bP 674 3.70e+01 d.92.1.5 105252 1q08A 99 3.70e+01 a.6.1.3 95497 1tcvA 287 3.71e+01 1ejrC 567 3.74e+01 1ubpC b.92.1.1,c.1.9.2 28420,29042 1pty 321 3.74e+01 1pty c.45.1.2 32656 1offA 97 3.75e+01 d.15.4.1 86947 1yna 194 3.76e+01 1axkA b.29.1.11 24335 1fwcC 567 3.77e+01 1ubpC b.92.1.1,c.1.9.2 28410,29032 1wduA 245 3.78e+01 d.151.1.1 109286 1pv0A 46 3.83e+01 a.2.12.1 95141 1y9kA 157 3.88e+01 1efdN 266 4.01e+01 1efdN c.92.2.1 35597 1ux8A 132 4.11e+01 1a5mC 566 4.17e+01 1ubpC b.92.1.1,c.1.9.2 28423,29045 1a5kC 566 4.17e+01 1ubpC b.92.1.1,c.1.9.2 28425,29047 1a5lC 566 4.20e+01 1ubpC b.92.1.1,c.1.9.2 28426,29048 1p5zB 263 4.20e+01 c.37.1.1 87815 1k0sA 151 4.29e+01 b.40.7.1 67969 1qttA 117 4.29e+01 1a1x b.63.1.1 27516 1di0A 158 4.32e+01 1di0A c.16.1.1 30957 2ahrA 259 4.34e+01 1i7nA 309 4.34e+01 c.30.1.5,d.142.1.3 83681,83682 1a5y 330 4.38e+01 1pty c.45.1.2 32673 1qrjB 199 4.40e+01 1qrjB a.28.3.1 16952 1g2yA 32 4.43e+01 a.34.2.1 17003 1h09A 338 4.45e+01 b.109.1.1,c.1.8.8 83420,83421 1dar 691 4.50e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1dk0A 188 4.50e+01 1b2vA d.35.1.1 38530 1idrA 136 4.50e+01 1dlyA a.1.1.1 62301 1nwaA 203 4.53e+01 d.58.28.1 86295 1kijA 390 4.54e+01 d.14.1.3,d.122.1.2 72514,72515 1nepA 130 4.56e+01 b.1.18.7 80440 1g7fA 298 4.57e+01 1pty c.45.1.2 60330 1nnwA 252 4.58e+01 d.159.1.5 80674 1b2vA 188 4.61e+01 1b2vA d.35.1.1 38532 1b1zA 219 4.61e+01 3seb b.40.2.2,d.15.6.1 25216,37805 1nc5A 373 4.62e+01 a.102.1.6 85548 1w2iA 91 4.68e+01 d.58.10.1 109127 1fnuA 221 4.69e+01 3seb b.40.2.2,d.15.6.1 25212,37801 1xkrA 206 4.72e+01 1epwA 1290 4.78e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1m2rA 327 4.79e+01 d.144.1.7 84760 1om1A 332 4.80e+01 d.144.1.7 93347 1lpuA 332 4.80e+01 d.144.1.7 74177 1lp4A 332 4.82e+01 d.144.1.7 74170 1pa1A 310 4.86e+01 c.45.1.2 94404 1hcb 260 4.88e+01 2cba b.74.1.1 27814 1q3eA 207 4.92e+01 b.82.3.2 95669 2awdA 323 4.94e+01 1ykdA 398 4.95e+01 9pap 212 4.95e+01 1cs8A d.3.1.1 37006 2f02A 323 4.96e+01 1dq3A 454 5.02e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1g60A 260 5.03e+01 c.66.1.11 70151 1a12A 413 5.04e+01 1a12A b.69.5.1 27663 1sfp 114 5.16e+01 1sfp b.23.1.1 23895 1eeoA 321 5.20e+01 1pty c.45.1.2 32655 1lkcA 364 5.23e+01 c.67.1.1 73978 1uyrA 737 5.25e+01 c.14.1.4,c.14.1.4 100188,100189 1vkkA 154 5.25e+01 d.109.1.2 108669 1h3iA 293 5.30e+01 b.76.2.1,b.85.7.1 76635,76636 2ghjA 118 5.36e+01 1fjjA 159 5.37e+01 1fjjA b.17.1.2 59852 1ptvA 321 5.37e+01 1pty c.45.1.2 32665 1a0k 131 5.38e+01 3nul d.110.1.1 40892 1qd1A 325 5.46e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 2f71A 298 5.52e+01 1cqa 133 5.53e+01 3nul d.110.1.1 40890 1y7yA 74 5.63e+01 2hnp 321 5.66e+01 1pty c.45.1.2 32678 2fp1A 166 5.74e+01 2f6lA 166 5.77e+01 1vr9A 213 5.79e+01 3nul 130 5.80e+01 3nul d.110.1.1 40891 1d2pA 373 5.80e+01 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1wgwA 99 5.82e+01 1g8jA 825 5.84e+01 1g8jA b.52.2.2,c.81.1.1 26924,35332 1euoA 180 5.84e+01 1np1A b.60.1.1 27163 1neq 74 5.90e+01 1neq a.35.1.2 17063 1ln1A 214 5.94e+01 d.129.3.2 74038 1k0eA 453 5.99e+01 d.161.1.1 67938 1aax 321 5.99e+01 1pty c.45.1.2 32657 1w2xA 758 6.01e+01 c.14.1.4,c.14.1.4 109134,109135 1o98A 511 6.04e+01 c.105.1.1,c.76.1.3 86684,86685 2cioA 212 6.07e+01 1c0nA 406 6.07e+01 1c0nA c.67.1.3 34433 2g7gA 213 6.08e+01 1ef4A 55 6.10e+01 1ef4A a.4.11.1 16272 1yg9A 330 6.10e+01 1ur1A 378 6.17e+01 c.1.8.3 99804 2booA 247 6.24e+01 1byfA 125 6.26e+01 1byfA d.169.1.1 42419 1tlgA 125 6.26e+01 1byfA d.169.1.1 42421 1rbp 182 6.27e+01 1aqb b.60.1.1 27085 1qcsA 211 6.29e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1dgrV 79 6.30e+01 1caxB b.82.1.2 28099 1x24A 180 6.32e+01 1k3sA 113 6.32e+01 d.198.1.1 68120 1p32A 209 6.39e+01 1p32A d.25.1.1 38379 1bxoA 323 6.42e+01 2er7E b.50.1.2 26805 1iicA 422 6.44e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1h2kA 349 6.46e+01 b.82.2.6 76572 1f93E 32 6.47e+01 1f93E a.34.2.1 17013 1sat 471 6.52e+01 1sat b.80.7.1,d.92.1.6 28014,40300 1huvA 380 6.57e+01 c.1.4.1 61277 2fkbA 180 6.61e+01 1olrA 224 6.62e+01 b.29.1.11 93330 1pjzA 203 6.64e+01 c.66.1.36 94794 1jalA 363 6.66e+01 c.37.1.8,d.15.10.2 84138,84139 1lfpA 249 6.71e+01 e.39.1.1 73885 1p4cA 380 6.74e+01 c.1.4.1 94100 1lwyA 324 6.74e+01 a.96.1.3,d.129.1.2 78285,78286 1okhA 46 6.76e+01 g.13.1.1 93253 1lc5A 364 6.77e+01 c.67.1.1 73827 1af0A 471 6.79e+01 1sat b.80.7.1,d.92.1.6 28017,40301 2ftzA 284 6.81e+01 1wlqC 201 6.82e+01 a.4.5.52 109400 1n3gA 113 6.83e+01 d.204.1.1 79962 1jf9A 408 6.84e+01 1c0nA c.67.1.3 62931 2gfaA 119 6.87e+01 1uy4A 145 6.90e+01 b.18.1.10 108131 1m3qA 317 6.92e+01 a.96.1.3,d.129.1.2 91184,91185 1lxdA 100 6.96e+01 1lfdA d.15.1.5 37624 1ppn 212 6.97e+01 1cs8A d.3.1.1 37004 1pm1X 180 6.97e+01 b.60.1.1 104189 1wh2A 78 6.99e+01 1r9hA 135 6.99e+01 d.26.1.1 97260 1awd 94 6.99e+01 1awd d.15.4.1 37673 1khqA 212 7.03e+01 d.3.1.1 90964 1ot5A 477 7.07e+01 b.18.1.20,c.41.1.1 87409,87410 1npdA 288 7.08e+01 c.2.1.7,c.58.1.5 80681,80682 1peeA 180 7.11e+01 b.60.1.1 104126 1sqiA 393 7.11e+01 d.32.1.3,d.32.1.3 105914,105915 1lci 550 7.12e+01 1lci e.23.1.1 43349 2es9A 115 7.12e+01 1iqzA 81 7.16e+01 d.58.1.4 66281 2av4A 162 7.17e+01 1dgrN 79 7.19e+01 1caxB 1hw7A 255 7.22e+01 1i7fA d.193.1.1 61297 1ebmA 317 7.30e+01 1ebmA a.96.1.3,d.129.1.2 18751,41300 1w8oA 601 7.30e+01 1l2lA 457 7.33e+01 c.72.1.3 77656 1p0zA 131 7.35e+01 d.110.6.1 93882 1z6nA 167 7.46e+01 1a6o 332 7.59e+01 1a6o 1vjuA 309 7.59e+01 d.248.1.1 100835 1r64A 481 7.63e+01 b.18.1.20,c.41.1.1 97140,97141 1m6yA 301 7.65e+01 a.60.13.1,c.66.1.23 78716,78717 2c3mA 1231 7.68e+01 1lktA 104 7.72e+01 1lktA b.90.1.1 28398 1em2A 229 7.74e+01 1em2A d.129.3.2 41321 1qniA 581 7.76e+01 1qniA b.6.1.4,b.69.3.1 23042,27642 2c5qA 240 7.79e+01 1tu1A 148 7.79e+01 d.107.1.3 107316 1pmhX 185 7.81e+01 b.18.1.18 104193 1kekA 1231 7.82e+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 2gcuA 245 7.83e+01 2grrA 161 7.83e+01 1eh2 106 7.87e+01 1eh2 a.39.1.6 17339 1lnzA 342 7.87e+01 b.117.1.1,c.37.1.8 78112,78113 2fcpA 723 7.88e+01 1by5A f.4.3.3 43802 1fm4A 159 7.89e+01 1bv1 d.129.3.1 76186 2fh7A 595 7.89e+01 1f6kA 293 7.90e+01 1nal3 c.1.10.1 29081 1xyiA 66 7.92e+01 1u9tA 354 7.92e+01 2aqwA 332 8.03e+01 1u9aA 160 8.03e+01 1u9aA d.20.1.1 38333 2f7tA 227 8.06e+01 1yj1A 76 8.07e+01 1dgwX 79 8.07e+01 1caxB b.82.1.2 28091 1h1aA 191 8.12e+01 b.29.1.11 83450 1bk1 184 8.14e+01 1axkA b.29.1.11 24340 1eqjA 511 8.16e+01 1ejjA c.105.1.1,c.76.1.3 59495,59496 1ejjA 511 8.28e+01 1ejjA c.105.1.1,c.76.1.3 59422,59423 1gdc 72 8.34e+01 2nllB g.39.1.2 45127 1uwzA 136 8.38e+01 c.97.1.1 108081 1xnkA 196 8.38e+01 1d3yA 301 8.44e+01 1d3yA e.12.1.1 43252 1mzeA 351 8.45e+01 b.82.2.6 79694 1rot 149 8.46e+01 1fkj d.26.1.1 38429 1l3lA 234 8.57e+01 a.4.6.2,d.110.5.1 73541,73542 1p1mA 406 8.57e+01 b.92.1.4,c.1.9.9 87696,87697 1joa 447 8.62e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30563,30564,40203 1akt 147 8.65e+01 5nul c.23.5.1 31157 1mo9A 523 8.66e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1h8lA 380 8.74e+01 b.3.2.1,c.56.5.1 65737,65738 2b3gA 123 8.75e+01 1yx1A 264 8.76e+01 1jtkA 136 8.80e+01 c.97.1.1 71862 1x9dA 538 8.81e+01 1axcA 261 8.86e+01 1plq d.131.1.2,d.131.1.2 41392,41393 1azl 147 8.88e+01 5nul c.23.5.1 31154 1kwsA 261 8.91e+01 c.68.1.7 73083 1b0pA 1231 8.92e+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 1vprA 374 8.95e+01 1p5hA 428 8.96e+01 c.123.1.1 87802 1akw 147 8.96e+01 5nul c.23.5.1 31153