# 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 1bllE 488 2.79e-60 1lam c.50.1.1,c.56.5.3 33170,33833 1lap 488 3.78e-60 1lam c.50.1.1,c.56.5.3 33171,33834 1lam 484 4.31e-60 1lam c.50.1.1,c.56.5.3 33166,33829 1ua4A 455 1.35e+00 c.72.1.3 99128 1zr5A 214 1.67e+00 1x13A 401 2.02e+00 1l5aA 436 2.03e+00 c.43.1.2,c.43.1.2 75923,75924 1hjrA 158 2.57e+00 1hjrA c.55.3.6 33727 1lrzA 426 2.96e+00 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1t1uA 639 3.09e+00 1yd9A 193 3.14e+00 1iloA 77 3.36e+00 c.47.1.1 66205 1spvA 184 3.79e+00 c.50.1.2 98957 1dpe 507 4.05e+00 1dpe c.94.1.1 35799 1tkjA 284 4.19e+00 1l2lA 457 4.40e+00 c.72.1.3 77656 1r5iD 216 4.64e+00 a.202.1.1 97091 2anpA 291 4.71e+00 1o4tA 133 4.79e+00 b.82.1.9 86622 1tf9A 284 4.87e+00 1amp 291 5.26e+00 1amp c.56.5.4 33837 1lokA 291 5.26e+00 c.56.5.4 78122 1yz4A 160 5.28e+00 1xjo 284 5.40e+00 1xjo c.56.5.4 33843 1i1rB 181 5.46e+00 1i1rB a.26.1.1 61548 1qq9A 284 5.49e+00 1xjo c.56.5.4 33841 1dppA 507 5.86e+00 1dpe c.94.1.1 35800 1uz5A 402 6.66e+00 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 2fh5A 185 7.64e+00 1bob 320 9.32e+00 1bob d.108.1.1 40816 2b0jA 358 9.54e+00 1bh9B 89 9.66e+00 1bh9B a.22.1.3 16485 1mp8A 281 9.88e+00 d.144.1.7 91384 1zq6A 359 1.13e+01 2fd5A 180 1.13e+01 1ortA 335 1.16e+01 1othA c.78.1.1,c.78.1.1 35204,35205 1yh1A 359 1.17e+01 2dpg 485 1.20e+01 1dpgA c.2.1.3,d.81.1.5 30076,39991 1ulyA 192 1.27e+01 2ajrA 331 1.32e+01 1d3uB 201 1.41e+01 1aisB a.74.1.2,a.74.1.2 18386,18387 1iw7C 1119 1.43e+01 e.29.1.1 71474 1a2yC 129 1.47e+01 3lzt d.2.1.2 36305 1lvhA 221 1.49e+01 c.108.1.6 74282 1k0iA 394 1.50e+01 c.3.1.2,d.16.1.2 67942,67943 1i4nA 251 1.59e+01 c.1.2.4 71114 2f5gA 133 1.60e+01 1vjuA 309 1.60e+01 d.248.1.1 100835 1qd1A 325 1.63e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1ve1A 304 1.68e+01 2f2hA 773 1.71e+01 1j1uA 306 1.72e+01 c.26.1.1 83980 1x6mA 196 1.77e+01 1ykjA 394 1.80e+01 1gjwA 637 1.81e+01 b.71.1.1,c.1.8.1 60582,60583 1ile 821 1.87e+01 1ile a.27.1.1,b.51.1.1,c.26.1.1 16924,26889,31591 1jse 129 1.90e+01 3lzt d.2.1.2 36387 1q74A 303 1.93e+01 c.134.1.1 96019 2ac5A 316 1.96e+01 1vkwA 218 1.98e+01 d.90.1.2 108695 1iygA 133 1.99e+01 a.118.8.1 76947 1ec7A 446 2.06e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1rtqA 299 2.09e+01 c.56.5.4 97819 1pbe 394 2.28e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1f7wA 144 2.30e+01 1f46A d.129.4.1 59679 1xsjA 778 2.31e+01 2f71A 298 2.34e+01 1lufA 343 2.38e+01 d.144.1.7 78223 1bgj 394 2.41e+01 1pbe c.3.1.2,d.16.1.2 30352,37883 2g5cA 281 2.51e+01 4matA 278 2.55e+01 1c24A d.127.1.1 41150 1xg2B 153 2.58e+01 1hmcB 148 2.59e+01 1hmcB a.26.1.2 16868 2cybA 323 2.70e+01 1qaxA 428 2.72e+01 1qaxA d.58.20.1,d.179.1.1 39376,42597 1g8iA 190 2.74e+01 1rec a.39.1.5 60363 1zejA 293 2.76e+01 1a5y 330 2.78e+01 1pty c.45.1.2 32673 1qayA 428 2.80e+01 1qaxA d.58.20.1,d.179.1.1 39378,42599 1n7kA 234 2.89e+01 c.1.10.1 85374 2ac2A 309 2.91e+01 2fflA 756 2.92e+01 1vkhA 273 2.94e+01 c.69.1.32 108662 1qusA 322 3.00e+01 1ltm d.2.1.6 36991 1f2hA 169 3.02e+01 1f3vA d.58.22.1 59612 2phh 394 3.03e+01 1pbe c.3.1.2,d.16.1.2 30353,37884 1j1bA 420 3.03e+01 d.144.1.7 90758 1vr6A 350 3.09e+01 1t0fA 276 3.09e+01 1o08A 221 3.13e+01 c.108.1.6 86525 1pa1A 310 3.21e+01 c.45.1.2 94404 1cuk 203 3.28e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1g7fA 298 3.28e+01 1pty c.45.1.2 60330 1v7wA 807 3.32e+01 a.102.1.4,b.30.5.3 108411,108412 2hnp 321 3.34e+01 1pty c.45.1.2 32678 1tr9A 341 3.39e+01 1fezA 256 3.42e+01 1fezA c.108.1.3 43343 1ptvA 321 3.47e+01 1pty c.45.1.2 32665 1skyE 473 3.47e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18314,26479,32359 1ltm 320 3.47e+01 1ltm d.2.1.6 36992 1obr 326 3.48e+01 1aye c.56.5.2 33828 1sviA 195 3.49e+01 c.37.1.8 106048 1pt6A 213 3.51e+01 c.62.1.1 95091 1cj3A 392 3.53e+01 1pbe c.3.1.2,d.16.1.2 30347,37878 1oltA 457 3.57e+01 c.1.28.2 93334 1f1zA 273 3.58e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1suwA 249 3.64e+01 e.52.1.1 106027 1m7bA 184 3.64e+01 c.37.1.8 74572 1dpgA 485 3.66e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1eljA 381 3.73e+01 4mbp c.94.1.1 35791 1tm9A 137 3.78e+01 a.225.1.1 107150 1r31A 428 3.79e+01 d.58.20.1,d.179.1.1 96897,96898 1im2A 444 3.80e+01 1do0A c.37.1.20 62564 1prn 289 3.85e+01 3prn f.4.3.1 43762 8prn 289 3.86e+01 3prn f.4.3.1 43767 1gw5M 435 3.91e+01 b.2.7.1,d.110.4.2 70631,70632 2a19A 175 3.95e+01 1gw1A 376 4.00e+01 c.1.8.3 76361 1v73A 342 4.02e+01 1noyA 388 4.03e+01 1clqA c.55.3.5 33713 1qs0B 338 4.05e+01 1qs0B c.36.1.7,c.48.1.2 31830,33103 1duvG 333 4.15e+01 1othA c.78.1.1,c.78.1.1 35228,35229 193l 129 4.32e+01 3lzt d.2.1.2 36247 1aax 321 4.33e+01 1pty c.45.1.2 32657 1bh3 289 4.35e+01 3prn f.4.3.1 43766 1f46A 140 4.43e+01 1f46A d.129.4.1 59643 1cg2A 393 4.49e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 1g71A 347 4.65e+01 1g71A d.264.1.1 43268 1odzA 386 4.66e+01 c.1.8.3 86889 1gpjA 404 4.66e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1eeoA 321 4.66e+01 1pty c.45.1.2 32655 2aelA 374 4.71e+01 1iezA 217 4.74e+01 d.115.1.2 66129 1njrA 284 4.90e+01 c.50.1.2 103858 1k42A 168 4.91e+01 b.18.1.14 72032 1nnlA 225 4.99e+01 c.108.1.4 85906 1jljA 189 4.99e+01 c.57.1.1 63169 1ibsA 317 4.99e+01 c.61.1.2,c.61.1.2 66107,66108 1pty 321 5.03e+01 1pty c.45.1.2 32656 1yvkA 163 5.07e+01 1r94A 118 5.13e+01 b.124.1.1 97251 1h1yA 228 5.14e+01 c.1.2.2 76506 1zsxA 347 5.23e+01 1oglA 283 5.30e+01 a.204.1.1 92922 1rkd 309 5.34e+01 1rkd c.72.1.1 34928 1j8mF 297 5.36e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1l9fA 389 5.40e+01 c.3.1.2,d.16.1.3 73716,73717 1q41A 424 5.42e+01 d.144.1.7 95774 1etu 394 5.47e+01 1efcA c.37.1.8 64737 1udxA 416 5.48e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1ihcA 188 5.50e+01 1di6A c.57.1.1 62379 1v1dA 31 5.57e+01 1b3mA 389 5.59e+01 1b3mA 1hs6A 611 5.60e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1l2tA 235 5.64e+01 c.37.1.12 73514 1f47B 144 5.70e+01 1f46A d.129.4.1 59645 1jfaA 374 5.75e+01 a.128.1.5 66622 2ihl 129 5.78e+01 3lzt d.2.1.2 36408 1skyB 502 5.82e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18313,26478,32358 1fmjA 351 5.87e+01 c.37.1.5 59879 1ohtA 215 5.92e+01 d.118.1.1 87036 1l2uA 245 5.95e+01 c.1.2.3 73516 1ivnA 190 5.97e+01 c.23.10.5 83719 1j9yA 385 6.03e+01 1j9yA c.1.8.3 62791 1fpxA 352 6.11e+01 1fpxA a.4.5.29,c.66.1.12 59950,59951 1s3jA 155 6.25e+01 a.4.5.28 98437 1txnA 328 6.26e+01 1j8yF 297 6.35e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 2hdhA 293 6.41e+01 2hdhA a.100.1.3,c.2.1.6 18795,30199 1rzmA 338 6.45e+01 c.1.10.4 105137 1e79A 510 6.50e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 4mbp 370 6.55e+01 4mbp c.94.1.1 35777 1g291 372 6.57e+01 1g291 1zlqA 502 6.63e+01 3prn 289 6.73e+01 3prn f.4.3.1 43761 2a6hC 1119 6.74e+01 2ck3A 510 6.74e+01 1at6 129 6.76e+01 3lzt d.2.1.2 36333 1ejjA 511 6.80e+01 1ejjA c.105.1.1,c.76.1.3 59422,59423 1f2tB 148 6.82e+01 1f2tB 1v5vA 401 6.83e+01 1cjcA 460 6.86e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1gw5S 142 6.88e+01 d.110.4.2 70633 1shuX 182 6.88e+01 c.62.1.1 98882 2ac3A 316 6.93e+01 1z0sA 278 6.99e+01 1o57A 291 7.05e+01 a.4.5.40,c.61.1.1 92483,92484 1vmiA 355 7.06e+01 1f0yA 302 7.10e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1vcoA 550 7.11e+01 c.23.16.1,c.37.1.10 108508,108509 1ezoA 370 7.12e+01 4mbp c.94.1.1 59539 1y60A 169 7.13e+01 1mpb 370 7.15e+01 4mbp c.94.1.1 35780 1riqA 465 7.18e+01 a.203.1.1,d.104.1.1 97516,97517 1rqlA 267 7.19e+01 c.108.1.3 97750 1fgkA 310 7.19e+01 1fgkA d.144.1.7 41693 1x0pA 143 7.24e+01 2fgeA 995 7.24e+01 1crkA 380 7.39e+01 1qh4A a.83.1.1,d.128.1.2 18458,41193 1ajsA 412 7.39e+01 1ajsA c.67.1.1 34276 1a35A 538 7.45e+01 1a36A d.163.1.2,e.15.1.1 42171,43264 1vgvA 384 7.52e+01 c.87.1.3 100608 1xnzA 264 7.57e+01 1r7mA 235 7.58e+01 2eryA 172 7.63e+01 1vlgA 176 7.64e+01 a.25.1.1 108816 1x9zA 188 7.66e+01 1nh1A 330 7.71e+01 e.45.1.1 91871 1guaA 167 7.71e+01 1ctqA c.37.1.8 32013 1c24A 263 7.75e+01 1c24A d.127.1.1 41148 2matA 264 7.79e+01 1c24A d.127.1.1 41146 1pieA 419 7.79e+01 d.14.1.5,d.58.26.7 94706,94707 1vm7A 311 7.80e+01 c.72.1.1 108884 1phk 298 7.97e+01 1cdkA d.144.1.7 41635 1a7lA 389 7.97e+01 4mbp c.94.1.1 35787 1yqeA 282 8.02e+01 1omp 370 8.04e+01 4mbp c.94.1.1 35778 1z9hA 290 8.05e+01 1gt8C 1025 8.12e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70428,70429,70430,70431,70432 1cnuA 137 8.14e+01 1cof d.109.1.2 40862 2etvA 346 8.22e+01 1el5A 389 8.24e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1kq3A 376 8.25e+01 e.22.1.2 68790 2fb1A 226 8.29e+01 2b49A 287 8.34e+01 1m0wA 491 8.35e+01 c.30.1.4,d.142.1.6 78363,78364 1uiuA 502 8.47e+01 c.94.1.1 99434 1i0aA 466 8.54e+01 1auwA a.127.1.1 61479 1d6jA 211 8.55e+01 1d6jA c.37.1.4 31940 1bmfA 510 8.57e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18281,26446,32326 1jdfA 447 8.60e+01 c.1.11.2,d.54.1.1 62897,62898 1ww9A 392 8.62e+01 6acn 754 8.64e+01 1amj c.8.2.1,c.83.1.1 30721,35397 5lyz 129 8.67e+01 3lzt d.2.1.2 36289 1a59 378 8.69e+01 1aj8A a.103.1.1 18902 1ytvA 366 8.72e+01 1ck7A 631 8.79e+01 1ck7A b.66.1.1,g.14.1.2,g.14.1.2,g.14.1.2,a.20.1.2,d.92.1.11 27538,44674,44675,44676,58969,58970 1mh3A 421 8.79e+01 a.4.1.1,c.94.1.1 79112,79113 1yf2A 425 8.81e+01 1z3iX 644 8.82e+01 2as0A 396 8.85e+01 1ia8A 289 8.86e+01 1ia8A d.144.1.7 62112 1w1oA 534 8.87e+01 d.58.32.4,d.145.1.1 109071,109072 1nf3A 195 8.93e+01 c.37.1.8 85594