# List of top-scoring protein chains for t04-100-30-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 1vkbA 161 1.59e-18 d.269.1.1 108643 2g0qA 173 1.10e-17 1v30A 124 1.69e-11 1wb4A 297 6.86e-01 1ku1A 230 7.57e-01 a.118.3.1 72996 1gklA 297 1.02e+00 c.69.1.2 65250 1y2qA 143 1.23e+00 1ofcX 304 1.24e+00 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1vg8A 207 1.53e+00 c.37.1.8 108606 1i2tA 61 2.17e+00 1i2tA a.144.1.1 61582 2d2eA 250 2.46e+00 1xyzA 347 2.83e+00 1taxA c.1.8.3 28804 1pbwA 216 3.59e+00 1pbwA a.116.1.1 19103 1i8fA 81 3.64e+00 1i8fA b.38.1.1 61959 1k66A 149 4.30e+00 c.23.1.1 90941 1s69A 124 4.33e+00 a.1.1.1 105305 1oyzA 280 4.38e+00 a.118.1.16 93775 1mrzA 293 4.54e+00 b.43.5.1,c.26.1.3 91452,91453 1s1pA 331 4.70e+00 c.1.7.1 98350 1cl7I 82 4.78e+00 1igtB 2f7fA 494 5.67e+00 1zanH 224 5.92e+00 1wrmA 165 6.19e+00 1rtxA 123 6.44e+00 a.1.1.1 97827 1tedA 393 7.10e+00 c.95.1.2 106807 1ok7A 366 7.20e+00 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 2adgB 222 7.25e+00 1nlbH 218 7.33e+00 b.1.1.1,b.1.1.2 80621,80622 1mmiA 366 7.55e+00 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1gtmA 419 7.59e+00 1hwyA c.2.1.7,c.58.1.1 30223,33871 2d9rA 104 7.98e+00 1vdxA 184 8.15e+00 2aabH 243 8.27e+00 6ldh 330 8.62e+00 3ldh c.2.1.5,d.162.1.1 30161,42128 1mexH 215 9.05e+00 b.1.1.1,b.1.1.2 91257,91258 1fvpA 231 9.41e+00 1nfp c.1.16.2 29556 1b6a 478 9.67e+00 1bn5 a.4.5.25,d.127.1.1 16223,41160 1xzoA 174 1.00e+01 1wwtA 88 1.02e+01 2aqwA 332 1.03e+01 1wcgA 464 1.06e+01 1hyxH 224 1.07e+01 1igtB b.1.1.1,b.1.1.2 20167,21191 1q0xH 221 1.08e+01 b.1.1.1,b.1.1.2 95517,95518 2ftzA 284 1.08e+01 2fqxA 318 1.09e+01 1pulA 125 1.10e+01 1f2eA 201 1.10e+01 1a0fA a.45.1.1,c.47.1.5 17745,33039 1q9rB 222 1.14e+01 b.1.1.1,b.1.1.2 96307,96308 1mlcB 218 1.15e+01 1igtB b.1.1.1,b.1.1.2 20053,21095 1rurH 218 1.15e+01 b.1.1.1,b.1.1.2 97879,97880 2fdsA 352 1.16e+01 2fh7A 595 1.17e+01 2ajuH 219 1.24e+01 1wu7A 434 1.31e+01 1xgyH 219 1.33e+01 2b3oA 532 1.34e+01 2bzlA 325 1.35e+01 1ydyA 356 1.37e+01 1qwdA 177 1.38e+01 b.60.1.1 96471 2av4A 162 1.40e+01 1uc2A 481 1.43e+01 d.261.1.1 99161 1ia6A 441 1.48e+01 a.102.1.2 76738 1ynlH 219 1.50e+01 1yqgA 263 1.58e+01 1j96A 323 1.60e+01 c.1.7.1 71616 1kz1A 159 1.62e+01 c.16.1.1 73318 1ecfA 504 1.63e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1qgvA 142 1.63e+01 1qgvA c.47.1.8 33056 1mjuH 227 1.68e+01 b.1.1.1,b.1.1.2 91302,91303 1bif 469 1.70e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1eejA 216 1.70e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1wejH 223 1.71e+01 1igtB b.1.1.1,b.1.1.2 20361,21353 1rpnA 335 1.72e+01 c.2.1.2 97708 1hilB 220 1.72e+01 1igtB b.1.1.1,b.1.1.2 19787,20897 2bv5A 282 1.73e+01 1ldg 316 1.74e+01 1ceqA c.2.1.5,d.162.1.1 30165,42132 1gen 218 1.84e+01 1gen b.66.1.1 27536 2polA 366 1.93e+01 2polA d.131.1.1,d.131.1.1,d.131.1.1 41356,41357,41358 2bmoA 447 1.94e+01 1ux8A 132 1.95e+01 1x1nA 524 1.96e+01 2b5eA 504 1.96e+01 1m70A 190 1.98e+01 a.3.1.4,a.3.1.4 91200,91201 1vgjA 184 2.06e+01 1d2eA 397 2.07e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1zsqA 528 2.08e+01 1wteA 272 2.11e+01 1bx1A 314 2.13e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1diiC 80 2.21e+01 1diiC a.3.1.1 15925 2ck3A 510 2.23e+01 1fjrA 195 2.24e+01 1fjrA b.102.1.1 59855 1ei5A 520 2.26e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 2ao0A 324 2.28e+01 1v0aA 178 2.33e+01 1fnc 314 2.34e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1t8qA 336 2.37e+01 c.1.18.3 106669 2g8yA 385 2.46e+01 1lugA 259 2.50e+01 b.74.1.1 91127 1pv0A 46 2.55e+01 a.2.12.1 95141 1u6mA 199 2.57e+01 1lldA 319 2.60e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1kcvH 217 2.63e+01 b.1.1.1,b.1.1.2 72315,72316 1ji6A 589 2.64e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1t2dA 322 2.64e+01 c.2.1.5,d.162.1.1 99084,99085 1ufiA 64 2.66e+01 a.30.4.1 99336 1wveC 80 2.68e+01 1yo1A 260 2.71e+01 2g39A 497 2.73e+01 1izmA 184 2.74e+01 a.199.1.1 90725 1hyhA 309 2.74e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1g7fA 298 2.74e+01 1pty c.45.1.2 60330 1jb9A 316 2.76e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 4pfk 319 2.78e+01 3pfk c.89.1.1 35582 2ahjB 212 2.90e+01 2ahjB b.34.4.4 24599 1fnd 314 2.98e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1u1tA 82 2.99e+01 1y8aA 332 3.01e+01 1fr7A 260 3.04e+01 2cba b.74.1.1 27828 1xp8A 366 3.07e+01 1c4kA 730 3.10e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31273,34502,41123 2cba 260 3.11e+01 2cba b.74.1.1 27821 1hfuA 503 3.12e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1rreA 200 3.14e+01 d.14.1.10 97791 1mxmA 254 3.27e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1wxiA 275 3.33e+01 1bf5A 545 3.39e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1rvkA 382 3.40e+01 c.1.11.2,d.54.1.1 97928,97929 1r6xA 395 3.44e+01 b.122.1.3,c.26.1.5 97167,97168 1u1sA 82 3.45e+01 1fgyA 127 3.51e+01 1faoA b.55.1.1 26976 1r4vA 171 3.51e+01 a.197.1.1 97049 1guzA 310 3.55e+01 c.2.1.5,d.162.1.1 65586,65587 1larA 575 3.56e+01 1larA c.45.1.2,c.45.1.2 32693,32694 1a65A 504 3.57e+01 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 1g5cA 170 3.59e+01 1g5cA c.53.2.1 60264 1iu4A 331 3.61e+01 d.3.1.8 71430 1yqfA 203 3.64e+01 1wgwA 99 3.65e+01 1i6pA 220 3.68e+01 1ddzA c.53.2.1 61848 1q1fA 151 3.69e+01 a.1.1.2 104476 1gowA 489 3.72e+01 1qvbA c.1.8.4 28981 1pqnA 127 3.76e+01 c.47.1.8 95025 1a12A 413 3.79e+01 1a12A b.69.5.1 27663 2bijA 305 3.81e+01 1jb7A 495 3.84e+01 1otcA b.40.4.3,b.40.4.3,b.40.4.3 62836,62837,62838 1sgwA 214 3.86e+01 c.37.1.12 105541 1lk9A 448 3.92e+01 c.67.1.1 78057 1dqqB 210 4.03e+01 1igtB b.1.1.1,b.1.1.2 20421,21391 1uqrA 154 4.08e+01 c.23.13.1 99779 1tzfA 259 4.12e+01 c.68.1.13 107476 1f1eA 154 4.24e+01 a.22.1.2 64927 1wvcA 259 4.28e+01 1c8uA 285 4.31e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1dxsA 80 4.41e+01 1cokA a.60.1.2 17944 1c75A 71 4.42e+01 451c a.3.1.1 15796 1vrtA 560 4.67e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1lci 550 4.68e+01 1lci e.23.1.1 43349 1twfA 1733 4.70e+01 1zd0A 150 4.73e+01 1xi1A 575 4.92e+01 1oxdA 227 4.97e+01 d.22.1.1 93687 1k47A 337 5.02e+01 d.14.1.5,d.58.26.4 72040,72041 1jsxA 207 5.03e+01 c.66.1.20 71846 2aamA 309 5.04e+01 1suwA 249 5.10e+01 e.52.1.1 106027 1pq4A 291 5.10e+01 c.92.2.2 94995 2axtO 247 5.19e+01 1bywA 110 5.20e+01 1bywA d.110.3.6 40912 1zxxA 319 5.21e+01 1gjwA 637 5.22e+01 b.71.1.1,c.1.8.1 60582,60583 1n9lA 109 5.25e+01 d.110.3.6 85468 1p2fA 220 5.26e+01 a.4.6.1,c.23.1.1 87720,87721 1jae 471 5.31e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1a8o 70 5.32e+01 1a8o a.28.3.1 16953 2gl5A 410 5.34e+01 1vhwA 253 5.36e+01 c.56.2.1 100706 1rcuA 195 5.36e+01 c.129.1.1 97295 1d3yA 301 5.37e+01 1d3yA e.12.1.1 43252 1uwsA 489 5.37e+01 c.1.8.4 108073 1eg9A 449 5.38e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1g8aA 227 5.39e+01 c.66.1.3 90506 2ai4A 119 5.42e+01 1z7xW 461 5.42e+01 1aqm 453 5.47e+01 1smd b.71.1.1,c.1.8.1 27717,28704 1ri6A 343 5.52e+01 b.69.11.1 97503 1h8eA 510 5.59e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1z0sA 278 5.64e+01 1n0xH 230 5.67e+01 b.1.1.1,b.1.1.2 91528,91529 1eyvA 156 5.69e+01 1eyvA a.79.1.1 18446 2govA 195 5.70e+01 1e79A 510 5.76e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1wt4A 73 5.77e+01 1qwvA 142 5.78e+01 a.39.2.1 96506 1i50A 1733 5.83e+01 e.29.1.2 61754 1f74A 293 5.83e+01 1nal3 c.1.10.1 29079 2cz1B 212 5.87e+01 1s96A 219 5.89e+01 c.37.1.1 98740 1nkqA 259 5.89e+01 d.177.1.1 103862 1n08A 163 5.91e+01 b.43.5.1 79730 1um5H 217 5.93e+01 2gaxA 135 5.94e+01 1bjt 793 6.03e+01 1bjt e.11.1.1 43249 2a9dA 372 6.10e+01 1wduA 245 6.19e+01 d.151.1.1 109286 1ihkA 174 6.22e+01 1bfg b.42.1.1 62384 1u8xX 472 6.22e+01 c.2.1.5,d.162.1.2 107741,107742 1offA 97 6.24e+01 d.15.4.1 86947 1o58A 303 6.27e+01 c.79.1.1 92491 1f00I 282 6.33e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 2b0jA 358 6.37e+01 1y1pA 342 6.43e+01 1j33A 335 6.43e+01 c.39.1.1 77069 2cyeA 133 6.51e+01 1uwmA 106 6.51e+01 2cr9A 139 6.53e+01 1o7nA 449 6.58e+01 b.33.1.2,d.129.3.3 81162,81163 1vj7A 393 6.61e+01 a.211.1.1,d.218.1.8 100801,100802 2awkA 228 6.70e+01 2bcoA 350 6.72e+01 2gk9A 426 6.82e+01 1j4aA 333 6.85e+01 c.2.1.4,c.23.12.1 71502,71503 1lxnA 99 6.85e+01 d.58.48.1 84737 1jilA 420 6.86e+01 c.26.1.1 66745 1e9mA 106 6.98e+01 1ayfA d.15.4.1 59397 1f1xA 322 6.99e+01 d.32.1.3,d.32.1.3 83208,83209 1r1dA 247 7.00e+01 c.69.1.29 96813 2f71A 298 7.02e+01 1z5bA 469 7.04e+01 1pc3A 350 7.09e+01 c.94.1.1 104102 1l9xA 315 7.11e+01 c.23.16.1 73762 1v3wA 173 7.11e+01 b.81.1.5 100291 2cw8A 537 7.12e+01 1r6wA 322 7.18e+01 c.1.11.2,d.54.1.1 97165,97166 1ceo 343 7.22e+01 1ceo c.1.8.3 28808 1oj6A 151 7.35e+01 a.1.1.2 93088 1ukuA 102 7.42e+01 d.58.5.2 99533 1uliA 460 7.44e+01 b.33.1.2,d.129.3.3 107921,107922 1wdpA 495 7.46e+01 1ru3A 732 7.51e+01 e.26.1.3 97835 1dk8A 147 7.53e+01 1agrE a.91.1.1 18548 2ae6A 166 7.53e+01 1ih8A 271 7.53e+01 2nsyA c.26.2.1 62377 1mu5A 471 7.56e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1hk9A 74 7.59e+01 b.38.1.2 83541 1ncwH 222 7.64e+01 b.1.1.1,b.1.1.2 85555,85556 1n27A 96 7.65e+01 b.34.9.2 91549 2d0eA 407 7.65e+01 2c27A 315 7.66e+01 1om2A 95 7.67e+01 1om2A a.23.4.1 16520 1wehA 171 7.69e+01 1bfg 146 7.71e+01 1bfg b.42.1.1 25485 1uekA 275 7.74e+01 d.14.1.5,d.58.26.5 88483,88484 1z82A 335 7.77e+01 1n7hA 381 7.80e+01 c.2.1.2 80250 1tyv 542 7.83e+01 1tyv b.80.1.6 28038 1yzxA 226 7.94e+01 1zfjA 491 8.04e+01 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1ujmA 342 8.04e+01 1up6A 416 8.10e+01 c.2.1.5,d.162.1.2 107976,107977 1jlnA 297 8.10e+01 1pty c.45.1.2 63172 1ln4A 104 8.11e+01 d.68.4.1 74043 2shpA 525 8.15e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1nxmA 197 8.15e+01 b.82.1.1 86385 2fkbA 180 8.18e+01 1tk1A 260 8.20e+01 d.248.1.1 107066 1o7sA 127 8.24e+01 b.1.1.1 86644 1ae9A 179 8.29e+01 1ae9A d.163.1.1 42153 1lshA 1056 8.32e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1zesA 125 8.34e+01 1jguH 217 8.34e+01 b.1.1.1,b.1.1.2 66688,66689 4fgf 146 8.38e+01 1bfg b.42.1.1 25486 1oqqA 106 8.40e+01 d.15.4.1 93422 1sluA 142 8.43e+01 1sluA b.16.1.1 23685 1tzzA 392 8.47e+01 1f8gA 384 8.48e+01 1sayA c.2.1.4,c.23.12.2 59695,59696 3ladA 476 8.55e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1jtvA 327 8.58e+01 c.2.1.2 84230 1ngkA 128 8.60e+01 a.1.1.1 85673 1pa1A 310 8.72e+01 c.45.1.2 94404 1tqhA 247 8.73e+01 c.69.1.29 107225 4xis 387 8.74e+01 4xis c.1.15.3 29421 1fds 327 8.77e+01 1fds c.2.1.2 29838 1oz9A 150 8.82e+01 d.92.1.15 93808 1hbkA 94 8.86e+01 1aca a.11.1.1 60887 1y81A 138 8.93e+01 3xis 387 8.93e+01 4xis c.1.15.3 29423 2a6vA 226 8.98e+01