# List of top-scoring protein chains for t04-100-30-n_notor2-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 1zkiA 133 4.87e-09 1vh5A 148 1.47e-08 d.38.1.5 100642 1o0iA 138 1.99e-08 d.38.1.5 86532 2b6eA 146 2.19e-08 1wluA 136 2.29e-08 1j1yA 136 2.49e-08 d.38.1.5 90776 1vpmA 169 3.29e-08 1u1zA 168 4.76e-08 d.38.1.6 107602 1yliA 153 1.61e-07 1psuA 140 1.73e-07 d.38.1.5 88285 2fs2A 151 1.99e-07 1q4uA 151 1.33e-06 d.38.1.5 95828 1z6bA 154 1.37e-06 1ixlA 131 1.89e-06 d.38.1.5 90717 2gvhA 288 1.94e-06 1yocA 147 3.11e-06 1t82A 155 1.48e-05 d.38.1.5 106639 2cyeA 133 2.16e-05 1njkA 156 3.33e-05 d.38.1.1 85818 1sh8A 154 1.07e-04 d.38.1.5 105549 2av9A 147 1.31e-04 1z54A 132 1.36e-04 1s5uA 138 1.68e-04 d.38.1.1 98573 2cwzA 141 4.42e-04 1lo7A 141 2.45e-03 d.38.1.1 74144 2b3nA 159 2.93e-03 1iq6A 134 3.17e-03 d.38.1.4 76755 2gf6A 135 5.24e-03 2aliA 158 5.52e-03 1bvqA 141 7.94e-03 1bvqA d.38.1.1 38542 1tbuA 118 1.18e-02 1mkaA 171 2.69e-02 1mkaA d.38.1.2 38543 2essA 248 9.73e-02 1c8uA 285 2.13e-01 1c8uA d.38.1.3,d.38.1.3 38547,38548 2bi0A 337 2.63e-01 1ht6A 405 7.25e-01 b.71.1.1,c.1.8.1 83629,83630 1nr0A 611 8.25e-01 b.69.4.1,b.69.4.1 86078,86079 1tltA 319 2.78e+00 c.2.1.3,d.81.1.5 107135,107136 1vemA 516 3.01e+00 1xovA 326 3.50e+00 1ux6A 350 3.53e+00 b.29.1.16,g.75.1.1 100145,100146 2fflA 756 3.57e+00 1j1nA 492 3.61e+00 c.94.1.1 83978 1hwxA 501 3.92e+00 1hwyA c.2.1.7,c.58.1.1 30250,33898 1pg4A 652 4.44e+00 e.23.1.1 88067 1itcA 516 5.44e+00 b.3.1.1,c.1.8.1 83705,83706 1g87A 614 5.60e+00 a.102.1.2,b.2.2.2 83275,83276 1xkpC 143 5.71e+00 1g9mG 321 5.89e+00 1gc1G d.172.1.1 42492 1ti6A 875 6.00e+00 b.52.2.2,c.81.1.1 106974,106975 1ox6A 555 6.12e+00 c.1.2.1,c.23.16.1 87505,87506 1g8kA 825 6.17e+00 1g8jA b.52.2.2,c.81.1.1 26920,35328 2btvA 901 6.74e+00 2btvA e.28.1.1 43376 1v0wA 506 7.55e+00 d.136.1.2,d.136.1.2 108220,108221 1te5A 257 7.68e+00 d.153.1.1 106795 1fxlA 167 7.85e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 7taa 478 8.16e+00 7taa b.71.1.1,c.1.8.1 27778,28765 1gnd 447 8.50e+00 1gnd c.3.1.3,d.16.1.6 30423,37987 1y5iA 1246 8.61e+00 1rzjG 321 8.78e+00 d.172.1.1 98200 2blnA 305 9.18e+00 1ewkA 490 9.52e+00 1ewkA c.93.1.1 35712 1gteA 1025 9.68e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1hx0A 496 1.01e+01 b.71.1.1,c.1.8.1 61346,61347 2bvyA 475 1.02e+01 1r2jA 366 1.03e+01 a.29.3.1,e.6.1.1 96869,96870 1zxiF 288 1.05e+01 2bvfA 459 1.12e+01 1auk 489 1.15e+01 1auk c.76.1.2 35030 1e3dB 542 1.19e+01 1h2rL e.18.1.1 59189 1fmtA 314 1.25e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1gsoA 431 1.30e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1lci 550 1.30e+01 1lci e.23.1.1 43349 1rmg 422 1.36e+01 1rmg b.80.1.3 28029 1su8A 636 1.37e+01 e.26.1.2 98999 1y6hA 177 1.37e+01 1su4A 994 1.41e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1n35A 1267 1.47e+01 e.8.1.4 79935 1vyrA 364 1.47e+01 c.1.4.1 108906 1bg6 359 1.49e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1sffA 426 1.53e+01 c.67.1.4 105482 1y3nA 490 1.56e+01 1mtyD 512 1.56e+01 1mhyD a.25.1.2 16742 1jz8A 1023 1.62e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 2gdnA 267 1.67e+01 1k77A 260 1.71e+01 c.1.15.5 72096 1iq4A 179 1.72e+01 1iq4A d.77.1.1 62641 1ja1A 622 1.80e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1pn0A 665 1.86e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 2btzA 394 1.88e+01 1uh5A 329 1.91e+01 c.2.1.2 107840 1f60A 458 1.93e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 2gvkA 317 1.93e+01 1edzA 320 1.93e+01 1ee9A c.2.1.7,c.58.1.2 30287,33935 1i7oA 429 1.94e+01 1i7oA d.177.1.1,d.177.1.1 61893,61894 1pp0A 199 1.94e+01 d.103.1.1 104211 1g5hA 454 1.98e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1cr5A 189 2.06e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1mrzA 293 2.07e+01 b.43.5.1,c.26.1.3 91452,91453 1mo9A 523 2.08e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1w2tA 432 2.12e+01 1u94A 356 2.13e+01 c.37.1.11,d.48.1.1 107743,107744 1gpiA 431 2.16e+01 b.29.1.10 65450 1k8wA 327 2.18e+01 b.122.1.1,d.265.1.2 83094,90388 2abbA 364 2.19e+01 1p3dA 475 2.24e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1xipA 388 2.24e+01 1txkA 498 2.27e+01 b.1.18.2,b.30.5.9 107425,107426 1k32A 1045 2.32e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1jv2A 957 2.37e+01 b.1.15.1,b.1.15.1,b.1.15.1,b.69.8.1 67334,67335,67336,67337 1h8eA 510 2.40e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1ghpA 258 2.41e+01 1btl e.3.1.1 60520 1wgzA 510 2.43e+01 1ve3A 227 2.44e+01 1rpnA 335 2.47e+01 c.2.1.2 97708 1siiA 646 2.52e+01 b.30.2.1,d.17.2.1,d.17.2.1 105578,105579,105580 2apoA 357 2.63e+01 1vkpA 383 2.65e+01 d.126.1.6 108686 1q52A 314 2.71e+01 c.14.1.3 95846 2c0rA 362 2.76e+01 2ffcA 353 2.77e+01 1ikpA 613 2.77e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 8acn 754 2.84e+01 1amj c.8.2.1,c.83.1.1 30724,35400 1pxzA 346 2.88e+01 1qx4A 274 2.88e+01 b.43.4.2,c.25.1.1 104624,104625 1foeA 377 2.95e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 1ldjA 760 2.96e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1t1uA 639 2.97e+01 1d8wA 426 2.99e+01 1de5A c.1.15.2 29394 1aym1 285 3.02e+01 1aym1 1zy9A 564 3.03e+01 1qwnA 1045 3.04e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1ve4A 206 3.11e+01 1mdbA 539 3.14e+01 e.23.1.1 79008 1djxB 624 3.25e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1d3cA 686 3.26e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 2ck3A 510 3.36e+01 1nbwA 607 3.40e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1uylA 236 3.42e+01 d.122.1.1 108147 1gcoA 261 3.43e+01 1ybvA c.2.1.2 29884 1ta8A 332 3.45e+01 1d3vA 323 3.49e+01 1d3vA c.42.1.1 32559 4ubpC 570 3.50e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1h70A 255 3.53e+01 1h70A d.126.1.3 60711 1geeA 261 3.56e+01 c.2.1.2 90509 1cb0A 283 3.56e+01 1cb0A c.56.2.1 33790 1qrrA 394 3.59e+01 1qrrA c.2.1.2 29824 2basA 431 3.60e+01 1rxxA 421 3.60e+01 d.126.1.4 98061 1y8tA 324 3.61e+01 2d42A 249 3.61e+01 1xksA 450 3.61e+01 1okjA 251 3.64e+01 c.55.1.9,c.55.1.9 103998,103999 1qyaA 307 3.69e+01 d.21.1.2,d.21.1.2 104653,104654 1brmA 367 3.72e+01 1brmA c.2.1.3,d.81.1.1 30030,39945 1ndh 272 3.76e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1w99A 558 3.76e+01 2biwA 490 3.77e+01 1ga6A 372 3.90e+01 1ga1A c.41.1.2 32556 1zxiC 288 3.93e+01 1s6yA 450 3.94e+01 c.2.1.5,d.162.1.2 105314,105315 2bzpA 226 3.96e+01 1wkyA 464 4.04e+01 1b12A 248 4.05e+01 1b12A b.87.1.2 28388 1bag 425 4.10e+01 1bag b.71.1.1,c.1.8.1 27720,28707 1ockA 412 4.11e+01 c.117.1.1 86802 1b65A 375 4.18e+01 1b65A d.154.1.1 42020 1cs6A 382 4.30e+01 1cs6A b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21760,21761,21762,21763 1i5pA 633 4.37e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1umkA 275 4.37e+01 1xbtA 193 4.41e+01 2fdsA 352 4.46e+01 1j7nA 776 4.48e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1amuA 563 4.49e+01 1amuA e.23.1.1 43351 2b3yA 888 4.53e+01 1bsg 266 4.57e+01 1btl e.3.1.1 42729 1c96A 753 4.61e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1vzyA 291 4.63e+01 1g72A 573 4.66e+01 4aahA b.70.1.1 27680 1cbs 137 4.72e+01 1hmt b.60.1.2 27201 2dg5A 366 4.82e+01 1zhxA 438 4.83e+01 1atiA 505 4.85e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1xeoA 168 4.86e+01 1tlyA 278 4.87e+01 f.4.6.1 107143 1uasA 362 4.90e+01 b.71.1.1,c.1.8.1 88388,88389 1ubeA 349 4.93e+01 c.37.1.11,d.48.1.1 88412,88413 1s3rA 535 4.96e+01 1ztuA 341 5.01e+01 1tedA 393 5.03e+01 c.95.1.2 106807 2gr8A 99 5.05e+01 1sdjA 310 5.09e+01 d.21.1.2,d.21.1.2 98807,98808 1w2wB 191 5.15e+01 1n7vA 555 5.21e+01 b.126.1.1 85377 1y8qB 640 5.24e+01 2a9kB 223 5.25e+01 1mvwB 145 5.25e+01 i.15.1.1 79524 2fuvA 549 5.27e+01 1rv9A 259 5.28e+01 d.194.1.2 105105 1ne9A 335 5.36e+01 d.108.1.4,d.108.1.4 91839,91840 1nd7A 374 5.36e+01 d.148.1.1 91817 9gafA 295 5.39e+01 1apyA d.153.1.5 42008 2mprA 421 5.43e+01 2mprA f.4.3.2 43788 1yewA 382 5.48e+01 1ru4A 400 5.51e+01 b.80.1.9 97836 1sr8A 298 5.52e+01 e.54.1.1 105959 1bs4A 168 5.56e+01 1bs4A d.167.1.1 42287 1ohvA 472 5.59e+01 c.67.1.4 93031 6cel 434 5.64e+01 1celA b.29.1.10 24279 1sotA 320 5.68e+01 b.36.1.4,b.47.1.1 105852,105853 1xp8A 366 5.69e+01 1hv9A 456 5.70e+01 1fwyA b.81.1.4,c.68.1.5 28060,34518 1nnxA 109 5.72e+01 b.40.10.1 92013 1r1a1 287 5.75e+01 1aym1 2fp4B 395 5.79e+01 1bu6O 501 5.82e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1hyoA 421 5.82e+01 1qcnA b.34.8.1,d.177.1.1 59001,59002 1sc3A 178 5.92e+01 c.17.1.1 105416 1e5dA 402 5.92e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1qh4A 380 5.96e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 2fnuA 375 5.97e+01 2bcfA 276 5.99e+01 1txqA 93 6.01e+01 1womA 271 6.03e+01 1lshA 1056 6.08e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1tf4A 605 6.13e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1wmbA 260 6.24e+01 1fiwA 290 6.26e+01 5ptp 1eg7A 557 6.28e+01 1eg7A c.37.1.10 32241 2aq5A 402 6.34e+01 1nqeA 594 6.37e+01 f.4.3.3 86027 1yljA 263 6.41e+01 1vypX 364 6.41e+01 c.1.4.1 108905 1vpt 348 6.44e+01 3mag c.66.1.25 34207 2reb 352 6.47e+01 2reb c.37.1.11,d.48.1.1 32282,38767 4dpvZ 584 6.48e+01 2cas b.121.5.2 23377 1lj5A 379 6.53e+01 e.1.1.1 73928 1nf8A 207 6.56e+01 c.33.1.3 85630 1vlyA 338 6.63e+01 b.44.2.1,d.250.1.1 108871,108872 1wbpA 397 6.66e+01 1gpuA 680 6.68e+01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1obbA 480 6.69e+01 c.2.1.5,d.162.1.2 86760,86761 1ju2A 536 6.78e+01 c.3.1.2,d.16.1.1 77169,77170 2g9zA 348 6.83e+01 1orrA 347 6.89e+01 c.2.1.2 93460 1g6aA 271 6.90e+01 1btl e.3.1.1 42704 2a5hA 416 6.92e+01 1ep0A 185 6.96e+01 1dzrA b.82.1.1 28080 1zaiA 363 6.99e+01 1fecA 490 6.99e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1ntyA 311 7.00e+01 a.87.1.1,b.55.1.1 103873,103874 1sqjA 789 7.02e+01 b.69.13.1,b.69.13.1 105918,105919 1tuhA 156 7.05e+01 d.17.4.11 107345 1eo9B 241 7.13e+01 3pchM b.3.6.1 22826 1mmiA 366 7.19e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 2gxfA 142 7.19e+01 1qhfA 240 7.21e+01 1qhfA c.60.1.1 33960 1xf1A 926 7.26e+01 1d8dB 437 7.29e+01 1ft1B a.102.4.3 18866 1e7rA 321 7.35e+01 1bsvA c.2.1.2 29808 1h61A 364 7.38e+01 1oyc c.1.4.1 60657 1at0 145 7.40e+01 1at0 b.86.1.1 28374 1o88A 353 7.42e+01 b.80.1.1 81178 1kekA 1231 7.44e+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 1hzpA 335 7.44e+01 1hn9A c.95.1.2,c.95.1.2 61455,61456 2b7kA 200 7.52e+01 1ymtA 246 7.52e+01 1tzjA 338 7.62e+01 3tdt 274 7.65e+01 3tdt b.81.1.2 28053 2d09A 407 7.67e+01 1n9eA 787 7.68e+01 b.30.2.1,d.17.2.1,d.17.2.1 91708,91709,91710 2aqwA 332 7.72e+01 1db3A 372 7.73e+01 1db3A c.2.1.2 29813 1zxmA 400 7.74e+01 1g97A 459 7.78e+01 1fwyA b.81.1.4,c.68.1.5 60394,60395 2aqjA 538 7.83e+01 1xwl 580 7.86e+01 1xwl c.55.3.5,e.8.1.1 33708,43001 1ga8A 311 7.87e+01 1ga8A c.68.1.4 34516 1dik 874 7.89e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1odzA 386 7.92e+01 c.1.8.3 86889 1dqaA 467 7.94e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1y14B 171 7.96e+01 1d5tA 433 8.05e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1azsB 212 8.06e+01 1azsA d.58.29.1 39423 1z7aA 308 8.08e+01 1uwdA 103 8.22e+01 2b30A 301 8.24e+01 2fg1A 158 8.24e+01 2d0eA 407 8.29e+01 1up7A 417 8.36e+01 1auiB 169 8.40e+01 1auiB a.39.1.5 17325 2bm3A 166 8.45e+01 1a0tP 413 8.48e+01 1a0tP f.4.3.2 43794 1uumA 372 8.55e+01 c.1.4.1 100010 1iysA 262 8.60e+01 e.3.1.1 90723 1p4kA 295 8.61e+01 d.153.1.5 87772 1hxs1 302 8.62e+01 1d9tA 289 8.63e+01 1deaA 1lv7A 257 8.66e+01 c.37.1.20 78232 1w61A 414 8.66e+01 1pn2A 280 8.69e+01 d.38.1.4,d.38.1.4 94930,94931 1cb8A 678 8.73e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1ok7A 366 8.79e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1c4zA 358 8.82e+01 1c4zA d.148.1.1 41766 2bsdA 264 8.83e+01 1g24A 211 8.91e+01 1g24A d.166.1.1 42270 1gxjA 186 8.96e+01 d.215.1.1 70707 1hm9A 468 8.96e+01 b.81.1.4,c.68.1.5 65866,65867 1jsmA 325 8.96e+01 b.19.1.2 63264