# List of top-scoring protein chains for t2k.100-30-stride-ebghtl 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.soe.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 1hzmA 154 2.25e-18 c.46.1.1 65975 1c25 161 2.24e-17 1c25 1qb0A 211 1.61e-16 1c25 c.46.1.1 32699 1ymkA 175 1.88e-16 c.46.1.1 123699 2oucA 142 2.25e-16 2a2kA 175 5.60e-16 1e0cA 271 5.85e-13 1e0cA c.46.1.2 32717 c.46.1.2 32718 1uarA 285 1.07e-11 c.46.1.2 107762 c.46.1.2 107763 1yt8A 539 1.40e-10 c.46.1.2 123996 c.46.1.2 123997 c.46.1.2 123998 c.46.1.2 123999 1gmxA 108 1.64e-10 c.46.1.3 65355 2gwfA 157 8.29e-10 c.46.1.4 135802 1rhs 296 9.34e-10 1rhs 1rhsA 296 9.34e-10 c.46.1.2 32703 c.46.1.2 32704 1whbA 157 1.16e-09 c.46.1.4 114639 2hhgA 139 1.63e-09 2eg4A 230 5.53e-09 1t3kA 152 1.35e-08 c.46.1.1 106357 2j6pA 152 2.09e-08 1okgA 373 4.41e-07 c.46.1.2 93250 c.46.1.2 93251 d.26.1.3 93252 2fsxA 148 1.80e-04 1wv9A 94 4.39e-04 1azwA 313 1.21e-01 1qtrA c.69.1.7 34658 1ns5A 155 1.96e-01 c.116.1.3 80705 1agqA 135 2.49e-01 1agqA g.17.1.2 44789 1l2tA 235 4.86e-01 c.37.1.12 73514 2ooqA 286 6.60e-01 1ml8A 134 8.95e-01 d.227.1.2 85013 1o6dA 163 1.26e+00 c.116.1.3 92567 1vhrA 184 1.36e+00 1vhrA c.45.1.1 32651 2hxvA 360 1.61e+00 c.71.1.2 136859 c.97.1.2 136860 1t9kA 347 1.62e+00 c.124.1.5 106721 2f4dA 184 1.64e+00 1sh7A 284 1.83e+00 2p6xA 309 1.88e+00 2okgA 255 1.95e+00 1t5bA 201 1.95e+00 c.23.5.3 106433 1e6mA 128 2.29e+00 3chy c.23.1.1 31039 1ztpA 251 2.61e+00 d.86.1.2 125649 2it1A 362 2.69e+00 1wq3A 322 2.72e+00 1vmeA 410 2.80e+00 c.23.5.1 108893 d.157.1.3 108894 1mtzA 293 2.80e+00 c.69.1.7 79467 1xiyA 182 2.99e+00 c.47.1.10 122022 3dfrA 162 3.08e+00 c.71.1.1 34880 3dfr 162 3.08e+00 3dfr 1dljA 402 3.14e+00 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1vj1A 363 3.23e+00 b.35.1.2 100794 c.2.1.1 100795 1ao0A 459 3.27e+00 1ecfB c.61.1.1 34049 d.153.1.1 41816 1d1gA 168 3.46e+00 1d1gA c.71.1.1 34889 2ecuA 149 3.62e+00 1o4yA 288 3.63e+00 b.29.1.2 92473 1yfoA 302 3.64e+00 2shpA c.45.1.2 32681 2fh7A 595 3.73e+00 3chy 128 3.92e+00 3chy 2j13A 247 3.94e+00 c.6.2.3 137934 1xqwA 293 4.11e+00 1jbeA 128 4.18e+00 3chy c.23.1.1 62845 1lqtA 456 4.33e+00 c.3.1.1 74198 c.4.1.1 74199 1dqzA 280 4.68e+00 1dqyA c.69.1.3 34638 1qj4A 257 4.86e+00 1qj4A c.69.1.20 34796 2pidA 356 4.87e+00 1dliA 402 5.06e+00 1dliA a.100.1.4 18809 c.2.1.6 30213 c.26.3.1 31622 1b1yA 500 5.09e+00 1byb c.1.8.1 28796 1jq0A 84 5.13e+00 h.3.2.1 71786 1dqyA 283 5.25e+00 1dqyA c.69.1.3 34640 1y80A 210 5.33e+00 2i1oA 398 5.35e+00 1y42X 392 5.44e+00 2e0tA 151 5.61e+00 1nnwA 252 5.64e+00 d.159.1.5 80674 2qgmA 445 5.69e+00 1clxA 347 5.71e+00 1taxA c.1.8.3 28899 1u53A 196 5.76e+00 1w32A 348 5.81e+00 c.1.8.3 114120 4ts1A 319 6.05e+00 2ts1 c.26.1.1 31565 2e85A 159 6.06e+00 1g59A 468 6.08e+00 a.97.1.1 60257 c.26.1.1 60258 1yasA 257 6.16e+00 1qj4A c.69.1.20 34801 1qo7A 394 6.23e+00 1qo7A c.69.1.11 34697 1t5oA 351 6.35e+00 c.124.1.5 106459 1ojxA 263 6.52e+00 c.1.10.1 93164 1vmjA 151 6.59e+00 d.273.1.1 113679 4dfrA 159 6.66e+00 1vdrA c.71.1.1 34822 2i1yA 301 6.70e+00 2z98A 200 6.75e+00 1h09A 338 6.78e+00 b.109.1.1 83420 c.1.8.8 83421 1jztA 246 6.92e+00 c.104.1.1 63319 2iwoA 120 6.97e+00 1larA 575 7.05e+00 1larA c.45.1.2 32693 c.45.1.2 32694 1aq0A 306 7.07e+00 1aq0A c.1.8.3 28842 1o89A 345 7.09e+00 b.35.1.2 92644 c.2.1.1 92645 1qtrA 317 7.16e+00 1qtrA c.69.1.7 34660 1m1nB 522 7.18e+00 c.92.2.3 78418 1j09A 468 7.44e+00 a.97.1.1 77025 c.26.1.1 77026 1tikA 213 7.51e+00 c.23.5.3 107003 2q4kA 251 7.61e+00 d.86.1.2 139864 1vheA 373 7.91e+00 b.49.3.1 100669 c.56.5.4 100670 1nmuB 104 8.11e+00 d.79.3.1 80666 2b3oA 532 8.24e+00 2yvuA 186 8.26e+00 3c97A 140 8.33e+00 1hy3A 294 8.33e+00 c.37.1.5 71090 2j8gA 339 8.61e+00 2gq0A 303 8.62e+00 2dr3A 247 8.86e+00 1dquA 538 8.93e+00 1dquA c.1.12.7 29314 2q1sA 377 9.02e+00 2shpA 525 9.61e+00 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 2h4vA 320 9.66e+00 1jilA 420 9.67e+00 c.26.1.1 66745 1bcpB 199 9.78e+00 1bcpB b.40.2.1 25120 d.169.1.2 42429 2bijA 305 9.78e+00 1y8qB 640 9.97e+00 1g3mA 294 1.02e+01 c.37.1.5 83268 2pbnA 313 1.03e+01 1khdA 345 1.03e+01 a.46.2.1 77400 c.27.1.1 77401 1gph1 465 1.03e+01 1ecfB 2pcjA 224 1.05e+01 1oxsC 353 1.06e+01 b.40.6.3 87519 c.37.1.12 87520 1epxA 370 1.07e+01 1fbaA c.1.10.1 29150 1wlsA 328 1.08e+01 1vbuA 328 1.12e+01 c.1.8.3 119963 1wm1A 317 1.13e+01 c.69.1.7 109405 2ffuA 501 1.13e+01 2blcA 238 1.14e+01 1wuuA 399 1.15e+01 d.14.1.5 114900 d.58.26.7 114901 2ts1 419 1.16e+01 2ts1 3b55A 451 1.19e+01 1vkrA 125 1.20e+01 c.44.2.1 108689 1uc7A 125 1.21e+01 c.47.1.1 99163 1u8tA 129 1.23e+01 c.23.1.1 113192 2ps2A 371 1.23e+01 2b6nA 278 1.24e+01 1gln 468 1.24e+01 1gln 1jixA 351 1.28e+01 1c3jA c.87.1.1 63081 2qsfA 533 1.29e+01 1xr4A 509 1.30e+01 c.124.1.2 115860 c.124.1.2 115861 1tzzA 392 1.31e+01 c.1.11.2 112896 d.54.1.1 112897 1oxxK 353 1.31e+01 b.40.6.3 93715 c.37.1.12 93716 2qcfA 260 1.31e+01 1ta3B 303 1.32e+01 c.1.8.3 106732 1e5dA 402 1.32e+01 1e5dA c.23.5.1 31208 d.157.1.3 42061 1jyeA 349 1.34e+01 c.93.1.1 67455 2bl9A 238 1.35e+01 1wchA 315 1.35e+01 c.45.1.2 114508 2is6A 680 1.38e+01 2yxoA 267 1.47e+01 1j24A 143 1.49e+01 c.52.1.20 84008 1cex 214 1.49e+01 1cex 1cexA 214 1.49e+01 c.69.1.30 31285 2d1gA 498 1.49e+01 3bv0A 437 1.50e+01 2o2xA 218 1.51e+01 1v8bA 479 1.55e+01 c.2.1.4 113564 c.23.12.3 113565 1zc0A 309 1.56e+01 2qapA 391 1.59e+01 1vc1A 110 1.60e+01 c.13.2.1 108493 2dc1A 236 1.61e+01 1nnlA 225 1.63e+01 c.108.1.4 85906 2bb3A 221 1.65e+01 c.90.1.1 128257 2bklA 695 1.69e+01 2np9A 440 1.70e+01 2c0rA 362 1.70e+01 c.67.1.4 129604 1g8fA 511 1.71e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 2c1cA 312 1.72e+01 c.56.5.1 129630 2fr5A 146 1.74e+01 c.97.1.1 133965 2e9lA 469 1.74e+01 2bzlA 325 1.74e+01 2i75A 320 1.75e+01 1rxwA 336 1.76e+01 a.60.7.1 98059 c.120.1.2 98060 2p1fA 291 1.76e+01 1bjnA 360 1.77e+01 1bjnA c.67.1.4 34469 1nbwB 117 1.77e+01 c.51.3.2 80396 2fwhA 134 1.77e+01 c.47.1.1 134242 1wekA 217 1.80e+01 c.129.1.1 114553 1l7vC 249 1.81e+01 c.37.1.12 73674 1mg7A 417 1.82e+01 d.14.1.6 84954 d.58.26.6 84955 1ab6A 125 1.85e+01 3chy c.23.1.1 31054 1k8kA 418 1.86e+01 c.55.1.1 68305 c.55.1.1 68306 1yrbA 262 1.87e+01 c.37.1.10 123915 2b7kA 200 1.87e+01 c.47.1.10 128042 2exxA 306 1.88e+01 1ir6A 424 1.89e+01 c.107.1.2 71342 1ab5A 125 1.92e+01 3chy c.23.1.1 31056 1ra9 159 1.95e+01 1vdrA 1ra9A 159 1.95e+01 c.71.1.1 34820 1npyA 271 1.97e+01 c.2.1.7 85995 c.58.1.5 85996 1aroL 151 1.97e+01 1lba d.118.1.1 41063 1y1lA 124 2.07e+01 c.44.1.1 116341 1draA 159 2.07e+01 1vdrA c.71.1.1 34831 1vhh 162 2.11e+01 1vhh 1vhhA 162 2.11e+01 d.65.1.2 39550 1vgvA 384 2.11e+01 c.87.1.3 100608 1vdmA 153 2.12e+01 c.61.1.1 119994 1e69B 322 2.13e+01 1e69B c.37.1.12 32377 2i2xB 258 2.13e+01 1f0nA 285 2.14e+01 1dqyA c.69.1.3 34636 2pa5A 314 2.16e+01 1nvtA 287 2.19e+01 c.2.1.7 86270 c.58.1.5 86271 2px0A 296 2.21e+01 1jg1A 235 2.27e+01 c.66.1.7 66661 2ixaA 444 2.28e+01 1vlpA 441 2.28e+01 c.1.17.2 108841 d.41.2.2 108840 1uilA 113 2.33e+01 d.50.1.1 113255 2qi9C 249 2.35e+01 2gruA 368 2.37e+01 2q9uA 414 2.42e+01 1b0uA 262 2.52e+01 1b0uA c.37.1.12 32370 2fcjA 119 2.53e+01 c.136.1.1 133269 1u0sY 118 2.53e+01 c.23.1.1 107566 1gvnB 287 2.54e+01 c.37.1.21 76354 1xyzA 347 2.54e+01 1taxA c.1.8.3 28804 1q2yA 140 2.57e+01 d.108.1.1 95655 1u0kA 288 2.62e+01 d.21.1.2 107547 d.21.1.2 107548 1g291 372 2.64e+01 1g291 2qlcA 126 2.70e+01 1pjqA 457 2.74e+01 c.2.1.11 94766 c.90.1.1 94767 e.37.1.1 94768 1ny1A 240 2.77e+01 c.6.2.3 86395 1fg7A 356 2.85e+01 1gewA c.67.1.1 59819 1thx 115 2.85e+01 1thx 1thxA 115 2.85e+01 c.47.1.1 32732 1gewA 356 2.86e+01 1gewA c.67.1.1 60470 1qorA 327 2.86e+01 1qorA b.35.1.2 24766 c.2.1.1 29782 2oc3A 303 2.93e+01 2jfzA 255 2.93e+01 1on3A 523 3.04e+01 c.14.1.4 87107 c.14.1.4 87108 1cpzA 68 3.09e+01 1aw0 d.58.17.1 39351 1d5rA 324 3.16e+01 1d5rA b.7.1.1 23181 c.45.1.1 32697 1x31B 404 3.16e+01 1f6dA 376 3.18e+01 1f6dA c.87.1.3 35467 2i8lA 156 3.19e+01 1ddsA 159 3.23e+01 1vdrA c.71.1.1 34858 2e3zA 465 3.24e+01 1d1qA 161 3.25e+01 1dg9A c.44.1.1 32642 2hc1A 291 3.25e+01 2fp4B 395 3.29e+01 c.23.4.1 133897 d.142.1.4 133898 2qgqA 304 3.29e+01 1b87A 181 3.34e+01 1b87A d.108.1.1 40797 1w85A 368 3.34e+01 c.36.1.11 114335 1w23A 360 3.37e+01 c.67.1.4 114088 1souA 194 3.37e+01 c.124.1.6 105858 1rpmA 278 3.37e+01 2shpA c.45.1.2 32679 2jdiD 482 3.41e+01 a.69.1.1 138263 b.49.1.1 138264 c.37.1.11 138265 2a0uA 383 3.42e+01 2hmcA 344 3.48e+01 1tlfA 301 3.49e+01 1tlfA c.93.1.1 35687 1sgwA 214 3.49e+01 c.37.1.12 105541 1lba 146 3.50e+01 1lba 1lbaA 146 3.50e+01 d.118.1.1 41062 1n71A 180 3.53e+01 d.108.1.1 85370 2yysA 286 3.54e+01 2h8lA 252 3.57e+01 1efaA 333 3.58e+01 1tlfA a.35.1.5 17106 c.93.1.1 35691 2atzA 180 3.59e+01 d.264.1.3 127317 2io8A 619 3.60e+01 c.30.1.7 137549 d.3.1.15 137550 d.142.1.8 137551 1vetA 124 3.61e+01 d.110.7.1 108553 2yrrA 353 3.66e+01 2a4nA 182 3.67e+01 d.108.1.1 126159 1u9iA 519 3.75e+01 c.37.1.11 119637 c.37.1.11 119638 1ek6A 348 3.82e+01 1xel c.2.1.2 29800 1e79D 482 3.84e+01 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 2gcfA 73 3.88e+01 2ai6A 125 3.92e+01 d.322.1.1 126818 1ht6A 405 3.96e+01 b.71.1.1 83629 c.1.8.1 83630 2nvoA 535 3.97e+01 2gekA 406 3.98e+01 1eudB 396 3.99e+01 2scuB c.23.4.1 31150 d.142.1.4 41571