# List of top-scoring protein chains for T0220.t2k-w0.5 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 1gpjA 404 1.02e-04 a.151.1.1 65451 c.2.1.7 65452 d.58.39.1 65453 1nvtA 287 6.17e-03 c.2.1.7 86270 c.58.1.5 86271 1lldA 319 6.21e-02 3ldh c.2.1.5 30177 d.162.1.1 42144 1nytA 271 8.27e-02 c.2.1.7 86417 c.58.1.5 86418 1j3vA 289 1.64e-01 1np3A 338 4.09e-01 a.100.1.2 85946 c.2.1.6 85947 1evyA 366 5.97e-01 1evyA a.100.1.6 18811 c.2.1.6 30215 1a5z 319 6.32e-01 1ceqA c.2.1.5 30181 d.162.1.1 42148 1digA 306 6.59e-01 1a4iA c.2.1.7 30282 c.58.1.2 33930 1a4iA 301 6.63e-01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1ldnA 316 8.62e-01 1hyhA c.2.1.5 30166 d.162.1.1 42133 1ldbA 317 8.65e-01 1luaA 287 1.12e+00 c.2.1.7 78216 c.58.1.4 78217 1qmgA 524 1.31e+00 1qmgA a.100.1.2 18785 c.2.1.6 30182 1vi2A 300 1.32e+00 1ecl 597 1.42e+00 1ecl e.10.1.1 43238 1cy2A 599 1.42e+00 1ecl e.10.1.1 43241 1mw9X 592 1.43e+00 1npdA 288 1.45e+00 c.2.1.7 80681 c.58.1.5 80682 1o8bA 219 1.53e+00 c.35.1.2 81180 d.58.40.1 81181 1bg6 359 1.78e+00 1bg6 a.100.1.5 18810 c.2.1.6 30214 1aorA 605 2.41e+00 1b25A a.110.1.1 19042 d.152.1.1 41794 1jr6A 142 2.48e+00 c.37.1.14 71821 1vjtA 483 2.51e+00 1pzgA 331 2.62e+00 1bvuA 418 2.78e+00 1hwyA c.2.1.7 30226 c.58.1.1 33874 1hyuA 521 3.12e+00 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1p77A 272 3.21e+00 1pjcA 361 3.27e+00 1sayA c.2.1.4 30101 c.23.12.2 31361 1r4mB 431 3.86e+00 1gd1O 334 4.17e+00 1dssG c.2.1.3 29962 d.81.1.1 39877 1nqoA 334 4.18e+00 c.2.1.3 86044 d.81.1.1 86045 1nptO 334 4.18e+00 c.2.1.3 85987 d.81.1.1 85988 1nhp 447 4.22e+00 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1ngvB 442 4.30e+00 c.111.1.2 85699 1lsuA 147 4.31e+00 c.2.1.9 74250 1edzA 320 4.46e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1nhq 447 4.50e+00 1nhp c.3.1.5 30551 c.3.1.5 30552 d.87.1.1 40197 1b7gO 340 4.83e+00 1b7gO c.2.1.3 29992 d.81.1.1 39907 1nhr 447 4.83e+00 1nhp c.3.1.5 30553 c.3.1.5 30554 d.87.1.1 40198 1nhs 447 4.86e+00 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 2dbvO 334 4.88e+00 1dssG c.2.1.3 29970 d.81.1.1 39885 1npx 447 4.97e+00 1nhp c.3.1.5 30557 c.3.1.5 30558 d.87.1.1 40200 1f8wA 447 5.06e+00 1nhp c.3.1.5 30561 c.3.1.5 30562 d.87.1.1 40202 1cl1A 395 5.15e+00 1cl2A c.67.1.3 34395 1beo 98 5.43e+00 1bxm a.134.1.1 19619 1lriA 98 5.54e+00 a.134.1.1 74223 1ff9A 450 5.57e+00 1ff9A c.2.1.3 30039 d.81.1.2 39954 1b0aA 288 5.68e+00 1a4iA c.2.1.7 30286 c.58.1.2 33934 1ni9A 338 5.98e+00 e.7.1.2 85739 1bxm 99 6.01e+00 1bxm a.134.1.1 19618 3dbvO 334 6.14e+00 1dssG c.2.1.3 29982 d.81.1.1 39897 1riqA 465 6.23e+00 1kl7A 514 6.32e+00 c.79.1.1 72678 1ltqA 301 6.56e+00 c.108.1.9 78208 c.37.1.1 78209 1keaA 221 6.71e+00 a.96.1.2 68491 1fezA 256 6.73e+00 1fezA c.108.1.3 43343 1guyA 309 6.91e+00 c.2.1.5 65582 d.162.1.1 65583 8ohm 435 6.98e+00 1heiA c.37.1.14 32469 c.37.1.14 32470 1ur5A 309 6.99e+00 1rqlA 267 7.02e+00 1pgjA 478 7.05e+00 2pgd a.100.1.1 18783 c.2.1.6 30195 1a1vA 476 7.69e+00 1heiA c.37.1.14 32467 c.37.1.14 32468 1m6eX 359 7.97e+00 1uz5A 402 8.05e+00 1jayA 212 8.08e+00 c.2.1.6 66478 1hyhA 309 8.56e+00 1hyhA c.2.1.5 30150 d.162.1.1 42117 1f06A 320 8.89e+00 1dapA c.2.1.3 59556 d.81.1.3 59557 1v7cA 351 9.27e+00 1eufA 227 9.68e+00 5ptp b.47.1.2 59506 1llc 325 9.96e+00 1hyhA c.2.1.5 30176 d.162.1.1 42143 1pg5A 299 1.00e+01 1pn0A 665 1.07e+01 1dbrA 231 1.08e+01 1qk3A c.61.1.1 34041 1fsgA 233 1.09e+01 1qk3A c.61.1.1 34029 1h2bA 359 1.13e+01 1f1oA 431 1.15e+01 1f1oA a.127.1.1 19433 1qycA 308 1.16e+01 1dxy 333 1.19e+01 1dxy c.2.1.4 30094 c.23.12.1 31354 1rxiA 131 1.21e+01 1d2rA 326 1.28e+01 1d2rB c.26.1.1 31572 1fg7A 356 1.31e+01 1gewA c.67.1.1 59819 1fohA 664 1.35e+01 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1ez4A 318 1.35e+01 c.2.1.5 64917 d.162.1.1 64918 1db3A 372 1.36e+01 1db3A c.2.1.2 29813 2dikA 873 1.39e+01 1dik c.1.12.2 29306 c.8.1.1 30704 d.142.1.5 41574 1dik 874 1.40e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1nqfA 594 1.46e+01 f.4.3.3 86028 1d4gA 430 1.51e+01 1b3rA c.2.1.4 30114 c.23.12.3 31374 1o6zA 303 1.53e+01 c.2.1.5 81107 d.162.1.1 81108 1i6lA 328 1.54e+01 c.26.1.1 66041 2hlpA 303 1.56e+01 1ceqA c.2.1.5 30141 d.162.1.1 42108 2pii 112 1.57e+01 2pii d.58.5.1 39071 1jdeA 873 1.58e+01 c.1.12.2 66546 c.8.1.1 66547 d.142.1.5 66548 1kblA 873 1.58e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1ggoA 873 1.58e+01 1dik c.1.12.2 29305 c.8.1.1 30703 d.142.1.5 41573 1d3aA 303 1.59e+01 1ceqA c.2.1.5 30143 d.162.1.1 42110 1r3fA 314 1.60e+01 1k8wA 327 1.67e+01 b.122.1.1 83094 d.58.35.2 68317 d.58.35.2 83095 1fmcA 255 1.69e+01 1cydA c.2.1.2 29856 1b3rA 431 1.77e+01 1b3rA c.2.1.4 30106 c.23.12.3 31366 1jf2A 195 1.78e+01 1ej3A a.39.1.5 62930 1heiA 451 1.83e+01 1heiA c.37.1.14 32463 c.37.1.14 32464 1brmA 367 2.00e+01 1brmA c.2.1.3 30030 d.81.1.1 39945 1l3iA 192 2.07e+01 c.66.1.22 77676 1kn1A 160 2.12e+01 a.1.1.3 77455 1je5A 206 2.24e+01 1je5A b.40.4.7 62909 1obbA 480 2.26e+01 c.2.1.5 86760 d.162.1.2 86761 1c0pA 363 2.30e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1d4fA 431 2.31e+01 1b3rA c.2.1.4 30110 c.23.12.3 31370 1j32A 388 2.32e+01 c.67.1.1 77067 1drw 273 2.39e+01 1drw c.2.1.3 30057 d.81.1.3 39972 1nv8A 284 2.51e+01 c.66.1.30 86224 1a7aA 432 2.56e+01 1b3rA c.2.1.4 30104 c.23.12.3 31364 1cf2O 337 2.57e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1li4A 432 2.58e+01 c.2.1.4 84616 c.23.12.3 84617 1gtmA 419 2.59e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1vimA 200 2.62e+01 1i2aA 219 2.63e+01 1ebdA 455 2.63e+01 1lvl c.3.1.5 30577 c.3.1.5 30578 d.87.1.1 40210 1fa2A 498 2.65e+01 1byb c.1.8.1 28797 1t2eA 322 2.86e+01 1qk5A 233 2.89e+01 1qk3A c.61.1.1 34035 1qfuH 223 3.00e+01 1igtB b.1.1.1 20293 b.1.1.2 21285 1r0pA 312 3.08e+01 1f0kA 364 3.14e+01 1f0kA c.87.1.2 35465 1a3c 181 3.14e+01 1a3c c.61.1.1 34095 1qv1A 195 3.15e+01 1rliA 184 3.16e+01 1bwq 233 3.17e+01 1wab c.23.10.3 31343 1ei9A 279 3.19e+01 1ei9A c.69.1.13 34713 1g8pA 350 3.25e+01 1g8pA c.37.1.20 60376 1mjiA 182 3.26e+01 d.77.1.1 79208 1wab 232 3.27e+01 1wab c.23.10.3 31341 1el4A 195 3.29e+01 1ej3A a.39.1.5 59453 1bwr 233 3.34e+01 1wab c.23.10.3 31344 1t2dA 322 3.35e+01 1k6xA 352 3.36e+01 c.2.1.2 68238 1a1s 314 3.40e+01 1othA c.78.1.1 35258 c.78.1.1 35259 1qhhB 273 3.40e+01 1pjr 1pvvA 315 3.42e+01 1dljA 402 3.43e+01 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1njjA 425 3.44e+01 1nofA 383 3.48e+01 1gv0A 310 3.51e+01 c.2.1.5 65594 d.162.1.1 65595 1nqeA 594 3.53e+01 f.4.3.3 86027 1psdA 409 3.58e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1hyeA 313 3.58e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1amuA 563 3.58e+01 1amuA e.23.1.1 43351 1ekjA 221 3.59e+01 1ekjB c.53.2.1 33364 1k3rA 268 3.61e+01 b.40.4.10 72018 c.116.1.2 72019 1pkm 530 3.65e+01 1a49A b.58.1.1 27051 c.1.12.1 29254 c.49.1.1 33108 1kyqA 274 3.77e+01 c.2.1.11 73281 e.37.1.1 73282 1hw7A 255 3.78e+01 1i7fA d.193.1.1 61297 1eu1A 780 3.79e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1b33A 160 3.80e+01 1qgwC a.1.1.3 15649 2todA 425 3.82e+01 7odcA b.49.2.3 26489 c.1.6.1 28651 1ot1A 686 3.83e+01 b.1.18.2 87392 b.3.1.1 87393 b.71.1.1 87394 c.1.8.1 87395 1dliA 402 3.89e+01 1dliA a.100.1.4 18809 c.2.1.6 30213 c.26.3.1 31622 1cgw 686 3.95e+01 1cxlA b.1.18.2 21822 b.3.1.1 22491 b.71.1.1 27729 c.1.8.1 28716 1kclA 686 3.97e+01 b.1.18.2 68445 b.3.1.1 68446 b.71.1.1 68447 c.1.8.1 68448