# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1tiqA 180 8.47e-25 1vhsA 175 2.76e-22 d.108.1.1 -10794 1s3zA 165 1.81e-17 1gheA 177 3.84e-17 d.108.1.1 76222 1qsmA 152 5.46e-17 1qsmA d.108.1.1 40808 1qsoA 149 1.28e-16 1qsmA d.108.1.1 40812 1i12A 160 4.99e-14 1i21A d.108.1.1 61515 1i21A 159 6.92e-14 1i21A d.108.1.1 61549 1i1dA 161 7.62e-14 1i21A d.108.1.1 61526 1ufhA 180 3.12e-13 d.108.1.1 88485 1q2yA 140 3.30e-13 d.108.1.1 -10791 1on0A 158 3.43e-13 d.108.1.1 87095 1kuxA 207 5.97e-13 d.108.1.1 73021 1p0hA 318 7.57e-13 d.108.1.1 -10802 1cjwA 166 9.63e-13 1cjwA d.108.1.1 40818 1mk4A 157 2.67e-12 d.108.1.1 84979 1qstA 160 4.19e-12 1yghA d.108.1.1 40804 1b87A 181 5.98e-12 1b87A d.108.1.1 40797 1n71A 180 6.16e-12 d.108.1.1 85370 1nslA 184 7.82e-12 d.108.1.1 86137 1bo4B 168 2.51e-11 1bo4A d.108.1.1 40799 5gcnA 166 3.00e-11 1yghA d.108.1.1 40807 1bo4A 168 3.17e-11 1bo4A d.108.1.1 40798 1sqhA 312 3.00e-08 unknown_sccs -10812 1yghA 164 4.40e-08 1yghA d.108.1.1 40802 1m4iA 181 1.41e-06 d.108.1.1 74457 1nmtA 392 2.91e-05 1nmtA d.108.1.2 40823 d.108.1.2 40824 1bob 320 1.43e-04 1bob d.108.1.1 40816 1fy7A 278 1.26e-03 1fy7A d.108.1.1 40817 1iicA 422 2.11e-03 1nmtA d.108.1.2 62422 d.108.1.2 62423 1ne9A 335 1.32e-01 d.108.1.4 -10805 d.108.1.4 -10806 1dik 874 1.75e-01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1gox 370 2.33e-01 1gox c.1.4.1 28607 1opr 213 2.63e-01 1opr c.61.1.1 34091 1j6zA 376 3.19e-01 1yagA c.55.1.1 62667 c.55.1.1 62668 1kzfA 230 3.38e-01 d.108.1.3 73354 1qz5A 375 4.11e-01 c.55.1.1 -7590 c.55.1.1 -7591 1lh0A 213 4.40e-01 c.61.1.1 73896 1dgaA 375 6.01e-01 1yagA 1k4jA 230 7.53e-01 d.108.1.3 72057 1ig8A 486 8.27e-01 2yhx c.55.1.3 64746 c.55.1.3 64747 1d4xA 375 9.49e-01 1yagA c.55.1.1 59107 c.55.1.1 59108 1oroA 213 9.84e-01 1opr c.61.1.1 34093 2btfA 375 1.39e+00 1yagA c.55.1.1 33429 c.55.1.1 33430 1ecfB 504 1.71e+00 1ecfB c.61.1.1 34054 d.153.1.1 41821 1ecfA 504 1.79e+00 1ecfB c.61.1.1 34053 d.153.1.1 41820 1ml4A 308 1.83e+00 c.78.1.1 79255 c.78.1.1 79256 1lrzA 426 1.99e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1o50A 157 2.33e+00 d.37.1.1 -9604 d.37.1.1 -9605 1i0rA 169 2.46e+00 1i0rA b.45.1.2 61489 1i0sA 169 2.46e+00 1i0rA b.45.1.2 61491 1pxtB 390 2.65e+00 1afwA c.95.1.1 35906 c.95.1.1 35907 1rypI 222 3.06e+00 d.153.1.4 41877 1jmxA 494 3.70e+00 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 1yagA 375 3.88e+00 1yagA c.55.1.1 33449 c.55.1.1 33450 1cg2A 393 3.96e+00 1cg2A c.56.5.4 33844 d.58.19.1 39360 1afwA 393 4.20e+00 1afwA c.95.1.1 35900 c.95.1.1 35901 1iznB 277 4.56e+00 e.43.1.2 83848 1e79D 482 4.63e+00 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1skyE 473 4.87e+00 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1ad3A 452 5.04e+00 1ad3A c.82.1.1 35335 1fxqA 267 5.24e+00 1d9eA c.1.10.4 60108 1fwsA 267 5.60e+00 1d9eA c.1.10.4 60063 1shdA 107 5.84e+00 1fmk d.93.1.1 40440 1l3kA 196 5.89e+00 d.58.7.1 73539 d.58.7.1 73540 1stfI 98 5.91e+00 1stfI d.17.1.2 38006 1adt 356 6.22e+00 1anv a.54.1.1 17887 g.51.1.1 45362 g.51.1.1 45368 1uufA 369 6.57e+00 b.35.1.2 -3706 c.2.1.1 -5730 1pe1A 267 6.59e+00 c.1.10.4 -5553 1jqgA 433 6.90e+00 c.56.5.1 71791 d.58.3.1 71792 1n0uA 842 7.05e+00 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1n9lA 109 7.21e+00 d.110.3.6 85468 1i9zA 347 7.23e+00 1i9yA d.151.1.2 62102 1i9yA 347 7.41e+00 1i9yA d.151.1.2 62101 1cvjB 190 7.67e+00 1cvjB d.58.7.1 39193 d.58.7.1 39194 1o20A 427 7.82e+00 c.82.1.1 86556 1idk 359 7.90e+00 1qcxA b.80.1.2 28025 1lroA 267 7.96e+00 c.1.10.4 78161 1g6oA 330 8.00e+00 1g6oA c.37.1.11 32430 1f1xA 322 8.36e+00 d.32.1.3 83208 d.32.1.3 83209 1thm 279 8.76e+00 1gci c.41.1.1 32544 1h8eD 482 8.82e+00 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1ao0A 459 8.87e+00 1ecfB c.61.1.1 34049 d.153.1.1 41816 1cvjA 190 9.08e+00 1cvjB d.58.7.1 39191 d.58.7.1 39192 1tuhA 156 9.18e+00 1cr0A 296 9.33e+00 1cr1A c.37.1.11 32287 1cr1A 296 9.59e+00 1cr1A c.37.1.11 32286 1uyrA 737 9.70e+00 c.14.1.4 -6258 c.14.1.4 -6259 1repC 251 1.01e+01 1repC a.4.5.10 16125 a.4.5.10 16126 1b34B 118 1.02e+01 1b34B b.38.1.1 24797 1kblA 873 1.04e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1vjqA 79 1.06e+01 unknown_sccs -13478 1oltA 457 1.08e+01 unknown_sccs -5688 1fp2A 352 1.10e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1vhmA 195 1.13e+01 d.110.2.1 -10828 1ck7A 631 1.14e+01 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 1ofdA 1520 1.15e+01 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1an9A 340 1.23e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1ha1 184 1.26e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1rypH 205 1.30e+01 d.153.1.4 41876 1jcxA 267 1.34e+01 c.1.10.4 66510 1hrdA 449 1.37e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1fxpA 267 1.39e+01 1d9eA c.1.10.4 60106 1llwA 1520 1.40e+01 b.80.4.1 74017 c.1.4.1 74018 d.153.1.1 74019 1han 297 1.40e+01 1han d.32.1.3 38506 d.32.1.3 38507 1lkdA 297 1.40e+01 d.32.1.3 78059 d.32.1.3 78060 1hm9A 468 1.41e+01 b.81.1.4 65866 c.68.1.5 65867 1g97A 459 1.41e+01 1fwyA b.81.1.4 60394 c.68.1.5 60395 1drtA 324 1.51e+01 1drtA b.82.2.2 28130 1nmeA 146 1.52e+01 c.17.1.1 85874 1fpxA 352 1.52e+01 1fpxA a.4.5.29 59950 c.66.1.12 59951 1vhoA 346 1.57e+01 unknown_sccs -4283 c.56.5.4 -7893 1jatA 155 1.59e+01 1u9aA d.20.1.1 62818 1mo9A 523 1.61e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1tljA 213 1.65e+01 1pv5A 264 1.75e+01 unknown_sccs -10182 1nxuA 333 1.76e+01 c.122.1.1 86389 1bgvA 449 1.80e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1ve9A 347 1.87e+01 c.4.1.2 -6056 d.16.1.3 -9214 1ds1A 324 1.89e+01 1drtA b.82.2.2 28127 1aa8A 347 1.90e+01 1an9A 1fs0G 230 1.91e+01 1fs0G c.49.2.1 59999 1zfjA 491 1.95e+01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1f1uA 323 1.95e+01 d.32.1.3 83200 d.32.1.3 83201 1od2A 805 1.95e+01 c.14.1.4 86821 c.14.1.4 86822 1anv 356 1.96e+01 1anv a.54.1.1 17890 g.51.1.1 45365 g.51.1.1 45371 1eulA 994 1.98e+01 1eulA 1vicA 262 2.05e+01 c.68.1.13 -8252 1lgtA 297 2.07e+01 d.32.1.3 77956 d.32.1.3 77957 1cqqA 180 2.10e+01 1cqqA b.47.1.4 26422 1ci0A 228 2.10e+01 1ci0A b.45.1.1 25750 1ireB 228 2.14e+01 b.34.4.4 76770 1pbjA 125 2.19e+01 d.37.1.1 -9608 d.37.1.1 -9609 1ugpB 226 2.23e+01 1dryA 324 2.26e+01 1drtA b.82.2.2 28128 1oalA 151 2.29e+01 b.1.8.1 86739 1hynP 379 2.34e+01 1hynP d.112.1.2 61408 1hqsA 423 2.39e+01 1iso c.77.1.1 61154 1eysH 259 2.41e+01 6prcH b.41.1.1 25484 f.23.10.1 43517 1s01 283 2.42e+01 1gci c.41.1.1 32511 1cvl 319 2.42e+01 1cvl c.69.1.18 34786 1dioA 554 2.43e+01 1dioA c.1.19.3 29656 1eexA 554 2.43e+01 1dioA c.1.19.3 29650 1k89 449 2.52e+01 1k89 c.2.1.7 30218 c.58.1.1 33866 1cqxA 403 2.54e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1ufkA 254 2.56e+01 unknown_sccs -8103 1o0wA 252 2.64e+01 a.149.1.1 80751 d.50.1.1 80752 1gr8A 412 2.64e+01 1ockA 412 2.64e+01 c.117.1.1 86802 1gqeA 365 2.65e+01 e.38.1.1 70351 1fxlA 167 2.65e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1hfoA 113 2.66e+01 d.80.1.3 61006 1lckA 175 2.68e+01 1lckA b.34.2.1 24552 d.93.1.1 40421 1gc0A 398 2.68e+01 c.67.1.3 70168 1pvmA 184 2.68e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1fr9A 194 2.72e+01 1fr9A c.68.1.8 34579 1oj5A 132 2.80e+01 unknown_sccs -10848 1f2fA 104 2.88e+01 1fmk d.93.1.1 40455 1dbuA 158 2.92e+01 1dbuA d.116.1.1 40930 1qysA 106 2.93e+01 unknown_sccs -13432 1su4A 994 2.95e+01 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1isaA 192 2.98e+01 1avmA a.2.11.1 15731 d.44.1.1 38724 1iscA 192 2.99e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1fjcA 96 2.99e+01 1fjcA d.58.7.1 39212 1kvs 338 3.02e+01 1xel c.2.1.2 29799 1dbxA 158 3.02e+01 1dbuA d.116.1.1 40928 1aop 497 3.06e+01 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1yaiA 151 3.07e+01 1yaiA b.1.8.1 22289 1tib 269 3.15e+01 3tgl c.69.1.17 34738 1cwoA 165 3.20e+01 2cpl b.62.1.1 27445 1l1qA 186 3.20e+01 c.61.1.1 77653 1a63 130 3.27e+01 1a62 a.140.3.1 64710 b.40.4.5 64711 1udb 338 3.29e+01 1xel c.2.1.2 29787 1k8kA 418 3.31e+01 c.55.1.1 68305 c.55.1.1 68306 1xel 338 3.33e+01 1xel c.2.1.2 29786 2cpl 165 3.35e+01 2cpl b.62.1.1 27420 1ltdA 506 3.38e+01 1gox c.1.4.1 28618 d.120.1.1 41086 1h0pA 182 3.40e+01 b.62.1.1 76450 1tahA 318 3.45e+01 1cvl c.69.1.18 34775 1xjo 284 3.47e+01 1xjo c.56.5.4 33843 1tahB 318 3.48e+01 1cvl c.69.1.18 34774 1bdg 451 3.52e+01 1qhaA c.55.1.3 33461 c.55.1.3 33462 1o0sA 605 3.55e+01 c.2.1.7 86540 c.58.1.3 86541 1kkcA 221 3.57e+01 a.2.11.1 68660 d.44.1.1 68661 1udc 338 3.57e+01 1xel c.2.1.2 29785 1lvwA 295 3.62e+01 c.68.1.6 84723 1qr6A 584 3.65e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 1feuA 206 3.67e+01 1feuA b.53.1.1 59801 1kbjA 412 3.68e+01 c.1.4.1 72280 2udpA 338 3.79e+01 1xel c.2.1.2 29791 1o5oA 221 3.83e+01 c.61.1.1 -7954 1gci 269 3.86e+01 1gci c.41.1.1 32503 1shbA 104 3.90e+01 1fmk d.93.1.1 40425