# List of top-scoring protein chains for t04-100-30-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.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 1.19e-19 1vhsA 175 4.17e-19 d.108.1.1 -10794 1nslA 184 1.08e-15 d.108.1.1 86137 1s3zA 165 4.09e-14 1gheA 177 6.10e-14 d.108.1.1 76222 1qsoA 149 6.29e-14 1qsmA d.108.1.1 40812 1qsmA 152 7.00e-14 1qsmA d.108.1.1 40808 1on0A 158 7.28e-13 d.108.1.1 87095 1mk4A 157 2.00e-12 d.108.1.1 84979 1cjwA 166 5.29e-12 1cjwA d.108.1.1 40818 1i1dA 161 1.08e-11 1i21A d.108.1.1 61526 1n71A 180 1.40e-11 d.108.1.1 85370 1qstA 160 1.84e-11 1yghA d.108.1.1 40804 1i12A 160 1.86e-11 1i21A d.108.1.1 61515 1bo4A 168 5.81e-11 1bo4A d.108.1.1 40798 1q2yA 140 6.49e-11 d.108.1.1 -10791 1p0hA 318 6.73e-11 d.108.1.1 -10802 1yghA 164 9.61e-09 1yghA d.108.1.1 40802 1sqhA 312 3.62e-08 unknown_sccs -10812 1m4iA 181 1.32e-06 d.108.1.1 74457 1iicA 422 2.78e-04 1nmtA d.108.1.2 62422 d.108.1.2 62423 1bob 320 2.79e-04 1bob d.108.1.1 40816 1fy7A 278 2.98e-03 1fy7A d.108.1.1 40817 1kzfA 230 3.96e-02 d.108.1.3 73354 1lrzA 426 6.79e-02 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1uyrA 737 2.28e-01 c.14.1.4 -6258 c.14.1.4 -6259 1ne9A 335 2.58e-01 d.108.1.4 -10805 d.108.1.4 -10806 1thm 279 6.84e-01 1gci c.41.1.1 32544 1o50A 157 8.09e-01 d.37.1.1 -9604 d.37.1.1 -9605 1im5A 180 1.80e+00 unknown_sccs 66211 1o5oA 221 1.91e+00 c.61.1.1 -7954 1dar 691 1.97e+00 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1rfmA 344 2.07e+00 c.122.1.1 -8032 1qysA 106 2.16e+00 unknown_sccs -13432 1afwA 393 2.20e+00 1afwA c.95.1.1 35900 c.95.1.1 35901 1flcA 432 2.66e+00 1flcA b.19.1.3 23837 c.23.10.2 31337 1lh0A 213 3.18e+00 c.61.1.1 73896 1fjgK 129 3.48e+00 1fjfK c.55.4.1 33733 1h75A 81 3.51e+00 1h75A c.47.1.1 60716 1oltA 457 3.53e+00 unknown_sccs -5688 1nkiA 135 4.21e+00 d.32.1.2 -9544 1lqpA 135 4.22e+00 d.32.1.2 78151 1uehA 253 4.30e+00 c.101.1.1 -6879 1han 297 5.04e+00 1han d.32.1.3 38506 d.32.1.3 38507 1lkdA 297 5.18e+00 d.32.1.3 78059 d.32.1.3 78060 1opr 213 5.47e+00 1opr c.61.1.1 34091 1uurA 473 5.69e+00 a.47.1.1 -968 b.2.5.5 -2904 d.93.1.1 -10632 1mxgA 435 5.73e+00 b.71.1.1 85193 c.1.8.1 85194 1s48A 609 6.10e+00 e.8.1.4 -11955 1pvmA 184 6.11e+00 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1f9mA 112 6.71e+00 1erv c.47.1.1 32736 1tljA 213 6.82e+00 1f1xA 322 7.05e+00 d.32.1.3 83208 d.32.1.3 83209 1ofdA 1520 7.32e+00 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1vhmA 195 7.48e+00 d.110.2.1 -10828 1g2qA 187 7.57e+00 c.61.1.1 65117 1oroA 213 7.83e+00 1opr c.61.1.1 34093 1f1uA 323 7.94e+00 d.32.1.3 83200 d.32.1.3 83201 1faaA 124 8.58e+00 1erv c.47.1.1 32738 1pe1A 267 8.88e+00 c.1.10.4 -5553 1fwsA 267 9.28e+00 1d9eA c.1.10.4 60063 1hdoA 206 9.92e+00 1he2A c.2.1.2 60965 1vicA 262 1.05e+01 c.68.1.13 -8252 1bjwA 382 1.05e+01 1bjwA c.67.1.1 34349 1p6oA 161 1.10e+01 c.97.1.2 -8774 1pbjA 125 1.10e+01 d.37.1.1 -9608 d.37.1.1 -9609 1o20A 427 1.12e+01 c.82.1.1 86556 1gci 269 1.13e+01 1gci c.41.1.1 32503 1gsa 316 1.14e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1wdkC 390 1.17e+01 1stfI 98 1.18e+01 1stfI d.17.1.2 38006 1tuhA 156 1.19e+01 1shdA 107 1.19e+01 1fmk d.93.1.1 40440 1r31A 428 1.21e+01 d.58.20.1 -10108 d.179.1.1 -11716 1b5pA 385 1.21e+01 c.67.1.1 -8133 1jcxA 267 1.22e+01 c.1.10.4 66510 1g8yA 279 1.26e+01 1g8yA c.37.1.11 32302 1su4A 994 1.26e+01 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1fxqA 267 1.28e+01 1d9eA c.1.10.4 60108 1gv3A 248 1.29e+01 a.2.11.1 70585 d.44.1.1 70586 1r62A 160 1.29e+01 1c96A 753 1.30e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1i1iP 681 1.32e+01 1i1iP d.92.1.5 40297 1usgA 346 1.32e+01 c.93.1.1 -8635 1mc0A 368 1.33e+01 d.110.2.1 78937 d.110.2.1 78938 1idk 359 1.33e+01 1qcxA b.80.1.2 28025 1dozA 309 1.40e+01 1ak1 c.92.1.1 35592 1eulA 994 1.40e+01 1eulA 1udmA 149 1.52e+01 1fsgA 233 1.53e+01 1qk3A c.61.1.1 34029 1jqgA 433 1.57e+01 c.56.5.1 71791 d.58.3.1 71792 1hqsA 423 1.61e+01 1iso c.77.1.1 61154 1k2yX 463 1.64e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1bouB 302 1.65e+01 1bouB c.56.6.1 33859 1hh1A 143 1.66e+01 1gefA c.52.1.18 61036 8acn 754 1.66e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1ahxA 396 1.67e+01 1ajsA c.67.1.1 34293 4pfk 319 1.68e+01 3pfk c.89.1.1 35582 1ad3A 452 1.70e+01 1ad3A c.82.1.1 35335 1ars 396 1.70e+01 1ajsA c.67.1.1 34287 1qisA 396 1.71e+01 1ajsA c.67.1.1 34284 1hrdA 449 1.74e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1iscA 192 1.74e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1nrgA 261 1.76e+01 b.45.1.1 80694 1p5dX 463 1.76e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1j2rA 199 1.77e+01 unknown_sccs -6799 1iznB 277 1.85e+01 e.43.1.2 83848 1s4bP 674 1.88e+01 1nvmA 345 1.89e+01 a.5.7.1 86249 c.1.10.5 86250 1d5tA 433 1.93e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1qgxA 357 1.95e+01 1qgxA e.7.1.1 42973 1kw3B 292 2.06e+01 d.32.1.3 77549 d.32.1.3 77550 1vhoA 346 2.07e+01 unknown_sccs -4283 c.56.5.4 -7893 1jykA 254 2.07e+01 c.68.1.13 67458 1nlfA 279 2.10e+01 c.37.1.11 85850 1befA 181 2.11e+01 1befA b.47.1.3 26419 1l1qA 186 2.12e+01 c.61.1.1 77653 1bzyA 217 2.13e+01 1qk3A c.61.1.1 34071 1ofuA 320 2.16e+01 c.32.1.1 86972 d.79.2.1 86973 1qwgA 251 2.25e+01 unknown_sccs -5678 1bgvA 449 2.28e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1gox 370 2.32e+01 1gox c.1.4.1 28607 1lfwA 470 2.39e+01 c.56.5.4 77942 d.58.19.1 77943 1ka1A 357 2.40e+01 e.7.1.1 68369 1cr1A 296 2.45e+01 1cr1A c.37.1.11 32286 1cg2A 393 2.47e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1vheA 373 2.50e+01 unknown_sccs -4280 c.56.5.4 -7890 1j8yF 297 2.57e+01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1lkkA 105 2.61e+01 1lckA d.93.1.1 40412 1ml4A 308 2.66e+01 c.78.1.1 79255 c.78.1.1 79256 1fs0G 230 2.93e+01 1fs0G c.49.2.1 59999 1rvgA 305 2.96e+01 c.1.10.2 -5500 1dik 874 2.98e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1j08A 226 2.99e+01 c.47.1.2 83855 c.47.1.2 83856 1rtqA 299 3.00e+01 c.56.5.4 -7864 1b34B 118 3.02e+01 1b34B b.38.1.1 24797 1bmtA 246 3.11e+01 1bmtA a.46.1.1 17757 c.23.6.1 31235 1n40A 396 3.12e+01 a.104.1.1 79977 1fxlA 167 3.20e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1b8gA 429 3.20e+01 1b8gA c.67.1.4 34499 1my6A 199 3.21e+01 a.2.11.1 85232 d.44.1.1 85233 1gd0A 122 3.23e+01 1dptA d.80.1.3 39834 1edzA 320 3.31e+01 1ee9A c.2.1.7 30287 c.58.1.2 33935 1i9zA 347 3.41e+01 1i9yA d.151.1.2 62102 1npk 154 3.45e+01 1npk d.58.6.1 39099 1j8mF 297 3.47e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1qnrA 344 3.48e+01 1qnoA c.1.8.3 28834 1gq6A 313 3.48e+01 c.42.1.1 70341 1p4kA 295 3.55e+01 d.153.1.5 87772 1gwiA 411 3.55e+01 a.104.1.1 76364 1kblA 873 3.56e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1jatA 155 3.56e+01 1u9aA d.20.1.1 62818 2bbkH 355 3.60e+01 2bbkH b.69.2.1 27634 1seiA 130 3.62e+01 1seiA d.140.1.1 41463 1p0zA 131 3.62e+01 unknown_sccs -10853 1nxuA 333 3.65e+01 c.122.1.1 86389 1o0wA 252 3.67e+01 a.149.1.1 80751 d.50.1.1 80752 1gk8I 140 3.72e+01 d.73.1.1 65242 1cvl 319 3.81e+01 1cvl c.69.1.18 34786 1o6aA 96 3.86e+01 unknown_sccs -4101 1hfoA 113 3.91e+01 d.80.1.3 61006 1b9mA 265 3.91e+01 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1fp3A 402 3.93e+01 1fp3A a.102.1.3 18842 1igs 248 3.95e+01 1a53 c.1.2.4 28565 1v2xA 194 3.95e+01 c.116.1.1 -6704 1vc4A 254 3.96e+01 c.1.2.4 -5172