# List of top-scoring protein chains for t2k-100-30-str 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 1bpoA 494 1.64e-02 1bpoA a.118.1.4 19143 b.69.6.1 27670 1ezvC 385 5.14e-01 1be3C f.2.1.8 59545 1kyoC 385 5.27e-01 1qfcA 306 2.62e+00 1uteA d.159.1.1 42077 1knyA 253 3.33e+00 1knyA e.9.1.3 43232 1k8kG 151 3.37e+00 a.118.13.1 68313 1rdg 53 3.62e+00 1rb9 g.41.5.1 45221 1k32A 1045 4.18e+00 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1i4lA 224 4.58e+00 1i49A h.4.7.1 61718 1f0xA 571 4.72e+00 1f0xA d.58.32.2 39483 d.145.1.1 41746 1jksA 294 4.95e+00 1pyp 285 5.76e+00 1wgjA b.40.5.1 25409 1jk0A 419 6.08e+00 a.25.1.2 63142 1e6yA 569 6.20e+00 1mroA a.89.1.1 18529 d.58.31.2 39447 1jlxA 304 6.30e+00 1jlyA b.42.3.1 25583 b.42.3.1 25584 1gd1O 334 6.78e+00 1dssG c.2.1.3 29962 d.81.1.1 39877 1qs1A 462 7.73e+00 1qs1A d.166.1.1 42260 d.166.1.1 42261 1gaxA 862 7.78e+00 1gaxA a.27.1.1 16928 b.51.1.1 26893 c.26.1.1 31595 1jlyA 304 7.91e+00 1jlyA b.42.3.1 25587 b.42.3.1 25588 1f4tA 368 8.19e+00 1f4tA a.104.1.1 18973 2gd1O 334 8.30e+00 1dssG c.2.1.3 29978 d.81.1.1 39893 1a7cA 379 9.26e+00 1sek e.1.1.1 42660 1soxA 466 9.78e+00 1soxA b.1.1.5 21947 d.120.1.1 41090 d.176.1.1 42563 1f6fA 199 9.86e+00 1f6fA a.26.1.1 16839 1dn1B 267 1.03e+01 1dn1B a.47.2.1 17771 1h9dB 134 1.07e+01 2jhbA b.54.1.1 60822 1e50B 134 1.09e+01 2jhbA b.54.1.1 59245 1avwB 171 1.21e+01 1wba b.42.4.1 25599 1uteA 313 1.26e+01 1uteA d.159.1.1 42078 1j8fA 323 1.27e+01 1j8fA c.31.1.5 62738 1g41A 444 1.28e+01 1do0A c.37.1.13 32450 1jm7A 112 1.37e+01 g.44.1.1 66880 1qcrC 378 1.37e+01 1be3C f.2.1.8 43673 1qs2A 401 1.46e+01 1qs1A d.166.1.1 42268 d.166.1.1 42269 1bxlA 181 1.47e+01 1maz f.1.4.1 43396 1dcs 311 1.48e+01 1dcs b.82.2.1 28124 1eqjA 511 1.60e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1lj5A 379 1.69e+01 1plr 258 1.71e+01 1plq d.131.1.2 41390 d.131.1.2 41391 1be3C 379 1.72e+01 1be3C f.2.1.8 43665 1gg3A 279 1.78e+01 1ef1A a.11.2.1 16372 b.55.1.5 27007 d.15.1.4 37615 1im2A 444 1.78e+01 1do0A c.37.1.13 62564 1jd0A 263 1.84e+01 2cba b.74.1.1 62888 1kanA 253 1.87e+01 1knyA e.9.1.3 43234 3pflA 759 1.94e+01 1cm5A c.7.1.1 30673 1h99A 224 1.95e+01 a.142.1.1 60814 a.142.1.1 60815 1sly 618 2.07e+01 1qsaA a.118.5.1 19184 d.2.1.6 36990 2kfnA 605 2.14e+01 1xwl c.55.3.5 33682 e.8.1.1 42975 2jhbA 143 2.19e+01 2jhbA b.54.1.1 26950 1qsvA 101 2.22e+01 1fltX b.1.1.4 21771 1li1A 229 2.29e+01 1plq 258 2.29e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1cm5A 759 2.31e+01 1cm5A c.7.1.1 30671 1g25A 65 2.32e+01 1g25A g.44.1.1 45325 1h6pA 203 2.40e+01 a.146.1.1 60690 1dc1A 323 2.40e+01 1dc1A c.52.1.11 33321 1f16A 192 2.45e+01 1f16A f.1.4.1 43400 1i1iP 681 2.67e+01 1i1iP d.92.1.5 40297 1e8yA 966 2.70e+01 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1kgnA 329 2.72e+01 a.25.1.2 68584 1h9jA 145 2.73e+01 1h9jA b.40.6.2 60829 b.40.6.2 60830 1chc 68 2.73e+01 1chc g.44.1.1 45323 1h9mA 145 2.84e+01 1h9jA b.40.6.2 60833 b.40.6.2 60834 1ijqA 316 2.88e+01 1ijqA b.68.5.1 62506 g.3.11.1 62507 1i4tB 224 2.96e+01 h.4.7.1 61730 1lmzA 187 3.00e+01 1ezvB 352 3.03e+01 1ezvB d.185.1.1 59543 d.185.1.1 59544 1k6iA 352 3.08e+01 c.2.1.2 68223 1b06A 210 3.14e+01 1avmA a.2.11.1 15740 d.44.1.1 38737 1rb9 53 3.18e+01 1rb9 g.41.5.1 45214 1ejjA 511 3.20e+01 1ejjA c.105.1.1 59422 c.76.1.3 59423 1k8tA 510 3.22e+01 e.9.1.4 68316 8rxnA 52 3.23e+01 1rb9 g.41.5.1 45215 1dkgD 383 3.25e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1l6pA 125 3.27e+01 1hxs2 272 3.28e+01 1qcrA 446 3.29e+01 1be3A d.185.1.1 59025 d.185.1.1 59026 1hqcA 324 3.37e+01 1hqcA a.4.5.11 16127 c.37.1.13 32424 1bk5A 422 3.42e+01 1bk5A a.118.1.1 19130 1d5tA 433 3.45e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1a36A 592 3.50e+01 1a36A a.2.8.1 15715 d.163.1.2 42173 e.15.1.1 43266 1ew3A 159 3.53e+01 1mup b.60.1.1 27114 1kqfC 217 3.56e+01 1e9gA 286 3.58e+01 1wgjA b.40.5.1 59393 1qsaA 618 3.58e+01 1qsaA a.118.5.1 19182 d.2.1.6 36988 1i7wA 538 3.64e+01 3bct a.118.1.1 61909 1i49A 224 3.64e+01 1i49A h.4.7.1 61679 8prkA 287 3.71e+01 1wgjA b.40.5.1 25395 1lcyA 325 3.73e+01 1otcA 495 3.89e+01 1otcA b.40.4.3 25307 b.40.4.3 25308 b.40.4.3 25309 1hulA 108 3.90e+01 1hulA a.26.1.2 16865 1qklA 127 3.91e+01 1qklA d.78.1.2 39754