# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1t62A 166 1.53e-02 1khiA 176 1.17e+00 b.34.5.2 77408 b.40.4.5 77409 1e8uA 454 1.94e+00 1e8tA b.68.1.1 59389 1usrA 454 2.36e+00 b.68.1.1 -4569 1qxyA 252 3.50e+00 d.127.1.1 -10993 1o58A 303 3.85e+00 c.79.1.1 -8503 1j6nA 303 3.92e+00 1ky3A 182 4.11e+00 c.37.1.8 73193 1e8tA 454 5.12e+00 1e8tA b.68.1.1 59387 1ab8A 220 5.66e+00 1azsA d.58.29.1 39414 1xgsA 295 6.27e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 2sns 149 6.37e+00 1snc b.40.1.1 24860 1bco 327 6.81e+00 1bco b.48.1.1 26431 c.55.3.3 33676 1o0xA 262 7.47e+00 d.127.1.1 80755 1db3A 372 7.51e+00 1db3A c.2.1.2 29813 1ey4A 149 7.79e+00 1snc b.40.1.1 24815 1azsB 212 7.97e+00 1azsA d.58.29.1 39423 1v5lA 103 8.04e+00 1t82A 155 9.15e+00 1su4A 994 9.95e+00 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1j54A 186 1.07e+01 c.55.3.5 77077 1fjgQ 105 1.10e+01 1fjfQ b.40.4.5 25352 1iujA 106 1.11e+01 unknown_sccs -9953 1g8fA 511 1.15e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 3erk 364 1.16e+01 1hcl d.144.1.7 41654 1ov3A 138 1.22e+01 b.34.2.1 87451 b.34.2.1 87452 1mwvA 714 1.24e+01 a.93.1.3 85161 a.93.1.3 85162 1v2bA 177 1.26e+01 1snc 149 1.29e+01 1snc b.40.1.1 24813 1r6xA 395 1.35e+01 b.122.1.3 -5125 c.26.1.5 -6620 1i1kA 309 1.37e+01 1daaA e.17.1.1 61533 1gmuA 143 1.45e+01 b.107.1.1 65335 d.58.38.1 65336 1bqsA 209 1.47e+01 1bqsA b.1.1.4 21704 b.1.1.4 21705 1qb7A 236 1.55e+01 1qb7A c.61.1.1 34087 1jnyA 435 1.56e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1shg 62 1.67e+01 1ckaA b.34.2.1 24493 1lj2C 28 1.71e+01 1kzfA 230 1.85e+01 d.108.1.3 73354 8acn 754 1.85e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1pwt 61 1.89e+01 1tud b.34.2.1 24490 1k0eA 453 1.93e+01 d.161.1.1 67938 1amj 754 1.98e+01 1amj c.8.2.1 30725 c.83.1.1 35401 1of5B 184 2.00e+01 d.17.4.2 86934 1sty 150 2.02e+01 1snc b.40.1.1 24812 1r0pA 312 2.03e+01 d.144.1.7 -11377 1dvoA 152 2.04e+01 1dvoA a.136.1.1 19623 1b0jA 754 2.06e+01 1amj c.8.2.1 30719 c.83.1.1 35395 1earA 147 2.08e+01 b.107.1.1 64875 d.58.38.1 64876 1l1qA 186 2.11e+01 c.61.1.1 77653 1gg4A 452 2.12e+01 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1c96A 753 2.12e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1jokA 149 2.14e+01 1snc b.40.1.1 63214 1jssA 224 2.20e+01 d.129.3.2 71844 1q1lA 401 2.20e+01 unknown_sccs -11166 1oruA 195 2.23e+01 unknown_sccs -4390 1iyeA 309 2.25e+01 e.17.1.1 83786 1devC 196 2.27e+01 1ygs b.26.1.1 23915 1k0gA 453 2.28e+01 d.161.1.1 67940 1omzA 293 2.34e+01 c.68.1.15 87093 1g2bA 62 2.35e+01 1tud b.34.2.1 24488 7acn 754 2.39e+01 1amj c.8.2.1 30717 c.83.1.1 35393 1a3gA 308 2.40e+01 1daaA e.17.1.1 43286 1eb0A 147 2.41e+01 b.107.1.1 64890 d.58.38.1 64891 1py5A 326 2.48e+01 1gsmA 210 2.50e+01 b.1.1.4 65535 b.1.1.4 65536 1tuc 63 2.57e+01 1tuc b.34.2.1 24492 1khxA 227 2.60e+01 b.26.1.1 68631 1nscA 390 2.61e+01 2qwc b.68.1.1 27591 1ckaA 57 2.66e+01 1ckaA b.34.2.1 24459 1oaoC 729 2.67e+01 e.26.1.3 86746 1gmwA 143 2.67e+01 b.107.1.1 65347 d.58.38.1 65348 1l6oA 95 2.67e+01 b.36.1.1 84534 1qd6C 240 2.69e+01 1qd5A 1rec 201 2.70e+01 1rec a.39.1.5 17326 1f3aA 222 2.71e+01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1gseA 221 2.72e+01 1pgtA a.45.1.1 17667 c.47.1.5 32961 1k3lA 221 2.72e+01 a.45.1.1 77229 c.47.1.5 77230 1k3yA 221 2.72e+01 a.45.1.1 77245 c.47.1.5 77246 1pueE 89 2.72e+01 1awcA a.4.5.21 16165 1g5gB 481 2.74e+01 f.12.1.1 65157 h.3.2.1 65158 1hd7A 318 2.81e+01 1bix d.151.1.1 41780 3bamA 213 2.90e+01 1bam c.52.1.3 33288 1irqA 71 2.91e+01 unknown_sccs 66297 1vie 62 2.97e+01 1vie b.34.4.1 24592 1rpyA 114 2.99e+01 d.93.1.1 -10636 1bix 287 3.01e+01 1bix d.151.1.1 41781 1ng2A 193 3.02e+01 b.34.2.1 85660 b.34.2.1 85661 1pl8A 356 3.03e+01 b.35.1.2 -3716 c.2.1.1 -5740 1vif 62 3.03e+01 1vie b.34.4.1 24593 1o26A 232 3.06e+01 d.207.1.1 86566 1k4jA 230 3.10e+01 d.108.1.3 72057 1tud 62 3.11e+01 1tud b.34.2.1 24489 1o22A 170 3.12e+01 d.238.1.1 86557 1esgA 213 3.15e+01 1bam c.52.1.3 33286 1kebA 108 3.18e+01 c.47.1.1 77341 1mjgM 729 3.19e+01 e.26.1.3 79204 1v38A 78 3.21e+01 a.60.1.2 -1016 1dm9A 133 3.41e+01 1dm9A d.66.1.3 39560 1rie 129 3.41e+01 1rie b.33.1.1 24427 1ijaA 148 3.43e+01 1ijaA b.100.1.1 62484 1pot 325 3.52e+01 1pot c.94.1.1 35807 6acn 754 3.53e+01 1amj c.8.2.1 30721 c.83.1.1 35397 1o54A 277 3.55e+01 c.66.1.13 -8095 1aw8B 91 3.55e+01 1aw8B 1cfyA 143 3.67e+01 1cof d.109.1.2 40858 1qq5A 253 3.68e+01 1qq5A c.108.1.1 43327 1k2xB 143 3.70e+01 1ark 60 3.73e+01 1bb9 b.34.2.1 24473 1aw8E 91 3.74e+01 1aw8B 1cof 143 3.88e+01 1cof d.109.1.2 40860 1b6cB 342 3.98e+01 1b6cB d.144.1.7 41673