# List of top-scoring protein chains for t2k-100-30-str2 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 1bj8 109 7.48e-01 1bquA b.1.2.1 22070 1bquA 215 1.17e+00 1bquA b.1.2.1 22066 b.1.2.1 22067 1svy 114 2.28e+00 1svy d.109.1.1 40831 1e0tA 470 2.37e+00 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1svq 114 2.98e+00 1svy d.109.1.1 40832 1iw7C 1119 3.69e+00 e.29.1.1 71474 1pkn 530 3.96e+00 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1mjgM 729 4.27e+00 e.26.1.3 79204 1ky3A 182 4.51e+00 c.37.1.8 73193 1liuA 528 4.60e+00 b.58.1.1 77970 c.1.12.1 77971 c.49.1.1 77972 1lshA 1056 4.64e+00 a.118.4.1 74242 f.7.1.1 74243 f.7.1.1 74244 1szwA 379 4.71e+00 unknown_sccs -10164 1si7A 369 5.09e+00 unknown_sccs -10163 1mdoA 393 6.93e+00 c.67.1.4 79013 1uwwA 191 7.57e+00 1an9A 340 7.73e+00 1an9A c.4.1.2 30617 d.16.1.3 37904 2aop 497 7.76e+00 2aop d.58.36.1 39503 d.58.36.1 39504 d.134.1.1 41427 d.134.1.1 41428 1a49A 530 8.03e+00 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1giqA 413 9.36e+00 d.166.1.1 76224 d.166.1.1 76225 1bp3B 211 9.65e+00 1axiB b.1.2.1 22031 b.1.2.1 22032 1jkgA 140 9.96e+00 d.17.4.2 66795 1danU 121 1.00e+01 1boy b.1.2.1 21954 1s72X 92 1.02e+01 1jj2W 91 1.02e+01 1ffkU d.29.1.1 63108 2hft 218 1.05e+01 1boy b.1.2.1 21951 b.1.2.1 21952 1hi0P 664 1.07e+01 1hi0P e.8.1.6 61051 1uvjA 664 1.15e+01 e.8.1.6 -11964 1f15B 218 1.16e+01 1f15B b.121.4.5 23321 1k8wA 327 1.24e+01 b.122.1.1 83094 unknown_sccs -10143 1v7zA 260 1.25e+01 unknown_sccs -6353 1kcqA 104 1.35e+01 d.109.1.1 68449 1ve9A 347 1.35e+01 c.4.1.2 -6056 d.16.1.3 -9214 1vhoA 346 1.36e+01 unknown_sccs -4283 c.56.5.4 -7893 1aa8A 347 1.37e+01 1an9A 1jvnA 555 1.49e+01 c.1.2.1 67355 c.23.16.1 67356 1aop 497 1.49e+01 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1h6yA 170 1.49e+01 b.18.1.7 70904 1jn5A 140 1.53e+01 d.17.4.2 66921 1ncg 110 1.53e+01 1edhA b.1.6.1 22193 1hhsA 664 1.58e+01 1hi0P e.8.1.6 61045 1nciA 110 1.62e+01 1edhA b.1.6.1 22191 1cs0C 1073 1.68e+01 a.92.1.1 18559 c.24.1.1 31488 c.30.1.1 31675 c.30.1.1 31676 d.142.1.2 41520 d.142.1.2 41521 1q3kA 259 1.81e+01 unknown_sccs -6335 1l1eA 287 1.85e+01 c.66.1.18 73454 1shwA 138 1.86e+01 1dyoA 160 1.88e+01 1dyoA b.18.1.7 23771 1b8pA 329 1.90e+01 1bmdA c.2.1.5 30147 d.162.1.1 42114 1bjt 793 2.02e+01 1bjt e.11.1.1 43249 1ckmA 330 2.02e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1rz2A 254 2.05e+01 1mkaA 171 2.09e+01 1mkaA d.38.1.2 38543 1vheA 373 2.10e+01 unknown_sccs -4280 c.56.5.4 -7890 1srqA 341 2.11e+01 1tvdA 116 2.15e+01 1tvdA b.1.1.1 20650 1nkqA 259 2.16e+01 1o7kA 131 2.23e+01 d.189.1.1 81144 1boy 219 2.25e+01 1boy b.1.2.1 21955 b.1.2.1 21956 1ux6A 350 2.30e+01 unknown_sccs -3451 unknown_sccs -12886 1kq6A 141 2.32e+01 d.189.1.1 -9926 1c3oE 1073 2.39e+01 a.92.1.1 18564 c.24.1.1 31493 c.30.1.1 31685 c.30.1.1 31686 d.142.1.2 41530 d.142.1.2 41531 1i7qA 519 2.41e+01 1qdlA d.161.1.1 61901 1svr 114 2.44e+01 1svy d.109.1.1 40833 1ko7A 314 2.47e+01 c.98.2.1 72797 c.91.1.2 72798 1oaoC 729 2.47e+01 e.26.1.3 86746 1pqnA 127 2.48e+01 c.47.1.8 -7479 1cknA 330 2.57e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1l0wA 580 2.63e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1bdmB 327 2.67e+01 1bmdA c.2.1.5 30138 d.162.1.1 42105 1m4jA 142 2.72e+01 d.109.1.2 78602 1tqnA 486 2.73e+01 1iqpA 327 2.73e+01 a.80.1.1 62649 c.37.1.20 62650 1c3oA 1073 2.74e+01 1c3oA a.92.1.1 18562 c.24.1.1 31491 c.30.1.1 31681 c.30.1.1 31682 d.142.1.2 41526 d.142.1.2 41527 1hdkA 141 2.81e+01 b.29.1.3 65807 1g86A 142 2.91e+01 b.29.1.3 70161 1lcl 142 2.91e+01 1lcl b.29.1.3 24216 1ogsA 497 2.94e+01 b.71.1.2 86997 c.1.8.3 86998 1gnwA 211 2.96e+01 1gnwA a.45.1.1 17727 c.47.1.5 33021 1xgsA 295 2.98e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1udxA 416 2.99e+01 b.117.1.1 -3546 c.37.1.8 -7101 unknown_sccs -9009 1ekbB 235 3.02e+01 5ptp b.47.1.2 26282 1bdmA 327 3.02e+01 1bmdA c.2.1.5 30137 d.162.1.1 42104 1bmdA 327 3.08e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1i1gA 141 3.13e+01 a.4.5.32 65982 d.58.4.2 65983 1nykA 165 3.13e+01 b.33.1.1 86408 1jflA 228 3.34e+01 c.78.2.1 71656 c.78.2.1 71657 1g2rA 100 3.35e+01 1g2rA d.192.1.1 60231 1keeE 1073 3.36e+01 a.92.1.1 68508 c.24.1.1 68509 c.30.1.1 68510 c.30.1.1 68511 d.142.1.2 68512 d.142.1.2 68513 1keeA 1073 3.37e+01 a.92.1.1 68492 c.24.1.1 68493 c.30.1.1 68494 c.30.1.1 68495 d.142.1.2 68496 d.142.1.2 68497 1im2A 444 3.63e+01 1do0A c.37.1.20 62564 1c7gA 456 3.65e+01 c.67.1.2 -8153 1kdxA 81 3.66e+01 1kdxA a.12.1.1 16375 1p5hA 428 3.70e+01 c.123.1.1 87802 1louA 101 3.70e+01 1ris d.58.14.1 39323 1jg8A 347 3.72e+01 1jg8A c.67.1.1 62946 1m6sA 347 3.74e+01 c.67.1.1 78701 1f15A 218 3.75e+01 1f15B b.121.4.5 23320 1mh9A 197 3.81e+01 c.108.1.8 79118 1e42A 258 3.95e+01 1e42A b.1.10.1 22316 d.105.1.1 40792 1bt3A 345 3.97e+01 1bt3A a.86.1.2 18507