# List of top-scoring protein chains for t2k-100-30-alpha 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 1awcA 110 3.98e-01 1awcA a.4.5.21 16167 1dgzA 37 4.39e-01 1dfeA g.42.1.1 45319 1dfeA 37 1.14e+00 1dfeA g.42.1.1 45318 1f4tA 368 1.39e+00 1f4tA a.104.1.1 18973 1j7xA 302 1.57e+00 c.14.1.2 66425 1c2aA 120 1.58e+00 1c2aA g.3.13.1 44349 g.3.13.1 44350 1jbgA 109 1.78e+00 a.6.1.3 66480 1etc 110 1.84e+00 1awcA a.4.5.21 16162 1io7A 368 1.89e+00 1f4tA a.104.1.1 18971 1m98A 317 1.99e+00 a.175.1.1 78866 d.17.4.6 78867 1brlA 355 3.76e+00 1lucA c.1.16.1 29553 1sqgA 429 3.78e+00 1v3hA 495 3.99e+00 1q6cA 495 4.05e+00 c.1.8.1 -5300 1byb 495 4.79e+00 1byb c.1.8.1 28790 1crl 534 5.30e+00 1thg c.69.1.17 34765 1mk0A 97 5.52e+00 d.226.1.1 79216 1p4xA 250 5.77e+00 a.4.5.28 87784 a.4.5.28 87785 1oe0A 230 6.06e+00 c.37.1.1 -6976 1booA 323 6.42e+00 1booA c.66.1.11 34248 1cjaA 342 6.83e+00 1cjaA d.144.1.3 41708 1k8kD 300 7.02e+00 d.198.2.1 68309 d.198.2.1 68310 1b4bA 71 8.15e+00 1b4aA d.74.2.1 39718 1mai 131 8.19e+00 1mai b.55.1.1 26951 1vk8A 106 8.56e+00 1fjhB 257 9.20e+00 1fjhB c.2.1.2 29871 1gvjA 146 9.79e+00 a.4.5.21 -293 1b4aA 149 1.02e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1lfjA 119 1.16e+01 1ub4C 85 1.21e+01 b.129.1.1 88401 1qgvA 142 1.25e+01 1qgvA c.47.1.8 33056 1o5uA 101 1.27e+01 b.82.1.8 -4845 1earA 147 1.28e+01 b.107.1.1 64875 d.58.38.1 64876 1fe8A 196 1.32e+01 1atzA c.62.1.1 59783 1dun 134 1.41e+01 1dun b.85.4.1 28371 1evsA 187 1.46e+01 1evsA a.26.1.1 16845 1jgjA 217 1.53e+01 1c3wA f.13.1.1 62952 1cds 77 1.55e+01 1cds g.7.1.3 44461 1s6bB 119 1.58e+01 a.133.1.2 -1954 1eb0A 147 1.68e+01 b.107.1.1 64890 d.58.38.1 64891 1ry6A 360 1.73e+01 c.37.1.9 -7111 3bifA 468 1.80e+01 1bif c.37.1.7 31962 c.60.1.4 34008 1o86A 589 1.82e+01 d.92.1.5 81177 1t5yA 190 1.82e+01 1fjhA 257 1.85e+01 1fjhB c.2.1.2 29870 1cw6A 37 1.96e+01 2leu unknown_sccs 46069 1atzB 189 1.96e+01 1atzA c.62.1.1 34133 1j90A 230 1.98e+01 c.37.1.1 66448 1ef1A 294 2.01e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1poa 118 2.02e+01 1poa a.133.1.2 19514 1atzA 189 2.07e+01 1atzA c.62.1.1 34132 1bif 469 2.12e+01 1bif c.37.1.7 31961 c.60.1.4 34003 2leu 37 2.22e+01 2leu unknown_sccs 46068 1s6bA 119 2.25e+01 a.133.1.2 -1953 1iujA 106 2.28e+01 unknown_sccs -9953 1h6kA 757 2.30e+01 unknown_sccs 60675 unknown_sccs 60676 unknown_sccs 60677 1khxA 227 2.31e+01 b.26.1.1 68631 1s7oA 113 2.37e+01 1hyqA 263 2.53e+01 1hyqA c.37.1.10 61412 1devC 196 2.56e+01 1ygs b.26.1.1 23915 1mjnA 179 2.61e+01 c.62.1.1 79210 2bifA 469 2.64e+01 1bif c.37.1.7 31963 c.60.1.4 34009 1q0bA 367 2.64e+01 c.37.1.9 -7105 1qg3A 195 2.70e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 1lffA 119 2.72e+01 1a8vA 121 2.74e+01 1a62 a.140.3.1 64712 b.40.4.5 64713 1j5rA 371 2.75e+01 1r4yA 136 2.78e+01 d.1.1.3 -8813 1nfkA 325 2.85e+01 1a3qA b.1.18.1 21929 b.2.5.3 22444 1psdA 409 2.89e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1k75A 434 2.92e+01 c.82.1.2 68253 1fjsL 52 2.93e+01 1hcgB g.3.11.1 44226 1fgyA 127 2.94e+01 1faoA b.55.1.1 26976 1h9oA 112 2.97e+01 1qadA d.93.1.1 60837 1fmaE 150 2.97e+01 1fmaE d.41.5.1 38630 1ollA 188 2.98e+01 b.1.1.4 -2690 b.1.1.4 -2691 1o2dA 371 2.99e+01 e.22.1.2 86591 1jsdA 319 2.99e+01 b.19.1.2 63258 1mf7A 194 3.04e+01 c.62.1.1 84937 1um0A 365 3.14e+01 1hjp 203 3.20e+01 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1fzgD 87 3.28e+01 1fzgD h.1.8.1 45605 1g4uS 383 3.33e+01 1g4uS a.24.11.1 16643 c.45.1.2 32691 1c7gA 456 3.33e+01 c.67.1.2 -8153 1mku 123 3.34e+01 1poa a.133.1.2 19590 1mlwA 301 3.34e+01 d.178.1.1 79289 1q7rA 219 3.35e+01 c.23.16.1 -6507 1qnxA 209 3.51e+01 1qnxA d.111.1.1 40914 1jb2A 127 3.53e+01 d.17.4.2 71624 1h2vC 771 3.55e+01 unknown_sccs 76592 unknown_sccs 76593 unknown_sccs 76594 1bovA 69 3.64e+01 2bosA b.40.2.1 25070 1us5A 314 3.70e+01 c.94.1.1 -8686 1j98A 157 3.71e+01 1j98A d.185.1.2 62755 1am2 199 3.75e+01 1am2 b.86.1.2 28381 1gtrA 553 3.81e+01 1gtrA b.53.1.2 26939 c.26.1.1 31578 2bosA 68 3.81e+01 2bosA b.40.2.1 25025 1miwA 404 3.86e+01 a.173.1.1 79162 d.218.1.4 79163 1qtqA 553 3.86e+01 1gtrA b.53.1.2 26940 c.26.1.1 31579 1p57B 255 3.92e+01 b.47.1.2 -4248 1regX 122 3.95e+01 1regX d.58.27.1 39406