# List of top-scoring protein chains for t04-100-30-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 1tzbA 302 4.66e-07 1guqA 348 1.23e-01 1guqA d.13.1.2 37522 d.13.1.2 37523 1sesA 421 1.61e-01 1sesA a.2.7.1 15710 d.104.1.1 40710 1teaA 299 2.26e-01 2tmnE 316 1.29e+00 1hyt d.92.1.2 59055 8tlnE 316 1.82e+00 1hyt d.92.1.2 59075 1ftrA 296 1.90e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1jayA 212 2.42e+00 c.2.1.6 66478 1ezvB 352 2.56e+00 1ezvB d.185.1.1 59543 d.185.1.1 59544 1q1oA 98 3.12e+00 d.15.2.2 -9172 1f5aA 513 3.16e+00 1fa0B a.160.1.1 75835 d.218.1.3 75836 d.58.16.1 39337 1m6jA 261 3.98e+00 c.1.1.1 78693 1uj2A 252 4.17e+00 c.37.1.6 -7061 1c7qA 445 4.24e+00 2pgi c.80.1.2 35307 1keaA 221 4.29e+00 a.96.1.2 68491 1kb9B 352 4.63e+00 d.185.1.1 77313 d.185.1.1 77314 1h8lA 380 5.24e+00 b.3.2.1 65737 c.56.5.1 65738 1moq 368 5.81e+00 1moq c.80.1.1 35302 1va4A 279 5.87e+00 1shuX 182 7.16e+00 c.62.1.1 -7982 1mo0A 275 7.26e+00 c.1.1.1 79329 1jkmB 361 7.68e+00 1jkmA c.69.1.2 34634 1o75A 415 8.04e+00 b.1.20.1 81117 b.1.20.1 81118 b.120.1.1 81119 1n5uA 585 8.91e+00 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1ib8A 164 9.58e+00 b.38.2.1 71168 d.52.4.1 71169 2kinB 100 9.63e+00 3kinB 1ekeA 230 9.79e+00 1ekeA c.55.3.1 33572 1o4wA 147 9.95e+00 c.120.1.1 86629 1pswA 348 1.09e+01 c.87.1.7 88287 1ohuA 175 1.13e+01 f.1.4.1 -12058 1uw4B 248 1.14e+01 unknown_sccs -1560 1ofdA 1520 1.15e+01 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1oaoC 729 1.16e+01 e.26.1.3 86746 1ej1A 190 1.17e+01 1ejhA d.86.1.1 40144 1fazA 122 1.19e+01 1fazA a.133.1.3 59757 1lwbA 122 1.19e+01 a.133.1.3 84728 1rg9A 383 1.20e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1smrA 335 1.20e+01 1smrA b.50.1.2 26878 1j3vA 289 1.21e+01 a.100.1.1 -1303 c.2.1.6 -5947 1btkA 169 1.22e+01 1btkA b.55.1.1 26959 1i3dA 146 1.22e+01 a.1.1.2 61587 1ig8A 486 1.30e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1m22A 503 1.35e+01 c.117.1.1 78464 1mtyD 512 1.35e+01 1mhyD a.25.1.2 16742 1oheA 348 1.37e+01 c.45.1.1 87013 c.45.1.1 87014 1nnlA 225 1.38e+01 c.108.1.4 85906 1tpfA 250 1.41e+01 1amk c.1.1.1 28467 1h2sA 225 1.42e+01 f.13.1.1 76578 1o22A 170 1.43e+01 d.238.1.1 86557 1oe8A 211 1.50e+01 a.45.1.1 86905 c.47.1.5 86906 1r5jA 337 1.50e+01 unknown_sccs -8471 1m3sA 186 1.55e+01 c.80.1.3 78573 1k8uA 90 1.56e+01 a.39.1.2 72181 1el5A 389 1.58e+01 1b3mA c.3.1.2 30369 d.16.1.3 37937 1pu6A 218 1.64e+01 unknown_sccs -1282 1hx1B 114 1.79e+01 1hx1B a.7.7.1 61350 1jgjA 217 1.81e+01 1c3wA f.13.1.1 62952 1ujpA 271 1.82e+01 c.1.2.4 -5177 1kv5A 250 1.83e+01 c.1.1.1 73052 1neyA 247 1.92e+01 c.1.1.1 80449 1kafA 108 1.94e+01 d.199.1.1 68372 1qgoA 264 1.95e+01 1qgoA c.92.1.2 35596 1in6A 334 2.11e+01 1hqcA a.4.5.11 62601 c.37.1.20 62602 1hvyA 288 2.13e+01 1bkpA d.117.1.1 41049 1lylA 504 2.16e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1tph1 247 2.17e+01 1amk 1e1oA 504 2.20e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1i45A 248 2.22e+01 1amk c.1.1.1 61665 1rkuA 206 2.23e+01 unknown_sccs -6823 1lk5A 229 2.33e+01 unknown_sccs 73960 d.58.40.1 73961 1pkp 150 2.33e+01 1pkp d.14.1.1 37551 d.50.1.2 38787 1nf2A 268 2.34e+01 c.108.1.10 -6842 1vf6C 72 2.36e+01 unknown_sccs -1180 1uch 230 2.36e+01 1uch d.3.1.6 37129 1o0xA 262 2.42e+01 d.127.1.1 80755 1bu8A 452 2.48e+01 1gpl b.12.1.2 23647 c.69.1.19 34795 1ru3A 732 2.55e+01 e.26.1.3 -12021 1j7nA 776 2.58e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1j5xA 342 2.59e+01 c.80.1.1 71591 1n55A 251 2.76e+01 c.1.1.1 80007 1uedA 406 2.81e+01 a.104.1.1 -1459 1in4A 334 2.85e+01 1hqcA a.4.5.11 62597 c.37.1.20 62598 1ip9A 85 2.93e+01 1ip9A d.15.2.2 62638 1nhs 447 2.95e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1t35A 191 2.95e+01 unknown_sccs -7285 1f20A 435 3.07e+01 b.43.4.1 64932 c.25.1.4 64933 1k0rA 366 3.09e+01 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1nhp 447 3.12e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1allA 160 3.14e+01 1qgwC a.1.1.3 15647 1lswA 131 3.15e+01 d.110.3.2 78181 2bc2A 227 3.22e+01 1a7tA d.157.1.1 42031 1r2rA 248 3.24e+01 c.1.1.1 -5147 1wmuB 146 3.27e+01 1dtdA 303 3.31e+01 1aye c.56.5.1 33823 1viuA 203 3.33e+01 d.113.1.1 -10889 1n40A 396 3.34e+01 a.104.1.1 79977 1a3aA 148 3.44e+01 1a3aA d.112.1.1 40917 1tljA 213 3.50e+01 1g8qA 90 3.50e+01 1g8qA a.135.1.1 19621 1cznA 169 3.53e+01 1rcf c.23.5.1 31181 1dusA 194 3.54e+01 1dusA c.66.1.4 34182 1in0A 163 3.90e+01 d.58.49.1 83694 d.58.49.1 83695