# 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 1uc2A 481 7.18e-01 unknown_sccs -11725 1szwA 379 2.10e+00 unknown_sccs -10164 1si7A 369 2.34e+00 unknown_sccs -10163 2dynA 122 3.19e+00 1dynA b.55.1.1 26957 1k6zA 141 3.33e+00 d.198.1.1 68247 155c 135 3.37e+00 1ycc a.3.1.1 15900 1mb1 130 3.47e+00 1bm8 d.34.1.1 38529 1dynA 125 4.03e+00 1dynA b.55.1.1 26955 1p9eA 331 5.02e+00 1c0pA 363 5.88e+00 1an9A c.4.1.2 30647 d.16.1.3 37934 1gw5S 142 6.23e+00 d.110.4.2 70633 1ha3A 405 7.38e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1fc2C 58 7.51e+00 1fc2C a.8.1.1 16345 1exmA 405 7.52e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1p5sA 203 7.74e+00 a.40.1.1 -900 1su8A 636 7.82e+00 e.26.1.2 -12015 1kc6A 257 8.11e+00 c.52.1.19 68419 1jyaA 130 8.25e+00 d.198.1.1 67453 1dgnA 89 8.44e+00 1dgnA a.77.1.3 18436 2btvA 901 9.59e+00 2btvA e.28.1.1 43376 1aohB 147 1.01e+01 1aohA b.2.2.2 22402 1um8A 376 1.07e+01 c.37.1.20 -7251 1aisA 182 1.14e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1nnwA 252 1.17e+01 d.159.1.5 80674 1jjyA 636 1.19e+01 1jjyA 1ci0A 228 1.24e+01 1ci0A b.45.1.1 25750 1mn8A 100 1.25e+01 a.61.1.6 79318 3rabA 169 1.32e+01 1ctqA c.37.1.8 32018 1k1xA 659 1.61e+01 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1bdc 60 1.72e+01 1fc2C a.8.1.1 16350 1m6iA 493 1.74e+01 c.3.1.5 74533 c.3.1.5 74534 d.87.1.1 74535 1c3oC 1073 1.76e+01 a.92.1.1 18563 c.24.1.1 31492 c.30.1.1 31683 c.30.1.1 31684 d.142.1.2 41528 d.142.1.2 41529 1keeG 1073 1.82e+01 a.92.1.1 68516 c.24.1.1 68517 c.30.1.1 68518 c.30.1.1 68519 d.142.1.2 68520 d.142.1.2 68521 1c3oE 1073 1.82e+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 1em2A 229 1.82e+01 1em2A d.129.3.2 41321 1iy8A 267 1.82e+01 c.2.1.2 83774 1aohA 147 1.85e+01 1aohA b.2.2.2 22401 1p2xA 159 1.86e+01 1jmaA 290 1.89e+01 b.1.1.1 63177 1bi5A 389 2.01e+01 1bi5A c.95.1.2 35985 c.95.1.2 35986 1i86A 389 2.01e+01 c.95.1.2 66068 c.95.1.2 66069 1tia 279 2.07e+01 3tgl c.69.1.17 34737 1hfuA 503 2.09e+01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1c3oG 1073 2.09e+01 a.92.1.1 18565 c.24.1.1 31494 c.30.1.1 31687 c.30.1.1 31688 d.142.1.2 41532 d.142.1.2 41533 1omiA 248 2.11e+01 a.4.5.4 87079 b.82.3.3 87080 1mtpA 323 2.11e+01 e.1.1.1 85107 1dgjA 907 2.11e+01 1alo a.56.1.1 17909 d.15.4.2 37694 d.41.1.1 38585 d.133.1.1 41415 1a65A 504 2.12e+01 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1jdbB 1073 2.15e+01 a.92.1.1 18574 c.24.1.1 31503 c.30.1.1 31705 c.30.1.1 31706 d.142.1.2 41550 d.142.1.2 41551 1keeA 1073 2.16e+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 1bxrA 1073 2.22e+01 a.92.1.1 18570 c.24.1.1 31499 c.30.1.1 31697 c.30.1.1 31698 d.142.1.2 41542 d.142.1.2 41543 1keeE 1073 2.27e+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 1m6kA 251 2.35e+01 e.3.1.1 78695 1e5rA 290 2.35e+01 1e5rA b.82.2.4 59276 1bm8 99 2.39e+01 1bm8 d.34.1.1 38528 1keeC 1073 2.45e+01 a.92.1.1 68500 c.24.1.1 68501 c.30.1.1 68502 c.30.1.1 68503 d.142.1.2 68504 d.142.1.2 68505 1q16C 225 2.55e+01 unknown_sccs -12324 1te5A 257 2.56e+01 1bpr 191 2.62e+01 1dkzA unknown_sccs 43319 1hw7A 255 2.64e+01 1i7fA d.193.1.1 61297 1i88A 389 2.67e+01 c.95.1.2 66070 c.95.1.2 66071 1s0uA 408 2.77e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1aipE 405 2.82e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1pbtA 244 2.85e+01 unknown_sccs -6866 1qi7A 253 2.91e+01 1qi7A d.165.1.1 42210 1cs0C 1073 3.00e+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 1iyjB 817 3.01e+01 a.170.1.1 76948 a.171.1.1 76949 b.40.4.3 76950 b.40.4.3 76951 b.40.4.3 76952 1jpeA 151 3.04e+01 b.1.17.1 77146 1i7fA 292 3.05e+01 1i7fA d.193.1.1 61888 1p94A 76 3.11e+01 unknown_sccs -916 1l6pA 125 3.12e+01 b.1.17.1 73626 1a9xA 1058 3.30e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1b77A 228 3.30e+01 1b77A d.131.1.2 41362 d.131.1.2 41363 1c3oA 1073 3.30e+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 1j2gA 319 3.30e+01 1crb 134 3.31e+01 1hmt b.60.1.2 27220 1kyaA 499 3.49e+01 b.6.1.3 73203 b.6.1.3 73204 b.6.1.3 73205 1rt8A 513 3.53e+01 1shcA 195 3.63e+01 1shcA b.55.1.2 26992 1bvzA 585 3.73e+01 1bvzA b.1.18.2 21856 b.71.1.1 27783 c.1.8.1 28770 1vi9A 299 3.79e+01 c.72.1.5 -8393