# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1qd1A 325 7.83e-01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1b8aA 438 8.05e-01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1hf2A 210 9.66e-01 1hf2A b.80.3.1 60992 c.102.1.1 60993 1d2eA 397 1.06e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 2oatA 439 1.28e+00 2dkb c.67.1.4 34452 1gx3A 284 1.86e+00 1efcA 393 1.86e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1oatA 439 2.15e+00 2dkb c.67.1.4 34461 1qm4A 396 2.33e+00 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 1c1yB 77 2.82e+00 1c1yB d.15.1.5 37618 1dfmA 223 3.06e+00 1d2iA c.52.1.5 33295 1d2iA 223 3.06e+00 1d2iA c.52.1.5 33297 1pea 385 3.20e+00 1pea c.93.1.1 35662 1rvv1 154 3.25e+00 1rvv1 1rvvA 154 3.25e+00 1rvv1 c.16.1.1 30927 1eudB 396 3.35e+00 2scuB c.23.4.1 31150 d.142.1.4 41571 1id0A 152 3.49e+00 d.122.1.3 66111 1dd3A 128 3.52e+00 1dd3C a.108.1.1 19031 d.45.1.1 38760 1ctf 74 3.81e+00 1ctf d.45.1.1 38759 1bak 119 3.99e+00 1bak b.55.1.1 26973 1faoA 126 4.04e+00 1faoA b.55.1.1 26974 1pytA 94 4.71e+00 1pytA d.58.3.1 39064 1kvkA 395 4.77e+00 1smlA 269 4.79e+00 1smlA d.157.1.1 42053 1tib 269 5.86e+00 3tgl c.69.1.17 34738 1qqgA 264 6.49e+00 1qqgA b.55.1.2 26987 b.55.1.2 26988 1tadA 324 7.05e+00 1cipA a.66.1.1 18194 c.37.1.8 32077 1aye 401 7.34e+00 1aye c.56.5.1 33824 d.58.3.1 39065 1ek8A 185 7.65e+00 1ek8A d.67.3.1 59444 1b16A 254 8.07e+00 1b16A c.2.1.2 29875 2pth 193 8.19e+00 2pth c.56.3.1 33793 1etu 394 1.01e+01 1efcA c.37.1.8 64737 1a4uA 254 1.08e+01 1b16A c.2.1.2 29878 1hv8A 367 1.09e+01 1hv8A c.37.1.13 32405 c.37.1.13 32406 1im5A 180 1.18e+01 c.33.1.2 66211 1ihjA 98 1.18e+01 1pdr b.36.1.1 62382 1qf6A 642 1.19e+01 1qf6A c.51.1.1 33210 d.66.1.1 39551 d.67.1.1 39562 d.104.1.1 40759 1gsa 316 1.23e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1bpoA 494 1.24e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1g61A 228 1.28e+01 1g61A d.126.1.1 41126 1ih8A 271 1.34e+01 2nsyA c.26.2.1 62377 1kqpA 271 1.41e+01 1nsyA 271 1.41e+01 2nsyA c.26.2.1 31614 2nsyA 271 1.41e+01 2nsyA c.26.2.1 31612 1kvoA 124 1.48e+01 1poa a.133.1.2 19564 1evlA 401 1.51e+01 1qf6A c.51.1.1 33202 d.104.1.1 40751 1ew3A 159 1.57e+01 1mup b.60.1.1 27114 1b93A 152 1.57e+01 1b93A c.24.1.2 31507 1jy8A 159 1.58e+01 d.79.5.1 67452 1tag 324 1.60e+01 1cipA a.66.1.1 18197 c.37.1.8 32080 1cipA 353 1.60e+01 1cipA a.66.1.1 18210 c.37.1.8 32093 1fg7A 356 1.61e+01 1gewA c.67.1.1 59819 1eazA 125 1.65e+01 1jdpA 441 1.68e+01 c.93.1.1 62906 1aipE 405 1.72e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1dd6A 228 1.75e+01 1a7tA d.157.1.1 42054 1bo1A 416 1.81e+01 1bo1A d.143.1.2 41591 1pru 56 1.89e+01 1pru a.35.1.5 17104 1acf 125 1.90e+01 3nul d.110.1.1 40882 1vp9 322 2.06e+01 3mag c.66.1.9 34210 3vub 101 2.07e+01 3vub b.34.6.1 24613 1pjbA 361 2.22e+01 1sayA c.2.1.4 30103 c.23.12.2 31363 1sayA 361 2.27e+01 1sayA c.2.1.4 30102 c.23.12.2 31362 3mag 307 2.29e+01 3mag c.66.1.9 34205 1fecA 490 2.32e+01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1pjcA 361 2.34e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 1g7rA 594 2.37e+01 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 1hn9A 317 2.37e+01 1hn9A c.95.1.1 35977 c.95.1.1 35978 2plt 98 2.39e+01 1plc b.6.1.1 22862 1dboA 506 2.49e+01 1dbgA b.80.1.4 28034 1g7tA 594 2.50e+01 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1hufA 140 2.52e+01 1hufA d.195.1.1 61272 1fx2A 235 2.54e+01 1fx2A d.58.29.1 39430 3grx 82 2.58e+01 1aba c.47.1.1 32769 1egr 85 2.58e+01 1kte c.47.1.1 32765 1f08A 148 2.61e+01 1f08A d.89.1.2 59564 1dbgA 506 2.63e+01 1dbgA b.80.1.4 28033 1e5dA 402 2.63e+01 1e5dA c.23.5.1 31208 d.157.1.3 42061 1vpt 348 2.67e+01 3mag c.66.1.9 34207 1iatA 557 2.72e+01 1dqrA c.80.1.2 62123 1b93B 152 2.75e+01 1b93A c.24.1.2 31508 1h8eA 510 2.78e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1fmaE 150 2.84e+01 1fmaE d.41.5.1 38630 1dc1A 323 2.84e+01 1dc1A c.52.1.11 33321 1psdA 409 2.88e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1exmA 405 2.91e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 2pgd 482 2.96e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 2ae2A 260 3.01e+01 1bdb c.2.1.2 29945 2fmr 65 3.04e+01 2fmr d.51.1.1 38808 1g7sA 594 3.06e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 3aig 202 3.08e+01 1atlA d.92.1.9 40321 1hnjA 317 3.09e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1e79A 510 3.14e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1fukA 165 3.24e+01 1fukA c.37.1.13 32409 1dtwB 342 3.28e+01 1qs0B c.36.1.3 31828 c.48.1.2 33102 1qfnA 85 3.29e+01 1qfnA c.47.1.1 32768 1jg8A 347 3.43e+01 1jg8A c.67.1.1 62946 1ha3A 405 3.55e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1jjtA 228 3.67e+01 1a7tA d.157.1.1 63139 1atlA 202 3.73e+01 1atlA d.92.1.9 40322 1jj2E 177 3.74e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1nfp 228 3.79e+01 1nfp c.1.16.2 29555 1ahm 129 3.82e+01 1a9v b.1.1.5 21944 1a4yA 460 3.83e+01 1a4yA c.10.1.1 30852 1gq2A 555 3.84e+01 1j9bA 141 4.00e+01 c.47.1.12 66459