# List of top-scoring protein chains for t2k.100-30-str 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.soe.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 1shxA 138 4.08e-29 b.6.1.5 118962 1ikoP 178 4.44e-27 b.6.1.5 71243 1f56A 91 1.24e-01 2cbp b.6.1.1 22896 1avaC 181 3.28e-01 1avaC b.42.4.1 25604 1ri6A 343 6.71e-01 b.69.11.1 97503 1h6rA 236 7.65e-01 d.22.1.1 65683 2r15A 212 1.26e+00 1nubA 229 1.30e+00 1sra a.39.1.3 17191 g.3.11.3 44330 g.68.1.1 44715 2cbpA 96 1.80e+00 b.6.1.1 22895 2awkA 228 1.81e+00 1egwA 77 2.04e+00 1mnmA d.88.1.1 40234 1kypA 237 2.05e+00 d.22.1.1 73280 1b9cA 236 2.46e+00 1ema d.22.1.1 38358 1x9uA 116 2.65e+00 2cu9A 161 2.91e+00 1oxdA 227 2.98e+00 d.22.1.1 93687 1ema 236 3.32e+00 1ema 1ws8A 109 3.47e+00 b.6.1.1 114843 2b1mA 246 4.11e+00 1r4cA 110 4.34e+00 d.17.1.2 104793 1c7uA 85 4.83e+00 1mnmA d.88.1.1 40238 1ospL 214 4.97e+00 32c2A b.1.1.1 20116 b.1.1.2 21146 1q25A 432 5.02e+00 b.64.1.1 104493 b.64.1.1 104494 b.64.1.1 104495 2adgA 214 5.19e+00 3co8A 380 5.70e+00 1zpuA 534 6.01e+00 1a4jA 217 6.29e+00 8fabA b.1.1.1 20232 b.1.1.2 21244 2o6xA 310 6.34e+00 2nnrA 110 6.43e+00 2h7zB 77 7.67e+00 g.7.1.1 136232 2r2cA 183 7.73e+00 1ssfA 156 7.84e+00 b.34.9.1 105982 b.34.9.1 105983 1s5pA 235 7.97e+00 c.31.1.5 98569 1r8nA 185 8.17e+00 b.42.4.1 104851 1jmxB 349 8.24e+00 b.69.2.2 66906 1roaA 122 8.92e+00 d.17.1.2 105024 2e8yA 718 8.99e+00 1iwdA 215 9.08e+00 d.3.1.1 83756 1try 224 9.11e+00 5ptp 1pvxA 194 9.19e+00 1axkA b.29.1.11 24341 2f06A 144 9.27e+00 d.58.18.11 132652 d.58.18.11 132653 1flrL 219 9.29e+00 8fabA b.1.1.1 19904 b.1.1.2 20998 1xfxA 777 9.65e+00 2g3rA 123 1.01e+01 b.34.9.1 134570 b.34.9.1 134571 1tu6A 215 1.02e+01 d.3.1.1 107318 1u4cA 349 1.03e+01 b.69.4.2 107666 2h7wA 131 1.04e+01 b.1.26.1 136225 1yfqA 342 1.06e+01 b.69.4.2 116680 1orvA 728 1.06e+01 b.70.3.1 87354 c.69.1.24 87355 1pq7A 224 1.09e+01 b.47.1.2 95002 1a4kA 217 1.12e+01 8fabA b.1.1.1 20236 b.1.1.2 21248 1aunA 208 1.16e+01 b.25.1.1 23900 2actA 220 1.21e+01 d.3.1.1 37002 1v2bA 177 1.22e+01 d.107.1.2 108279 1xkgA 312 1.22e+01 d.3.1.1 122081 2gujA 155 1.25e+01 1gc5A 467 1.28e+01 1gc5A c.72.1.3 60429 1deuA 277 1.31e+01 1theB d.3.1.1 37085 1qksA 567 1.33e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 2g8sA 353 1.38e+01 2jixB 225 1.45e+01 1xfuA 747 1.47e+01 1g96A 120 1.48e+01 1g96A d.17.1.2 60393 1sgpE 185 1.50e+01 1qq4A b.47.1.1 25816 1nr0A 611 1.55e+01 b.69.4.1 86078 b.69.4.1 86079 1ad9A 219 1.58e+01 8fabA b.1.1.1 20214 b.1.1.2 21226 1k8tA 510 1.64e+01 e.41.1.1 68316 1vheA 373 1.69e+01 b.49.3.1 100669 c.56.5.4 100670 1tetL 216 1.69e+01 32c2A b.1.1.1 19902 b.1.1.2 20996 1jer 138 1.69e+01 2cbp 1jerA 138 1.69e+01 b.6.1.1 23022 2qa9E 185 1.72e+01 1zm8A 259 1.78e+01 2vfjA 366 1.79e+01 1yq5A 144 1.80e+01 1fn8A 224 1.87e+01 5ptp b.47.1.2 26012 1csbB 205 1.88e+01 1theB 1xizA 159 1.99e+01 d.112.1.1 115375 1vhtA 218 2.01e+01 c.37.1.1 100700 1krnA 88 2.01e+01 g.14.1.1 44629 1b0wA 108 2.05e+01 8fabA b.1.1.1 20532 1gmyA 261 2.10e+01 d.3.1.1 76236 2gimA 106 2.17e+01 b.6.1.1 135244 1v30A 124 2.18e+01 d.269.1.1 113496 2b4yA 271 2.20e+01 c.31.1.5 127868 2qh0A 138 2.22e+01 2aabL 218 2.23e+01 1a4eA 488 2.31e+01 1cf9A e.5.1.1 42806 2h7jA 220 2.32e+01 d.3.1.1 136216 2fdxA 138 2.33e+01 c.23.5.1 31192 1nqcA 217 2.34e+01 d.3.1.1 86024 1sluA 142 2.38e+01 1sluA b.16.1.1 23685 2frqA 225 2.42e+01 d.3.1.1 133999 1i0vA 104 2.53e+01 9rnt d.1.1.4 36054 2o26U 290 2.57e+01 2q87A 110 2.57e+01 1gy8A 397 2.64e+01 c.2.1.2 83376 3b46A 447 2.64e+01 1xnaA 183 2.64e+01 1xnaA b.18.1.8 23773 1i85A 110 2.66e+01 1i85A b.1.1.1 61946 2djfC 69 2.70e+01 1nqbA 256 2.73e+01 1mfa b.1.1.1 20043 b.1.1.1 20042 1yalA 218 2.80e+01 d.3.1.1 37025 1uoyA 64 2.81e+01 g.3.19.1 99709 1i4fA 275 2.81e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 1rzhH 260 2.85e+01 b.41.1.1 98162 f.23.10.1 98163 1nf2A 268 2.86e+01 c.108.1.10 91849 1tmcA 175 2.89e+01 1agdA d.19.1.1 38258 1eut 605 2.89e+01 1eut 1b4jL 214 2.93e+01 8fabA b.1.1.1 20308 b.1.1.2 21300 1xt5A 135 3.00e+01 2bw4A 340 3.01e+01 b.6.1.3 129320 b.6.1.3 129321 1nif 340 3.01e+01 1nif 1zroA 602 3.01e+01 a.264.1.1 125551 a.264.1.1 125552 3c5xA 402 3.02e+01 1bwwA 109 3.02e+01 8fabA b.1.1.1 20518 1hsbA 270 3.03e+01 1agdA b.1.1.2 20736 d.19.1.1 38257 1kcbA 340 3.05e+01 b.6.1.3 90951 b.6.1.3 90952 5nul 138 3.08e+01 5nul 5nulA 138 3.08e+01 c.23.5.1 31191 1ppoA 216 3.13e+01 d.3.1.1 37020 1rc6A 261 3.19e+01 b.82.1.11 97287 1ad0A 213 3.22e+01 8fabA b.1.1.1 20124 b.1.1.2 21154 1theA 260 3.26e+01 1theB d.3.1.1 37056 2jrpA 81 3.28e+01 1e1aA 314 3.29e+01 1e1aA b.68.6.1 59155 1pjxA 314 3.29e+01 b.68.6.1 104167 1avwB 171 3.34e+01 1wba b.42.4.1 25599 1theB 260 3.35e+01 1theB d.3.1.1 37057 2occF 98 3.41e+01 2occF g.41.5.3 45256 1r8oA 96 3.42e+01 b.42.4.1 104852 1bxvA 91 3.44e+01 1aac b.6.1.1 22875 1nl1A 147 3.44e+01 g.14.1.1 91949 g.32.1.1 91950 2qwuA 211 3.44e+01 1cznA 169 3.46e+01 1rcf c.23.5.1 31181 2av1A 275 3.47e+01 b.1.1.2 127349 d.19.1.1 127350 1ca1 370 3.50e+01 1ca1 1ca1A 370 3.50e+01 a.124.1.1 19340 b.12.1.3 23648 1xuvA 178 3.53e+01 d.129.3.5 116069 2qe8A 343 3.55e+01 1yymG 313 3.57e+01 d.172.1.1 124232 2bb3A 221 3.58e+01 c.90.1.1 128257 1iooA 196 3.59e+01 d.124.1.1 71250 1aijH 260 3.59e+01 6prcH b.41.1.1 25466 f.23.10.1 43463 1ae6L 219 3.65e+01 8fabA b.1.1.1 20210 b.1.1.2 21222 3bhoA 208 3.69e+01 2oulA 241 3.76e+01 2an1A 292 3.78e+01 2vgdA 218 3.79e+01 1n3bA 216 3.84e+01 c.37.1.1 79959 2uv3A 126 3.87e+01 2av7A 275 3.94e+01 b.1.1.2 127359 d.19.1.1 127360 1acc 735 3.95e+01 1acc 1accA 735 3.95e+01 f.11.1.1 43828 2hd9A 145 3.96e+01 1aqdA 192 3.99e+01 1iakA b.1.1.2 21585 d.19.1.1 38159