# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-scores 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 1jt8A 102 1.22e+00 b.40.4.5 63279 1xn5A 146 4.78e+00 1vjvA 415 5.29e+00 d.3.1.9 108632 1mwmA 320 6.24e+00 c.55.1.1,c.55.1.1 79580,79581 1mb4A 370 6.98e+00 c.2.1.3,d.81.1.1 78908,78909 2ff4A 388 7.36e+00 1vbkA 307 7.54e+00 1khoA 370 7.77e+00 a.124.1.1,b.12.1.3 72489,72490 1eguA 731 8.19e+00 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1n7oA 721 8.71e+00 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1ee6A 197 1.05e+01 1ee6A b.80.1.1 28024 1mjc 69 1.06e+01 1mjc b.40.4.5 25319 1eu3A 210 1.18e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 2fpeA 62 1.22e+01 1hx0A 496 1.51e+01 b.71.1.1,c.1.8.1 61346,61347 1j5eK 129 1.55e+01 c.55.4.1 71554 1ayrA 368 1.55e+01 1cf1A b.1.18.11,b.1.18.11 21915,21916 1kgcD 206 1.59e+01 b.1.1.1,b.1.1.2 77384,77385 1y1oA 203 1.59e+01 1yb3A 175 1.69e+01 3mefA 69 1.74e+01 1mjc b.40.4.5 25320 1g94A 448 1.91e+01 b.71.1.1,c.1.8.1 65169,65170 1aqm 453 1.92e+01 1smd b.71.1.1,c.1.8.1 27717,28704 1b6u 257 2.01e+01 1nkr b.1.1.4,b.1.1.4 21797,21798 1dkuA 317 2.03e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1rqpA 299 2.12e+01 b.141.1.1,c.132.1.1 97754,97755 1wwzA 159 2.45e+01 1jsdA 319 2.54e+01 b.19.1.2 63258 1lxkA 721 2.56e+01 a.102.3.2,b.24.1.1,b.30.5.2 74331,74332,74333 1vhsA 175 2.70e+01 d.108.1.1 100698 3dapA 320 2.72e+01 1dapA c.2.1.3,d.81.1.3 30051,39966 1wjnA 97 2.73e+01 1wggA 96 2.75e+01 1l1jA 239 2.80e+01 b.47.1.1 84516 1vjlA 164 2.80e+01 d.257.1.1 100822 1c5yB 253 2.83e+01 5ptp 1dkrA 317 2.84e+01 1dkuA c.61.1.2,c.61.1.2 34114,34115 1idm 343 2.94e+01 1cnzA c.77.1.1 35035 1h0cA 392 2.94e+01 c.67.1.3 83424 1ibsA 317 2.94e+01 c.61.1.2,c.61.1.2 66107,66108 1fnoA 417 2.97e+01 d.58.19.1,c.56.5.4 70145,75841 1iqaA 160 2.98e+01 b.22.1.1 71274 1ojxA 263 3.12e+01 c.1.10.1 93164 1f06A 320 3.19e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1dr8B 344 3.20e+01 1cnzA c.77.1.1 35052 1lrzA 426 3.21e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1w8sA 263 3.24e+01 1iawA 317 3.26e+01 c.52.1.9 62126 1gj7B 253 3.26e+01 1jqpA 438 3.29e+01 b.61.5.1,d.3.1.1 77162,77163 1pm4A 119 3.29e+01 b.135.1.1 94891 2fsrA 195 3.32e+01 1aw9 216 3.33e+01 1gnwA a.45.1.1,c.47.1.5 17736,33030 1smd 496 3.35e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1dapA 320 3.36e+01 1dapA c.2.1.3,d.81.1.3 30053,39968 1lshA 1056 3.48e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1ev7A 317 3.52e+01 1ev7B c.52.1.9 33315 2bs9A 503 3.65e+01 1vp6A 138 3.75e+01 2bgu 351 3.83e+01 1c3jA c.87.1.1 35460 2bz6H 254 3.86e+01 1rm6A 769 3.91e+01 1csp 67 3.91e+01 1mjc b.40.4.5 25321 1s55A 156 3.94e+01 1kliH 254 3.95e+01 b.47.1.2 77435 2bfgA 503 4.05e+01 1autC 250 4.21e+01 5ptp b.47.1.2 26348 1m6eX 359 4.30e+01 c.66.1.35 91188 3ssi 113 4.51e+01 3ssi d.84.1.1 40032 2a72A 146 4.53e+01 1cdwA 179 4.53e+01 1ytbA d.129.1.1,d.129.1.1 41212,41213 1eg9A 449 4.63e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1o7nA 449 4.64e+01 b.33.1.2,d.129.3.3 81162,81163 1sqhA 312 4.64e+01 d.108.1.5 98966 1ndoA 449 4.64e+01 1ndoA b.33.1.2,d.129.3.3 24444,41323 1jbuH 254 4.67e+01 5ptp b.47.1.2 62856 1c8uA 285 4.69e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1d4tA 104 4.70e+01 1d4tA d.93.1.1 40537 1l1oC 181 4.71e+01 b.40.4.3 73480 1a6o 332 4.74e+01 1a6o 1k3bA 119 4.76e+01 b.61.5.1 72016 1n62C 288 4.93e+01 d.87.2.1,d.145.1.3 80094,80095 1wkaA 147 4.99e+01 1tr8A 102 5.04e+01 1ro7A 259 5.06e+01 c.130.1.1 97667 2sniI 83 5.20e+01 2sniI d.40.1.1 38573 1danH 254 5.22e+01 5ptp b.47.1.2 26292 1qjpA 171 5.25e+01 1bxwA f.4.1.1 43742 1epxA 370 5.27e+01 1fbaA c.1.10.1 29150 1c9oA 66 5.40e+01 1mjc b.40.4.5 25325 2f9nA 245 5.43e+01 1i8kA 107 5.49e+01 b.1.1.1 71130 1ev7B 317 5.60e+01 1ev7B c.52.1.9 33316 2f91A 237 5.62e+01 1yr4A 237 5.62e+01 1ytbA 180 5.62e+01 1ytbA d.129.1.1,d.129.1.1 41276,41277 1brwA 433 5.82e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 3sicI 107 5.87e+01 3ssi d.84.1.1 40028 1d4vB 163 5.91e+01 1d4vB b.22.1.1 23884 1zxiF 288 5.91e+01 1zxiC 288 5.94e+01 1lpuA 332 5.98e+01 d.144.1.7 74177 1gaxA 862 6.01e+01 1gaxA b.51.1.1,c.26.1.1,a.2.7.3,a.27.1.1 26893,31595,75842,75843 1qj2C 285 6.08e+01 1qj2C 1ks8A 433 6.16e+01 a.102.1.2 77519 1xwvA 129 6.22e+01 1avt 274 6.27e+01 1gci c.41.1.1 32488 1yb5A 351 6.31e+01 1vquA 374 6.32e+01 2g6bA 180 6.35e+01 1bxwA 172 6.37e+01 1bxwA f.4.1.1 43743 1vi4A 174 6.52e+01 c.8.7.1 100731 1m2rA 327 6.60e+01 d.144.1.7 84760 1f93A 104 6.74e+01 1dcpA d.74.1.1 39688 1jsmA 325 6.77e+01 b.19.1.2 63264 1nekA 588 6.85e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1ng5A 215 6.95e+01 b.100.1.1 91867 2covD 104 7.08e+01 1u9yA 284 7.08e+01 1a0lA 244 7.09e+01 5ptp b.47.1.2 26286 1ikpA 613 7.09e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1e4sA 36 7.11e+01 1e4sA g.9.1.1 59229 1ltoA 245 7.11e+01 b.47.1.2 84707 1cseE 274 7.12e+01 1gci c.41.1.1 32481 2fdiA 211 7.13e+01 1om1A 332 7.19e+01 d.144.1.7 93347 1lb6A 160 7.30e+01 b.8.1.1 73798 1ei5A 520 7.30e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 2bcoA 350 7.35e+01 1c9bB 180 7.36e+01 1ytbA d.129.1.1,d.129.1.1 41216,41217 1lp4A 332 7.39e+01 d.144.1.7 74170 1agqA 135 7.44e+01 1agqA g.17.1.2 44789 1vplA 256 7.50e+01 1xovA 326 7.56e+01 3hmgA 328 7.56e+01 1hgeA b.19.1.2 23825 1otcB 260 7.58e+01 1otcB b.40.4.3 25310 2sicI 107 7.67e+01 3ssi d.84.1.1 40031 1gkpA 458 7.74e+01 b.92.1.3,c.1.9.6 70231,70232 1u69A 163 7.76e+01 d.32.1.7 107699 1ayrB 363 7.88e+01 1cf1A b.1.18.11,b.1.18.11 21917,21918 1ytbB 180 7.89e+01 1ytbA d.129.1.1,d.129.1.1 41278,41279 1cklA 126 8.07e+01 1cklB g.18.1.1,g.18.1.1 44851,44852 1w66A 232 8.09e+01 1atx 46 8.13e+01 1ahl g.9.1.1 44600 1wosA 364 8.18e+01 b.44.2.1,d.250.1.1 109468,109469 1hpi 71 8.22e+01 1ckuA g.35.1.1 44995 1h8eH 146 8.34e+01 1e79H b.93.1.1 60757 1rms 105 8.36e+01 9rnt d.1.1.4 36235 1ue1A 164 8.45e+01 b.40.4.3 99243 2anwA 241 8.46e+01 1fjgK 129 8.48e+01 1fjfK c.55.4.1 33733 1tbaB 180 8.48e+01 1ytbA d.129.1.1,d.129.1.1 41286,41287 1agqD 135 8.65e+01 1agqA g.17.1.2 44792 1ajkA 214 8.67e+01 1axkA b.29.1.2 24176 1rds 105 8.69e+01 9rnt d.1.1.4 36236 1txqA 93 8.81e+01 1fnhA 271 8.82e+01 1fnhA b.1.2.1,b.1.2.1,b.1.2.1 21976,21977,21978 1lw6I 64 8.84e+01 d.40.1.1 74294 1crl 534 8.87e+01 1thg c.69.1.17 34765 1gy7A 125 8.90e+01 d.17.4.2 70738 1ppjB 439 8.95e+01 d.185.1.1,d.185.1.1 104254,104255 1v30A 124 8.96e+01 1m5dA 263 8.97e+01 c.94.1.1 78641