# 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 1khoA 370 1.87e+00 a.124.1.1,b.12.1.3 72489,72490 1vjvA 415 2.95e+00 d.3.1.9 108632 1jt8A 102 3.18e+00 b.40.4.5 63279 2ff4A 388 5.18e+00 1xn5A 146 6.39e+00 1mwmA 320 9.04e+00 c.55.1.1,c.55.1.1 79580,79581 1eu3A 210 1.04e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1ee6A 197 1.05e+01 1ee6A b.80.1.1 28024 2fpeA 62 1.12e+01 1mb4A 370 1.21e+01 c.2.1.3,d.81.1.1 78908,78909 1n7oA 721 1.26e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1eguA 731 1.28e+01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1ts3A 194 1.32e+01 1aw7A b.40.2.2,d.15.6.1 25168,37757 1l1oC 181 1.37e+01 b.40.4.3 73480 1rm6A 769 1.38e+01 1vbkA 307 1.67e+01 1hx0A 496 1.72e+01 b.71.1.1,c.1.8.1 61346,61347 1y1oA 203 1.72e+01 1mjc 69 1.92e+01 1mjc b.40.4.5 25319 1brwA 433 1.95e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1vhsA 175 2.05e+01 d.108.1.1 100698 1jsdA 319 2.38e+01 b.19.1.2 63258 1c5yB 253 2.72e+01 5ptp 1lshA 1056 2.80e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1jqpA 438 2.80e+01 b.61.5.1,d.3.1.1 77162,77163 1n62C 288 2.89e+01 d.87.2.1,d.145.1.3 80094,80095 1aw9 216 2.90e+01 1gnwA a.45.1.1,c.47.1.5 17736,33030 1j5eK 129 2.92e+01 c.55.4.1 71554 2f9nA 245 3.00e+01 1yobA 179 3.01e+01 1l1jA 239 3.04e+01 b.47.1.1 84516 1rqpA 299 3.04e+01 b.141.1.1,c.132.1.1 97754,97755 1wggA 96 3.07e+01 1gj7B 253 3.19e+01 1zxiF 288 3.25e+01 3tss 194 3.25e+01 1aw7A b.40.2.2,d.15.6.1 25160,37749 1ne7A 289 3.28e+01 c.124.1.1 91833 1zxiC 288 3.31e+01 3mefA 69 3.36e+01 1mjc b.40.4.5 25320 1qj2C 285 3.43e+01 1qj2C 1wjnA 97 3.48e+01 1autC 250 3.50e+01 5ptp b.47.1.2 26348 1h0cA 392 3.56e+01 c.67.1.3 83424 1kgcD 206 3.58e+01 b.1.1.1,b.1.1.2 77384,77385 1pm4A 119 3.62e+01 b.135.1.1 94891 1a0lA 244 3.82e+01 5ptp b.47.1.2 26286 1delA 241 3.83e+01 1dekA c.37.1.1 31844 2fdiA 211 3.86e+01 1lxkA 721 3.88e+01 a.102.3.2,b.24.1.1,b.30.5.2 74331,74332,74333 1ayrA 368 4.03e+01 1cf1A b.1.18.11,b.1.18.11 21915,21916 1d9tA 289 4.04e+01 1deaA 1aqm 453 4.07e+01 1smd b.71.1.1,c.1.8.1 27717,28704 1g94A 448 4.07e+01 b.71.1.1,c.1.8.1 65169,65170 1ng5A 215 4.14e+01 b.100.1.1 91867 3dapA 320 4.28e+01 1dapA c.2.1.3,d.81.1.3 30051,39966 1nz0A 118 4.31e+01 d.14.1.2 86433 1ca1 370 4.46e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1rms 105 4.48e+01 9rnt d.1.1.4 36235 1k3bA 119 4.49e+01 b.61.5.1 72016 1z7gA 217 4.51e+01 1bmp 139 4.55e+01 2tgi g.17.1.2 44785 1vjlA 164 4.61e+01 d.257.1.1 100822 1ojxA 263 4.63e+01 c.1.10.1 93164 1d4tA 104 4.63e+01 1d4tA d.93.1.1 40537 1yb3A 175 4.65e+01 1hmpA 217 4.65e+01 1qk3A c.61.1.1 34075 1epxA 370 4.70e+01 1fbaA c.1.10.1 29150 1idm 343 4.71e+01 1cnzA c.77.1.1 35035 1yifA 533 4.72e+01 1w8sA 263 4.72e+01 1fnoA 417 4.79e+01 d.58.19.1,c.56.5.4 70145,75841 2aaa 484 4.84e+01 7taa b.71.1.1,c.1.8.1 27777,28764 2bbvA 363 5.03e+01 2bbvA b.121.4.4 23323 1rds 105 5.08e+01 9rnt d.1.1.4 36236 1f06A 320 5.09e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1dr8B 344 5.14e+01 1cnzA c.77.1.1 35052 1bzyA 217 5.15e+01 1qk3A c.61.1.1 34071 1mgrA 99 5.16e+01 d.1.1.2 79106 1dapA 320 5.26e+01 1dapA c.2.1.3,d.81.1.3 30053,39968 1o7nA 449 5.30e+01 b.33.1.2,d.129.3.3 81162,81163 1eg9A 449 5.31e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1iqaA 160 5.32e+01 b.22.1.1 71274 1ndoA 449 5.32e+01 1ndoA b.33.1.2,d.129.3.3 24444,41323 2fsrA 195 5.33e+01 2bbvC 363 5.38e+01 2bbvA b.121.4.4 23325 1ltoA 245 5.71e+01 b.47.1.2 84707 1wkaA 147 5.73e+01 1cdwA 179 5.76e+01 1ytbA d.129.1.1,d.129.1.1 41212,41213 1wwzA 159 5.79e+01 1ze3D 125 5.88e+01 1pylA 97 5.88e+01 d.1.1.2 104391 1b6u 257 5.89e+01 1nkr b.1.1.4,b.1.1.4 21797,21798 2f91A 237 6.03e+01 1smd 496 6.03e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1yr4A 237 6.03e+01 1lniA 96 6.03e+01 d.1.1.2 74046 1s55A 156 6.05e+01 1m6eX 359 6.13e+01 c.66.1.35 91188 1ks8A 433 6.19e+01 a.102.1.2 77519 1dkuA 317 6.23e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1qba 858 6.31e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21810,22406,29009,40408 1lxiA 139 6.36e+01 g.17.1.2 84735 2ech 50 6.43e+01 1fvl g.20.1.1 44879 1rz1A 161 6.49e+01 b.45.1.2 98124 1ytbA 180 6.67e+01 1ytbA d.129.1.1,d.129.1.1 41276,41277 1dkrA 317 6.70e+01 1dkuA c.61.1.2,c.61.1.2 34114,34115 1cd1A 315 6.70e+01 1cd1A b.1.1.2,d.19.1.1 21579,38155 1wruA 379 6.81e+01 1ibsA 317 6.85e+01 c.61.1.2,c.61.1.2 66107,66108 1c7sA 858 6.89e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 3sicI 107 7.13e+01 3ssi d.84.1.1 40028 1ei5A 520 7.16e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1c8uA 285 7.33e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1sawA 225 7.40e+01 1ryt 190 7.43e+01 1ryt a.25.1.1,g.41.5.1 16646,45245 1dvbA 191 7.46e+01 1ryt a.25.1.1,g.41.5.1 16645,45244 1b71A 191 7.47e+01 1ryt a.25.1.1,g.41.5.1 16647,45246 2bs9A 503 7.48e+01 1xwvA 129 7.51e+01 1tlyA 278 7.52e+01 f.4.6.1 107143 2bgu 351 7.54e+01 1c3jA c.87.1.1 35460 1hpi 71 7.63e+01 1ckuA g.35.1.1 44995 1u69A 163 7.80e+01 d.32.1.7 107699 1qwzA 235 7.80e+01 b.100.1.1 96510 2bfgA 503 7.97e+01 1vi4A 174 7.97e+01 c.8.7.1 100731 1vp6A 138 8.05e+01 1sqhA 312 8.12e+01 d.108.1.5 98966 3ssi 113 8.27e+01 3ssi d.84.1.1 40032 1qjpA 171 8.30e+01 1bxwA f.4.1.1 43742 1a6o 332 8.30e+01 1a6o 1be9A 119 8.36e+01 1pdr b.36.1.1 24774 1v88A 130 8.42e+01 b.55.1.1 108423 1qk4A 233 8.44e+01 1qk3A c.61.1.1 34037 2anwA 241 8.45e+01 1xovA 326 8.46e+01 1tnfA 158 8.47e+01 2tnfA b.22.1.1 23871 1lkoA 191 8.52e+01 a.25.1.1,g.41.5.1 78063,78064 1vdwA 254 8.60e+01 e.7.1.1 100569 1gmpA 96 8.61e+01 1rgeA d.1.1.2 36036 1ikpA 613 8.73e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1aw7A 194 8.74e+01 1aw7A b.40.2.2,d.15.6.1 25164,37753 1bmv2 374 8.74e+01 1bmv2 1jwhA 337 8.80e+01 d.144.1.7 71913 1ytbB 180 8.93e+01 1ytbA d.129.1.1,d.129.1.1 41278,41279 1ev7A 317 8.95e+01 1ev7B c.52.1.9 33315 1zkpA 268 8.97e+01 2sniI 83 8.99e+01 2sniI d.40.1.1 38573