# List of top-scoring protein chains for t2k-100-30-bys-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 1gm9B 557 1.34e+00 1e3aB 560 1.81e+00 1ajqB 1gm7B 557 2.51e+00 1gk9B 557 2.52e+00 1gkfB 557 2.58e+00 1eu8A 409 2.61e+00 1eu8A c.94.1.1 59502 2fy6A 143 2.81e+00 1ajqB 557 2.95e+00 1ajqB 1pnkB 557 3.41e+00 1ajqB 2bkaA 242 4.82e+00 1fezA 256 4.88e+00 1fezA c.108.1.3 43343 1rqlA 267 5.09e+00 c.108.1.3 97750 1m4uA 206 7.07e+00 g.17.1.7 78625 1xmkA 79 7.31e+00 1swvA 267 8.14e+00 1uvqB 198 8.42e+00 b.1.1.2,d.19.1.1 100064,100065 1t7vA 278 8.71e+00 1gxrA 337 8.83e+00 b.69.4.1 70722 1bx2B 191 9.34e+00 1iakB b.1.1.2,d.19.1.1 21610,38184 1reoA 486 9.51e+00 c.3.1.2,d.16.1.5 97325,97326 1ymmB 198 9.70e+00 1jy5A 212 9.70e+00 d.124.1.1 71940 1bn5 478 9.99e+00 1bn5 a.4.5.25,d.127.1.1 16224,41161 1yi9A 309 1.09e+01 1zc1A 208 1.10e+01 1lkqA 21 1.17e+01 2culA 232 1.17e+01 1edqA 540 1.24e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1md6A 154 1.30e+01 b.42.1.2 91242 1ctn 540 1.31e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 1lu4A 136 1.32e+01 c.47.1.10 91124 2aqwA 332 1.39e+01 1eetB 427 1.41e+01 1rthA e.8.1.2 43079 2fdsA 352 1.42e+01 1p5hA 428 1.50e+01 c.123.1.1 87802 1apq 53 1.52e+01 1apq g.3.11.1 44324 1hniB 427 1.53e+01 1rthA e.8.1.2 43045 1phm 310 1.57e+01 1phm b.121.1.2,b.121.1.2 59015,59016 1tu1A 148 1.57e+01 d.107.1.3 107316 1jjzA 29 1.58e+01 g.3.3.1 71699 1sqjA 789 1.61e+01 b.69.13.1,b.69.13.1 105918,105919 1sur 215 1.63e+01 1sur c.26.2.2 31620 1sdwA 314 1.67e+01 b.121.1.2,b.121.1.2 98810,98811 1fobA 334 1.70e+01 c.1.8.3 83255 1a65A 504 1.73e+01 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 1hfuA 503 1.83e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1b59A 370 1.88e+01 1bn5 a.4.5.25,d.127.1.1 16225,41162 1oy1A 228 1.89e+01 c.23.16.2 87548 1e3dA 266 1.94e+01 2frvA e.19.1.1 59188 1jofA 365 1.96e+01 b.69.10.1 71775 1pls 113 1.97e+01 1pls b.55.1.1 26965 1unqA 125 2.06e+01 b.55.1.1 107968 1b6a 478 2.06e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1h10A 125 2.07e+01 b.55.1.1 83446 1h2rS 267 2.14e+01 2frvA e.19.1.1 43310 1pidA 21 2.15e+01 1y9iA 178 2.15e+01 1k9tA 540 2.16e+01 b.1.18.2,c.1.8.5,d.26.3.1 77298,77299,77300 1uwsA 489 2.16e+01 c.1.8.4 108073 1l7vC 249 2.17e+01 c.37.1.12 73674 1wuiS 267 2.19e+01 1fx8A 281 2.19e+01 f.19.1.1 43651 1twyA 290 2.20e+01 1ldfA 281 2.22e+01 f.19.1.1 73845 1i8nA 126 2.22e+01 1i8nA g.10.1.2 61976 2c4nA 250 2.23e+01 1ubkS 267 2.23e+01 e.19.1.1 88423 1iohA 21 2.25e+01 1bqnB 430 2.28e+01 1rthA e.8.1.2 43065 1aqdB 198 2.43e+01 1iakB b.1.1.2,d.19.1.1 21586,38160 2azwA 148 2.55e+01 1t0qA 498 2.57e+01 a.25.1.2 106220 1u3oA 82 2.60e+01 2cqeA 98 2.61e+01 1benA 21 2.62e+01 1rot 149 2.73e+01 1fkj d.26.1.1 38429 1rdfA 267 2.74e+01 c.108.1.3 104884 1msoA 21 2.78e+01 1mkmA 249 2.78e+01 a.4.5.33,d.110.2.2 79242,79243 1k8kA 418 2.82e+01 c.55.1.1,c.55.1.1 68305,68306 1rweA 21 2.82e+01 1jcaA 21 2.85e+01 1ykfA 352 2.92e+01 1pedA b.35.1.2,c.2.1.1 24757,29773 1z5vA 474 2.97e+01 1gowA 489 3.07e+01 1qvbA c.1.8.4 28981 4pah 308 3.12e+01 4pah d.178.1.1 42576 1frvA 264 3.17e+01 2frvA e.19.1.1 43308 1i78A 297 3.20e+01 f.4.4.1 66046 1h2aS 317 3.27e+01 2frvA e.19.1.1 43311 2bc4B 211 3.27e+01 2aliA 158 3.32e+01 1l2tA 235 3.45e+01 c.37.1.12 73514 1floA 422 3.46e+01 1floA a.60.9.1,d.163.1.1 18106,42166 1q4vA 21 3.49e+01 1hjsA 332 3.51e+01 c.1.8.3 83492 1qqrA 138 3.52e+01 1bmlC d.15.5.1 37721 1rk8C 58 3.53e+01 b.72.3.1 97605 1pah 308 3.54e+01 4pah d.178.1.1 42578 1j8uA 325 3.55e+01 d.178.1.1 71611 1deuA 277 3.66e+01 1theB d.3.1.1 37085 1vhqA 232 3.70e+01 c.23.16.2 100696 1dmwA 307 3.79e+01 4pah d.178.1.1 42580 1bfeA 119 3.83e+01 1pdr b.36.1.1 24775 1g7aA 21 3.96e+01 1kal 29 3.98e+01 g.3.3.1 44077 2fe5A 94 4.09e+01 1r7lA 110 4.21e+01 d.277.1.1 104837 1hqsA 423 4.26e+01 1iso c.77.1.1 61154 2gk4A 232 4.28e+01 2frvA 264 4.29e+01 2frvA e.19.1.1 43303 2g3aA 152 4.34e+01 1hmvB 440 4.36e+01 1rthA e.8.1.2 43047 1ieaB 228 4.48e+01 1iakB b.1.1.2,d.19.1.1 21632,38206 1rm6B 324 4.61e+01 1vfyA 73 4.62e+01 1vfyA g.50.1.1 45357 1m1hA 248 4.64e+01 b.114.1.1,d.58.42.1 78415,78416 2ay1A 394 4.65e+01 1ajsA c.67.1.1 34357 1wsrA 375 4.68e+01 1o7nA 449 4.76e+01 b.33.1.2,d.129.3.3 81162,81163 2bmoA 447 4.81e+01 1ve1A 304 4.85e+01 1xzzA 246 4.97e+01 1gjuA 637 4.99e+01 b.71.1.1,c.1.8.1 60580,60581 1wtaA 275 5.04e+01 1kmfA 21 5.09e+01 1vrtA 560 5.18e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1xw7A 21 5.21e+01 2fhzA 109 5.23e+01 1dlhB 188 5.35e+01 1iakB b.1.1.2,d.19.1.1 21598,38172 1fk9A 543 5.42e+01 1rthA c.55.3.1,e.8.1.2 33607,43080 1k3mA 21 5.45e+01 1xs0A 136 5.46e+01 1fzrA 138 5.64e+01 1fzrA c.52.1.17 33336 1gjwA 637 5.68e+01 b.71.1.1,c.1.8.1 60582,60583 1i8kA 107 5.68e+01 b.1.1.1 71130 1nmoA 247 5.70e+01 c.135.1.1 91980 1i5hW 50 5.71e+01 1i5hW b.72.1.1 61785 1nw1A 429 5.72e+01 d.144.1.8 86286 1pbyC 79 5.81e+01 a.137.9.1 94423 1jjuC 79 5.89e+01 a.137.9.1 66780 2fneA 117 5.93e+01 1bndA 119 5.96e+01 1bndA g.17.1.3 44793 2por 301 6.02e+01 2por f.4.3.1 43759 1dloB 427 6.05e+01 1rthA e.8.1.2 43041 1kqaA 203 6.10e+01 b.81.1.3 72868 1krrA 203 6.10e+01 b.81.1.3 72899 1h09A 338 6.15e+01 b.109.1.1,c.1.8.8 83420,83421 1bpyA 335 6.25e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 1k4nA 192 6.27e+01 d.32.1.5 72059 1c1lA 136 6.35e+01 1c1lA b.29.1.3 24219 1kevA 351 6.39e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1jlpA 25 6.42e+01 j.30.1.4 84176 2bwrA 401 6.46e+01 1m0dA 138 6.48e+01 c.52.1.17 74354 1rl4A 188 6.57e+01 d.167.1.1 97636 1n97A 389 6.62e+01 a.104.1.1 80335 1ilr1 152 6.75e+01 1irp 1hdmB 193 6.88e+01 1hdmB b.1.1.2,d.19.1.1 21584,38158 1e32A 458 6.90e+01 1e32A b.52.2.3,c.37.1.20,d.31.1.1 59183,59184,59185 1pdr 99 6.90e+01 1pdr b.36.1.1 24771 1d2rA 326 6.91e+01 1d2rB c.26.1.1 31572 1eq9A 222 6.98e+01 5ptp b.47.1.2 26068 1sdjA 310 7.13e+01 d.21.1.2,d.21.1.2 98807,98808 1pt7A 437 7.16e+01 c.123.1.1 95093 1qwtA 255 7.16e+01 b.26.1.3 96501 1ysc 421 7.16e+01 1ivyA c.69.1.5 34652 1c1bB 440 7.25e+01 1rthA e.8.1.2 43077 1q7eA 428 7.52e+01 c.123.1.1 96035 1eg9A 449 7.58e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1qgiA 259 7.68e+01 1qgiA d.2.1.7 37001 1yb0A 159 7.79e+01 2cy7A 396 7.79e+01 1necA 216 7.82e+01 1vfrA d.90.1.1 40249 1ndoA 449 7.84e+01 1ndoA b.33.1.2,d.129.3.3 24444,41323 1wlpB 138 7.95e+01 1f0mA 82 7.99e+01 1b4fA a.60.1.2 17942 2bn3A 21 8.25e+01 1u6bA 98 8.44e+01 d.58.7.1 107703 1mml 265 8.44e+01 1mml e.8.1.2 43015 2wsyA 268 8.44e+01 2tysA c.1.2.4 28588 1d3gA 367 8.52e+01 1d3gA c.1.4.1 28600 1be9A 119 8.55e+01 1pdr b.36.1.1 24774 1s1hM 132 8.58e+01 i.1.1.1 105165 1h03P 125 8.62e+01 g.18.1.1,g.18.1.1 83411,83412 1d2rB 326 8.62e+01 1d2rB c.26.1.1 31573 1eft 405 8.63e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 1l7dA 384 8.63e+01 c.2.1.4,c.23.12.2 77774,77775 1agqD 135 8.66e+01 1agqA g.17.1.2 44792 1l1nA 183 8.69e+01 b.47.1.4 73476 1q79A 514 8.73e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1urnA 97 8.73e+01 1urnA d.58.7.1 39153 1b8mA 119 8.79e+01 1bndA g.17.1.3 44797 1uswA 260 8.83e+01 c.69.1.17 99895 1gtdA 85 8.91e+01 d.284.1.1 76344 1ha3A 405 8.92e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 2bhvA 246 8.98e+01