# List of top-scoring protein chains for T0354.t2k-w0.5 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 1g7uA 284 1.21e+00 1d9eA c.1.10.4 60334 1wijA 140 4.56e+00 1bh9B 89 4.62e+00 1bh9B a.22.1.3 16485 1ddvA 111 5.23e+00 1evhA b.55.1.4 27002 1uvxA 121 5.63e+00 a.1.1.1 100067 1ddwA 120 5.64e+00 1evhA b.55.1.4 27001 1sg3A 349 5.71e+00 b.18.1.22,b.18.1.22 98847,98848 1o59A 355 5.86e+00 b.18.1.22,b.18.1.22 92495,92496 1dlyA 164 6.35e+00 1dlyA a.1.1.1 14983 1vlbA 907 6.84e+00 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 2gfgA 193 6.89e+00 1i2hA 168 7.25e+00 b.55.1.4 71103 1gntA 553 8.59e+00 e.26.1.1 70290 1e1dA 553 8.64e+00 1e1dA e.26.1.1 43363 1wa3A 205 8.74e+00 1dgjA 907 8.90e+00 1alo a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 17909,37694,38585,41415 1vlwA 217 9.01e+00 c.1.10.1 108868 1v9kA 228 9.84e+00 d.265.1.3 108449 1xpiA 231 1.02e+01 1ybtA 184 1.15e+01 1za4A 251 1.18e+01 1gh0A 162 1.30e+01 1cpcA a.1.1.3 60491 1jdqA 98 1.36e+01 d.68.3.3 66559 1ha7A 162 1.37e+01 a.1.1.3 70935 1gnlA 544 1.51e+01 e.26.1.1 70287 2gjlA 328 1.62e+01 2c5kP 24 1.68e+01 1y2qA 143 1.83e+01 1za7A 165 1.97e+01 2ewtA 71 2.00e+01 1phwA 284 2.05e+01 c.1.10.4 104155 1t71A 281 2.07e+01 1z4rA 168 2.09e+01 1iy8A 267 2.24e+01 c.2.1.2 83774 1uhtA 118 2.31e+01 b.26.1.2 99401 1cwpA 190 2.33e+01 1cwpA b.121.4.5 23305 2fc7A 82 2.35e+01 2d92A 108 2.40e+01 1cm0A 168 2.46e+01 1yghA d.108.1.1 40800 1vljA 407 2.53e+01 e.22.1.2 108832 1mp9A 198 2.79e+01 d.129.1.1,d.129.1.1 91385,91386 2a10A 125 3.43e+01 1kczA 413 3.62e+01 c.1.11.2,d.54.1.1 68451,68452 1s1nA 68 3.72e+01 2gibA 103 3.99e+01 1nvtA 287 4.01e+01 c.2.1.7,c.58.1.5 86270,86271 1wo8A 126 4.07e+01 1m2zA 257 4.11e+01 a.123.1.1 84768 1zjjA 263 4.12e+01 1nhzA 280 4.13e+01 a.123.1.1 85727 1jv4A 162 4.14e+01 b.60.1.1 67343 2gl5A 410 4.17e+01 1rtxA 123 4.19e+01 a.1.1.1 97827 1s69A 124 4.22e+01 a.1.1.1 105305 1mup 166 4.29e+01 1mup b.60.1.1 27133 1zndA 174 4.31e+01 1iruJ 205 4.32e+01 d.153.1.4 71361 1lt8A 406 4.33e+01 c.1.26.1 78186 1o5zA 442 4.33e+01 c.59.1.2,c.72.2.2 92530,92531 1i06A 180 4.44e+01 1mup b.60.1.1 27131 1eysM 324 4.46e+01 6prcM f.26.1.1 43516 1umyA 407 4.46e+01 c.1.26.1 99635 1q5qA 259 4.54e+01 d.153.1.4 95904 1q5rA 259 4.54e+01 d.153.1.4 95918 1ufkA 254 4.55e+01 c.66.1.39 99340 1wu7A 434 4.73e+01 1v6tA 255 4.86e+01 1kg0C 136 4.99e+01 d.169.1.1 72445 1oe8A 211 5.16e+01 a.45.1.1,c.47.1.5 86905,86906 1pf3A 498 5.21e+01 b.6.1.3,b.6.1.3,b.6.1.3 88049,88050,88051 2a9aA 372 5.22e+01 2a9bA 372 5.22e+01 2a9dA 372 5.23e+01 1kv7A 488 5.51e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1x25A 128 5.80e+01 1rw4A 272 6.05e+01 c.37.1.10 97962 2g9eA 70 6.08e+01 1s16A 390 6.13e+01 d.14.1.3,d.122.1.2 98331,98332 1soxA 466 6.23e+01 1soxA b.1.18.6,d.120.1.1,d.176.1.1 21947,41090,42563 2c8vA 288 6.31e+01 1g20E 289 6.32e+01 1cp2A c.37.1.10 32247 1tqjA 230 6.34e+01 c.1.2.2 107228 1ituA 369 6.37e+01 c.1.9.7 71423 1rkiA 102 6.38e+01 1tdf 316 6.44e+01 1trb c.3.1.5,c.3.1.5 30533,30534 2a8xA 464 6.46e+01 1qexA 288 6.46e+01 1qexA b.32.1.1 24425 2g7oA 70 6.52e+01 1trb 320 6.54e+01 1trb c.3.1.5,c.3.1.5 30529,30530 1tde 316 6.66e+01 1trb c.3.1.5,c.3.1.5 30531,30532 1qhdA 398 6.78e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1cl0A 320 6.78e+01 1trb c.3.1.5,c.3.1.5 30535,30536 1f6mA 320 6.79e+01 1trb c.3.1.5,c.3.1.5 30537,30538 1t3bA 211 6.88e+01 c.47.1.9,d.17.3.1 106341,106342 1j98A 157 6.90e+01 1j98A d.185.1.2 62755 1nekB 238 6.90e+01 a.1.2.1,d.15.4.2 80429,80430 1gesA 450 7.05e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1twfK 120 7.10e+01 2cr0A 121 7.19e+01 1yp6A 174 7.20e+01 1gerA 450 7.21e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30477,30478,40170 2gr8A 99 7.40e+01 1tzjA 338 7.74e+01 1kqfB 294 8.19e+01 d.58.1.5,f.23.22.1 75900,75901 1wfiA 131 8.21e+01 1p5vB 147 8.41e+01 b.2.3.2 87814 1q9jA 422 8.42e+01 c.43.1.2,c.43.1.2 104590,104591 2afaA 425 8.44e+01 1y8qB 640 8.52e+01 1p5uB 149 8.64e+01 b.2.3.2 87810 1q7eA 428 8.95e+01 c.123.1.1 96035 1pt7A 437 8.95e+01 c.123.1.1 95093