# List of top-scoring protein chains for T0316.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 1xngA 268 2.42e-09 1gpmA 525 4.06e-08 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 2c5sA 413 6.20e-07 1wy5A 317 8.72e-07 1ni5A 433 5.17e-06 c.26.2.5,d.229.1.1 80533,80534 1vl2A 421 3.08e-04 c.26.2.1,d.210.1.1 108708,108709 2d13A 227 2.17e-03 1korA 400 6.28e-03 c.26.2.1,d.210.1.1 72824,72825 1ru8A 232 1.32e-02 c.26.2.1 97849 1m1zA 513 2.81e-02 c.26.2.1,d.153.1.1 78457,78458 1kqpA 271 3.14e-02 c.26.2.1 72883 1q15A 503 3.37e-02 c.26.2.1,d.153.1.1 95538,95539 1k92A 455 1.34e-01 c.26.2.1,d.210.1.1 68325,68326 1ct9A 553 2.86e-01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1b7yB 785 5.08e-01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1wxiA 275 7.78e-01 1o89A 345 1.04e+00 b.35.1.2,c.2.1.1 92644,92645 1eal 127 1.51e+00 1hmt b.60.1.2 27227 2a2pA 129 4.14e+00 2bpqA 373 4.42e+00 1zvwA 378 4.44e+00 2bxrA 527 4.53e+00 1wy1A 172 5.11e+00 2azqA 311 6.66e+00 1fkl 107 6.88e+00 1fkj d.26.1.1 38423 1rc9A 221 7.16e+00 1bkf 107 7.45e+00 1fkj d.26.1.1 38382 2a22A 215 7.86e+00 1wqaA 455 7.97e+00 1fkj 107 8.37e+00 1fkj d.26.1.1 38384 1tcoC 107 8.37e+00 1fkj d.26.1.1 38426 1sh0A 510 8.58e+00 e.8.1.4 98876 1s1iH 191 9.30e+00 i.1.1.1 105182 1dekA 241 9.90e+00 1dekA c.37.1.1 31842 1eymA 107 1.02e+01 1fkj d.26.1.1 38403 1zczA 464 1.04e+01 2b43A 526 1.05e+01 1bl4A 107 1.08e+01 1fkj d.26.1.1 38393 2dg4A 107 1.15e+01 1hm7A 336 1.16e+01 a.128.1.4 76719 1x6hA 86 1.18e+01 1iq4A 179 1.26e+01 1iq4A d.77.1.1 62641 1bn7A 294 1.28e+01 1bn6A c.69.1.8 34677 1ulzA 451 1.30e+01 b.84.2.1,c.30.1.1,d.142.1.2 99575,99576,99577 2dg9A 107 1.32e+01 1w17A 263 1.33e+01 1w1b1 257 1.46e+01 1po5A 476 1.47e+01 a.104.1.1 94963 2adr 60 1.48e+01 2adr g.37.1.1,g.37.1.1 45030,45031 1ny1A 240 1.48e+01 c.6.2.3 86395 1ps1A 337 1.52e+01 1ps1A a.128.1.4 19450 1cqwA 295 1.59e+01 1b6g c.69.1.8 34679 1n4kA 381 1.61e+01 a.118.22.1,b.42.6.1 79992,79993 1suoA 476 1.62e+01 a.104.1.1 106026 2ax3A 502 1.67e+01 2todA 425 1.72e+01 7odcA b.49.2.3,c.1.6.1 26489,28651 1f3tA 425 1.73e+01 7odcA b.49.2.3,c.1.6.1 26493,28655 1njjA 425 1.73e+01 b.49.2.3,c.1.6.1 91905,91906 1szrA 425 1.73e+01 1bccA 446 1.82e+01 1be3A d.185.1.1,d.185.1.1 58946,58947 1wwrA 171 1.85e+01 1mkeA 152 2.04e+01 b.55.1.4 79231 1qcrA 446 2.06e+01 1be3A d.185.1.1,d.185.1.1 59025,59026 1ppjA 446 2.08e+01 d.185.1.1,d.185.1.1 104252,104253 1sqbA 480 2.09e+01 d.185.1.1,d.185.1.1 105890,105891 1awcB 153 2.12e+01 1bd8 d.211.1.1 19156 7odcA 424 2.15e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 2f4iA 197 2.22e+01 1iruE 241 2.23e+01 d.153.1.4 71356 1xcbA 211 2.32e+01 a.4.5.38,c.2.1.12 109552,109553 1rsgA 516 2.34e+01 1kn1A 160 2.36e+01 a.1.1.3 77455 2f5qA 274 2.38e+01 2f5nA 274 2.38e+01 1o5wA 534 2.39e+01 c.3.1.2,d.16.1.5 92520,92521 1r2zA 274 2.39e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1l1zA 274 2.39e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1n4nA 47 2.61e+01 g.3.7.5 91620 2cokA 113 2.84e+01 1liiA 363 2.95e+01 c.72.1.1 73921 2aj3A 213 2.98e+01 1allA 160 2.99e+01 1qgwC a.1.1.3 15647 1ntyA 311 3.04e+01 a.87.1.1,b.55.1.1 103873,103874 1lioA 363 3.11e+01 c.72.1.1 73924 1mioA 533 3.15e+01 1qguA c.92.2.3 35601 1pmzA 86 3.26e+01 a.39.1.10 104195 2fq1A 287 3.27e+01 1qtnA 164 3.29e+01 1pauA c.17.1.1 30999 1ok0A 74 3.38e+01 b.5.1.1 93191 1hey 128 3.44e+01 3chy c.23.1.1 31061 1nkl 78 3.46e+01 1nkl a.64.1.1 18140 1b33A 160 3.48e+01 1qgwC a.1.1.3 15649 1o1uA 127 3.53e+01 b.60.1.2 81076 1yy5A 513 3.53e+01 1pswA 348 3.57e+01 c.87.1.7 88287 1lvwA 295 3.67e+01 c.68.1.6 84723 1ff3A 211 3.74e+01 1fvaA d.58.28.1 39411 2absA 383 3.75e+01 1mjiA 182 3.76e+01 d.77.1.1 79208 1nnhA 294 3.79e+01 d.104.1.1 92005 1z1vA 80 3.99e+01 1flgA 582 4.15e+01 4aahA b.70.1.1 27682 1dgmA 363 4.28e+01 1bx4A c.72.1.1 34936 1ojt 482 4.29e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30581,30582,40212 1qduA 153 4.31e+01 1pauA c.17.1.1 31000 1bhy 482 4.48e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30583,30584,40213 2a8nA 144 4.58e+01 1uqvA 85 4.76e+01 a.60.1.2 99798 2gfqA 298 4.77e+01 1j83A 180 4.93e+01 b.18.1.12 66430 2b3jA 159 4.94e+01 1sg0A 230 5.04e+01 1zx1A 231 5.04e+01 1dbp 271 5.05e+01 2dri c.93.1.1 35639 2bzsA 236 5.07e+01 1qnxA 209 5.11e+01 1qnxA d.111.1.1 40914 1cicA 214 5.19e+01 8fabA b.1.1.1,b.1.1.2 19964,21024 2bv1A 145 5.33e+01 2b59B 172 5.39e+01 1cqqA 180 5.41e+01 1cqqA b.47.1.4 26422 1vkuA 100 5.43e+01 a.28.1.1 108690 1d7kA 421 5.50e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 2aamA 309 5.52e+01 1eaxA 241 5.67e+01 b.47.1.2 64889 1vj0A 380 5.83e+01 b.35.1.2,c.2.1.1 100786,100787 1uteA 313 5.94e+01 1uteA d.159.1.1 42078 2bbvA 363 6.06e+01 2bbvA b.121.4.4 23323 1t2aA 375 6.07e+01 c.2.1.2 99078 1xg5A 279 6.18e+01 1xrtA 467 6.31e+01 1r89A 437 6.33e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1gof 639 6.35e+01 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1k3iA 656 6.35e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1tykA 34 6.43e+01 g.3.6.2 107462 2amlA 373 6.53e+01 1lu8A 35 6.53e+01 g.3.6.2 91125 1qd1A 325 6.63e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1v4nA 281 6.66e+01 1vdgA 197 6.79e+01 1sp4B 205 6.81e+01 1drj 271 6.93e+01 2dri c.93.1.1 35642 1fyvA 161 6.97e+01 1fyvA c.23.2.1 31127 1wxqA 397 7.03e+01 2dri 271 7.04e+01 2dri c.93.1.1 35637 1y7yA 74 7.12e+01 1drk 271 7.16e+01 2dri c.93.1.1 35638 1db3A 372 7.20e+01 1db3A c.2.1.2 29813 1t2xA 639 7.39e+01 b.1.18.2,b.18.1.1,b.69.1.1 106292,106293,106294 2dccA 256 7.46e+01 1es7A 116 7.60e+01 2tgi g.17.1.2 44786 1rewA 114 7.65e+01 g.17.1.2 97334 1mfmA 153 7.79e+01 1mfmA b.1.8.1 22246 1dswA 153 7.79e+01 1mfmA b.1.8.1 22271 1ehyA 294 7.83e+01 1ehyA c.69.1.11 34693 1v9nA 360 8.52e+01 1m94A 93 8.54e+01 d.15.1.1 78865 1n3lA 372 8.67e+01 c.26.1.1 79966 1s06A 429 8.72e+01 c.67.1.4 98255 1vckA 115 8.74e+01 1g13A 162 8.80e+01 1g13A b.95.1.1 60194