# List of top-scoring protein chains for T0316.t04-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 1gpmA 525 6.08e-15 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1korA 400 1.70e-14 c.26.2.1,d.210.1.1 72824,72825 1vl2A 421 4.24e-14 c.26.2.1,d.210.1.1 108708,108709 1wy5A 317 8.85e-11 2c5sA 413 2.26e-09 1xngA 268 1.81e-08 1ni5A 433 1.94e-08 c.26.2.5,d.229.1.1 80533,80534 2d13A 227 1.56e-05 1k92A 455 1.90e-05 c.26.2.1,d.210.1.1 68325,68326 1ru8A 232 7.60e-05 c.26.2.1 97849 1q15A 503 1.12e-04 c.26.2.1,d.153.1.1 95538,95539 1ct9A 553 1.79e-04 1ct9A c.26.2.1,d.153.1.1 31616,41834 1m1zA 513 3.84e-04 c.26.2.1,d.153.1.1 78457,78458 1kqpA 271 4.37e-03 c.26.2.1 72883 1wxiA 275 1.26e-02 1zunA 325 3.40e-02 2bpqA 373 3.57e-02 1zvwA 378 4.06e-02 1wqaA 455 2.76e-01 1uj2A 252 5.40e-01 c.37.1.6 99452 1xrjA 261 5.75e-01 2bxrA 527 6.71e-01 1o5wA 534 7.83e-01 c.3.1.2,d.16.1.5 92520,92521 1z2iA 358 1.06e+00 1g8kB 133 1.66e+00 1g8jB b.33.1.1 24435 2todA 425 1.67e+00 7odcA b.49.2.3,c.1.6.1 26489,28651 1njjA 425 1.70e+00 b.49.2.3,c.1.6.1 91905,91906 1f3tA 425 1.70e+00 7odcA b.49.2.3,c.1.6.1 26493,28655 1szrA 425 1.78e+00 1g8jB 133 2.00e+00 1g8jB b.33.1.1 24439 1i3oA 175 2.01e+00 1pauA c.17.1.1 61603 7odcA 424 2.24e+00 7odcA b.49.2.3,c.1.6.1 26488,28650 1sur 215 3.13e+00 1sur c.26.2.2 31620 1o89A 345 3.23e+00 b.35.1.2,c.2.1.1 92644,92645 2liv 344 4.88e+00 2liv c.93.1.1 35708 1z15A 344 5.03e+00 1hbxG 157 5.69e+00 1awcA a.4.5.21 60934 1nmeA 146 5.88e+00 c.17.1.1 85874 1rhjA 147 5.92e+00 c.17.1.1 97481 1d7kA 421 6.29e+00 7odcA b.49.2.3,c.1.6.1 26486,28648 1wjgA 137 6.48e+00 1tjoA 182 6.91e+00 1cp3A 277 8.06e+00 1pauA c.17.1.1 30992 1l7pA 211 8.70e+00 c.108.1.4 73670 1zp6A 191 8.79e+00 1l7mA 211 8.85e+00 c.108.1.4 73664 1g5bA 221 8.87e+00 1g5bA d.159.1.3 60261 1j97A 211 8.92e+00 1f5sA c.108.1.4 62753 1dbp 271 9.52e+00 2dri c.93.1.1 35639 1wh5A 80 9.59e+00 1jmvA 141 1.02e+01 c.26.2.4 66897 1kmkA 406 1.09e+01 c.67.1.3 68696 1ulzA 451 1.11e+01 b.84.2.1,c.30.1.1,d.142.1.2 99575,99576,99577 1xi3A 215 1.19e+01 c.1.3.1 109601 1bw0A 416 1.23e+01 1bw0A c.67.1.1 34385 1kmjA 406 1.27e+01 c.67.1.3 68695 1jf9A 408 1.28e+01 1c0nA c.67.1.3 62931 1tx2A 297 1.49e+01 c.1.21.1 107420 1gc0A 398 1.51e+01 c.67.1.3 70168 1rpnA 335 1.54e+01 c.2.1.2 97708 2lbp 346 1.64e+01 2liv c.93.1.1 35709 1mzhA 225 1.69e+01 c.1.10.1 79698 1vp8A 201 1.75e+01 1onfA 500 1.75e+01 c.3.1.5,c.3.1.5,d.87.1.1 87141,87142,87143 1xi8A 403 1.77e+01 1wy9A 147 1.83e+01 1t2aA 375 1.84e+01 c.2.1.2 99078 1rtwA 220 1.86e+01 a.132.1.3 97823 2cvhA 220 1.88e+01 1js1X 324 1.92e+01 c.78.1.1,c.78.1.1 71834,71835 1ba2A 271 2.06e+01 2dri c.93.1.1 35640 2fg6C 338 2.11e+01 1qgnA 445 2.17e+01 1ibjA c.67.1.3 34403 2adr 60 2.24e+01 2adr g.37.1.1,g.37.1.1 45030,45031 1oz7A 131 2.25e+01 d.169.1.1 93806 1l1sA 113 2.39e+01 c.114.1.1 73484 2c72A 520 2.40e+01 2bk5A 520 2.41e+01 2c76A 520 2.42e+01 1s3eA 520 2.42e+01 c.3.1.2,d.16.1.5 98426,98427 2a22A 215 2.48e+01 2c75A 520 2.48e+01 2c73A 520 2.60e+01 1nmsA 249 2.64e+01 c.17.1.1 85879 1qx3A 257 2.65e+01 c.17.1.1 96515 1zq6A 359 2.68e+01 2gfqA 298 2.68e+01 1jztA 246 2.75e+01 c.104.1.1 63319 1usgA 346 2.81e+01 c.93.1.1 99864 1rr7A 129 2.85e+01 a.4.1.14 105075 1wy0A 342 2.87e+01 2ebn 289 2.88e+01 2ebn c.1.8.5 28990 1c0nA 406 2.89e+01 1c0nA c.67.1.3 34433 1xm7A 195 3.12e+01 1drj 271 3.25e+01 2dri c.93.1.1 35642 2d9kA 75 3.28e+01 1vhh 162 3.30e+01 1vhh d.65.1.2 39550 2a7rA 366 3.45e+01 2c6qA 351 3.45e+01 1tbhA 314 3.49e+01 2g2bA 150 3.63e+01 2dri 271 3.65e+01 2dri c.93.1.1 35637 2bm8A 236 3.67e+01 1qczA 169 3.70e+01 1qczA c.23.8.1 31276 1efvB 255 3.76e+01 1efvB c.26.2.3 31634 1d7aA 161 3.77e+01 1qczA c.23.8.1 31277 2a1uB 255 3.78e+01 2br4A 236 3.79e+01 1sauA 115 3.81e+01 1iukA 140 3.84e+01 c.2.1.8 83712 1jmtA 104 3.91e+01 d.58.7.3 63180 1w8rA 263 3.96e+01 1jr6A 142 3.97e+01 c.37.1.14 71821 1h5yA 253 4.06e+01 c.1.2.1 65638 1w8sA 263 4.11e+01 1g67A 225 4.16e+01 c.1.3.1 60311 1tidB 119 4.17e+01 c.13.2.1 107000 1nf7A 514 4.26e+01 c.1.5.1,d.37.1.1,d.37.1.1 91852,91853,91854 1uqvA 85 4.27e+01 a.60.1.2 99798 1dekA 241 4.29e+01 1dekA c.37.1.1 31842 1hg3A 225 4.33e+01 1hg3A c.1.1.1 61025 2c7fA 513 4.35e+01 1jhzA 289 4.39e+01 c.93.1.1 66731 1jfsA 340 4.40e+01 a.35.1.5,c.93.1.1 66650,66651 1dofA 403 4.43e+01 1c3cA a.127.1.1 19429 1f5xA 208 4.52e+01 1f5xA a.87.1.1 18516 1mgvA 429 4.52e+01 c.67.1.4 79107 1pvnA 376 4.55e+01 c.1.5.1 88312 2akzA 439 4.58e+01 1s09A 429 4.61e+01 c.67.1.4 98261 1c7gA 456 4.66e+01 c.67.1.2 90415 1heiA 451 4.66e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1s08A 429 4.67e+01 c.67.1.4 98259 1u5tB 169 4.75e+01 a.4.5.54,a.4.5.54 107686,107687 1g4sA 226 4.77e+01 c.1.3.1 60247 1v9nA 360 4.79e+01 1me8A 503 4.85e+01 c.1.5.1 79028 2etvA 346 4.86e+01 2g8lA 299 4.90e+01 1qj5A 429 4.92e+01 1dtyA c.67.1.4 34493 2ffjA 300 4.93e+01 1s0aA 429 4.94e+01 c.67.1.4 98263 1s06A 429 4.96e+01 c.67.1.4 98255 2ct6A 111 4.97e+01 1ytkA 398 4.98e+01 1bc8C 93 5.00e+01 1awcA a.4.5.21 16168 1s7zA 117 5.11e+01 a.159.3.1 98715 1lrtA 376 5.16e+01 c.1.5.1 84685 1th8B 116 5.20e+01 c.13.2.1 106909 1ngnA 155 5.22e+01 a.96.1.2 85697 1ti6A 875 5.24e+01 b.52.2.2,c.81.1.1 106974,106975 1z1vA 80 5.29e+01 2g0tA 350 5.33e+01 1db3A 372 5.38e+01 1db3A c.2.1.2 29813 1dtyA 429 5.41e+01 1dtyA c.67.1.4 34495 2bleA 367 5.42e+01 1qcrA 446 5.44e+01 1be3A d.185.1.1,d.185.1.1 59025,59026 1ppjA 446 5.45e+01 d.185.1.1,d.185.1.1 104252,104253 1sqbA 480 5.47e+01 d.185.1.1,d.185.1.1 105890,105891 1x7oA 287 5.53e+01 1ojxA 263 5.63e+01 c.1.10.1 93164 2a7vA 490 5.68e+01 1pyqA 144 5.69e+01 b.52.2.1 95372 1zccA 248 5.72e+01 2b7oA 464 5.76e+01 1v9lA 421 5.81e+01 1r9gA 216 5.87e+01 c.23.16.1 97258 1drk 271 5.91e+01 2dri c.93.1.1 35638 1tkjA 284 6.00e+01 1yvkA 163 6.04e+01 1yb1A 272 6.08e+01 2f9zC 159 6.25e+01 1vdwA 254 6.29e+01 e.7.1.1 100569 1bccA 446 6.29e+01 1be3A d.185.1.1,d.185.1.1 58946,58947 1iz7A 295 6.38e+01 c.69.1.8 76982 1cv2A 296 6.39e+01 1bn6A c.69.1.8 34680 1g42A 296 6.39e+01 c.69.1.8 65139 1mj5A 302 6.41e+01 c.69.1.8 91285 1s07A 429 6.50e+01 c.67.1.4 98257 1dliA 402 6.57e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1qy7A 112 6.57e+01 d.58.5.1 96575 1a1vA 476 6.60e+01 1heiA c.37.1.14,c.37.1.14 32467,32468 1g6cA 227 6.65e+01 c.1.3.1 60315 1eepA 404 6.66e+01 1ak5 c.1.5.1 28636 2c2lA 281 6.74e+01 1nw1A 429 6.76e+01 d.144.1.8 86286 1fnnA 389 6.79e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1r85A 379 6.84e+01 c.1.8.3 104839 1vc4A 254 6.85e+01 c.1.2.4 100557 2tpsA 227 6.88e+01 2tpsA c.1.3.1 28591 1ymqA 261 7.06e+01 1kv5A 250 7.09e+01 c.1.1.1 73052 1tpe 250 7.11e+01 1amk c.1.1.1 28469 1tpfA 250 7.12e+01 1amk c.1.1.1 28467 1qqbA 340 7.13e+01 1qpzA a.35.1.5,c.93.1.1 17099,35674 1d6nA 214 7.15e+01 1qk3A c.61.1.1 34077 1dbqA 289 7.15e+01 1qpzA c.93.1.1 35666 1w68A 390 7.16e+01 a.25.1.2 109216 1qpzA 340 7.16e+01 1qpzA a.35.1.5,c.93.1.1 17097,35673 1vpwA 340 7.17e+01 1qpzA a.35.1.5,c.93.1.1 17087,35680 2pugA 340 7.35e+01 1qpzA a.35.1.5,c.93.1.1 17088,35683 1nksA 194 7.36e+01 1nksA c.37.1.1 31886 1jftA 340 7.37e+01 a.35.1.5,c.93.1.1 66652,66653 2a3nA 355 7.40e+01 1j9gA 147 7.42e+01 c.23.5.1 62757 1wswA 148 7.44e+01 1dljA 402 7.48e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2pucA 340 7.56e+01 1qpzA a.35.1.5,c.93.1.1 17094,35684 1iu9A 111 7.61e+01 c.78.2.1 90694 1zsvA 349 7.62e+01 1z5vA 474 7.62e+01 1vmdA 178 7.82e+01 c.24.1.2 108891 1g69A 228 7.85e+01 c.1.3.1 60313 1b26A 416 7.85e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 1x9iA 302 7.88e+01 1iy9A 275 7.92e+01 c.66.1.17 76943 1nv8A 284 7.92e+01 c.66.1.30 86224 1vq1A 294 7.92e+01 1sg9A 282 7.92e+01 c.66.1.30 105526 1b3bA 415 8.03e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1h80A 464 8.04e+01 b.80.1.8 65714 2ajtA 500 8.09e+01 1vbkA 307 8.14e+01 1x6hA 86 8.24e+01 1sjdA 368 8.29e+01 c.1.11.2,d.54.1.1 105632,105633 1dgmA 363 8.33e+01 1bx4A c.72.1.1 34936 1y6jA 318 8.41e+01 1wdkA 715 8.55e+01 a.100.1.3,a.100.1.3,c.2.1.6,c.14.1.3 109250,109251,109252,109253 1qs0B 338 8.55e+01 1qs0B c.36.1.7,c.48.1.2 31830,33103 2bp7B 339 8.58e+01 1vbjA 281 8.59e+01 1liiA 363 8.69e+01 c.72.1.1 73921 1gytA 503 8.90e+01 c.50.1.1,c.56.5.3 70765,70766 1lioA 363 8.96e+01 c.72.1.1 73924 1mfeH 219 9.00e+01 1mfa b.1.1.1,b.1.1.2 19893,20987