# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 1z47A 355 4.45e-02 1xx4A 261 5.71e-02 1l2tA 235 7.94e-02 c.37.1.12 73514 2reb 352 1.43e-01 2reb c.37.1.11,d.48.1.1 32282,38767 1u94A 356 1.98e-01 c.37.1.11,d.48.1.1 107743,107744 1fobA 334 2.54e-01 c.1.8.3 83255 1c9kA 180 3.05e-01 1c9kB c.37.1.11 32363 2b99A 156 3.99e-01 1yvkA 163 4.12e-01 1sg4A 260 4.48e-01 1jf8A 131 6.12e-01 c.44.1.1 66621 1xp8A 366 9.31e-01 2gqrA 237 1.12e+00 1g7sA 594 1.18e+00 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1cr1A 296 1.22e+00 1cr1A c.37.1.11 32286 1yuwA 554 1.47e+00 1nekA 588 1.47e+00 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1vplA 256 1.52e+00 1gvoA 364 1.89e+00 c.1.4.1 76357 1lt8A 406 1.91e+00 c.1.26.1 78186 1obdA 306 2.25e+00 d.143.1.1 86767 1y9kA 157 2.34e+00 1vypX 364 2.41e+00 c.1.4.1 108905 1a48 306 2.52e+00 1a48 d.143.1.1 41590 1mb3A 124 2.82e+00 c.23.1.1 78907 1srrA 124 2.83e+00 1dz3A c.23.1.1 31110 1h61A 364 2.85e+00 1oyc c.1.4.1 60657 1vyrA 364 2.85e+00 c.1.4.1 108906 1b0uA 262 2.89e+00 1b0uA c.37.1.12 32370 2b0vA 153 2.94e+00 2abbA 364 3.06e+00 1kutA 230 3.11e+00 d.143.1.1 73017 1c44A 123 3.45e+00 1qndA d.106.1.1 40795 1a04A 215 3.93e+00 1a04A a.4.6.2,c.23.1.1 16234,31089 2bvpA 276 4.14e+00 1e19A 314 4.25e+00 1b7bA c.73.1.1 34967 1m3uA 264 4.58e+00 c.1.12.8 84784 2anuA 255 4.75e+00 1g0hA 252 4.76e+00 1dk4A e.7.1.1 60171 1u0sY 118 4.84e+00 c.23.1.1 107566 1v33A 366 5.28e+00 d.264.1.1 100278 1c30B 382 5.35e+00 c.8.3.1,c.23.16.1 30736,31413 1tmy 120 5.43e+00 1dbwA c.23.1.1 31083 1t6kA 278 5.98e+00 1n0wA 243 6.07e+00 c.37.1.11 79772 1nxmA 197 6.15e+00 b.82.1.1 86385 1w44A 331 6.22e+00 2czdA 208 6.33e+00 1bupA 386 6.34e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1kay 381 6.38e+00 1ba1 c.55.1.1,c.55.1.1 33385,33386 1f28A 297 6.54e+00 1bkpA d.117.1.1 59608 1ubeA 349 6.94e+00 c.37.1.11,d.48.1.1 88412,88413 2f5tX 233 7.26e+00 1z2lA 423 7.44e+00 1i39A 225 7.48e+00 1ekeA c.55.3.1 61585 1wleA 501 7.87e+00 1cnzA 363 8.06e+00 1cnzA c.77.1.1 35061 1wurA 220 8.12e+00 1e9lA 377 8.12e+00 1e9lA c.1.8.5,d.26.3.1 59395,59396 1yavA 159 8.17e+00 1h8eD 482 8.33e+00 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1u1wA 298 8.46e+00 1a9xB 379 8.50e+00 1c3oB c.8.3.1,c.23.16.1 30732,31409 1hkkA 364 8.56e+00 c.1.8.5,d.26.3.1 90634,90635 1ko7A 314 8.59e+00 c.98.2.1,c.91.1.2 72797,72798 1ofuA 320 8.65e+00 c.32.1.1,d.79.2.1 86972,86973 1vcdA 126 8.82e+00 1g291 372 8.82e+00 1g291 1iy8A 267 8.96e+00 c.2.1.2 83774 2c31A 568 9.20e+00 1e6uA 321 9.49e+00 1bsvA c.2.1.2 29805 2ck3D 482 9.86e+00 1vf8A 377 9.88e+00 1e79D 482 9.92e+00 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1wb0A 445 1.04e+01 1uf5A 303 1.07e+01 d.160.1.2 107808 1erzA 303 1.07e+01 1erzA d.160.1.2 59498 1g6hA 257 1.10e+01 1gajA c.37.1.12 60318 2ct8A 497 1.16e+01 1e7rA 321 1.18e+01 1bsvA c.2.1.2 29808 2gtrA 261 1.25e+01 1pm4A 119 1.26e+01 b.135.1.1 94891 1ig3A 263 1.27e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 1v5wA 343 1.27e+01 c.37.1.11 108387 1m6iA 493 1.28e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1k77A 260 1.28e+01 c.1.15.5 72096 1jmsA 381 1.32e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1vl8A 267 1.41e+01 c.2.1.2 108733 1vk6A 269 1.42e+01 d.113.1.4,d.113.1.4 100851,100852 1xubA 298 1.43e+01 1zn6A 227 1.44e+01 1z41A 338 1.45e+01 2a1xA 308 1.47e+01 1w0dA 337 1.51e+01 1hdmB 193 1.55e+01 1hdmB b.1.1.2,d.19.1.1 21584,38158 1acf 125 1.75e+01 3nul d.110.1.1 40882 1i60A 278 1.79e+01 c.1.15.4 71118 1p5jA 372 1.80e+01 c.79.1.1 104067 1o0iA 138 1.84e+01 d.38.1.5 86532 2gr8A 99 1.88e+01 1vfvA 366 1.89e+01 c.37.1.9 108592 1ojqA 212 1.90e+01 d.166.1.1 93146 1j8mF 297 1.93e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1nffA 260 1.96e+01 c.2.1.2 80457 2gdjA 264 1.98e+01 1zanL 214 2.01e+01 1pwxA 254 2.06e+01 c.2.1.2 95262 1j8yF 297 2.11e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 2f5gA 133 2.13e+01 1i6wA 181 2.19e+01 1i6wA c.69.1.18 61859 1ispA 181 2.25e+01 c.69.1.18 76778 1vpqA 273 2.30e+01 1z7gA 217 2.35e+01 1vr3A 191 2.37e+01 1zmtA 254 2.40e+01 1icxA 155 2.44e+01 d.129.3.1 71191 2bc4B 211 2.49e+01 1mvoA 136 2.51e+01 c.23.1.1 79513 2cw8A 537 2.53e+01 3nul 130 2.54e+01 3nul d.110.1.1 40891 1vjoA 393 2.60e+01 c.67.1.3 100827 2axyA 73 2.60e+01 1ospL 214 2.64e+01 32c2A b.1.1.1,b.1.1.2 20116,21146 1szoA 257 2.67e+01 c.14.1.3 106164 2b06A 155 2.67e+01 1t71A 281 2.74e+01 1g71A 347 2.74e+01 1g71A d.264.1.1 43268 2ae2A 260 2.76e+01 1bdb c.2.1.2 29945 1w78A 422 2.78e+01 1y1nA 291 2.82e+01 1zmoA 244 2.82e+01 1jmvA 141 2.82e+01 c.26.2.4 66897 1gheA 177 2.90e+01 d.108.1.1 76222 1uh5A 329 2.91e+01 c.2.1.2 107840 1wt4A 73 2.96e+01 1yqvL 211 3.00e+01 1woqA 267 3.01e+01 c.55.1.10,c.55.1.10 109462,109463 1t4gA 322 3.02e+01 a.60.4.1,c.37.1.11 106418,106419 1vm7A 311 3.03e+01 c.72.1.1 108884 2fexA 188 3.06e+01 2fyxA 143 3.12e+01 2bbsA 290 3.16e+01 2adgA 214 3.29e+01 1jbkA 195 3.31e+01 c.37.1.20 71631 1xmiA 291 3.36e+01 1pcxA 810 3.38e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1yvoA 172 3.39e+01 1shsA 147 3.44e+01 1shsA b.15.1.1 23675 1rthA 560 3.49e+01 1rthA c.55.3.1,e.8.1.2 33576,43028 1j31A 262 3.51e+01 d.160.1.2 90808 2bl1A 172 3.52e+01 1g2aA 168 3.53e+01 d.167.1.1 65109 1ei6A 406 3.56e+01 c.76.1.4 90443 1n5nA 180 3.57e+01 d.167.1.1 85336 2azpA 318 3.62e+01 1fbnA 230 3.65e+01 1fbnA c.66.1.3 34181 1t8tA 271 3.66e+01 c.37.1.5 106685 1l7mA 211 3.68e+01 c.108.1.4 73664 1ltzA 297 3.77e+01 d.178.1.1 74254 2awaA 390 3.77e+01 1tqzA 133 3.81e+01 1lnsA 763 3.81e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1v2bA 177 3.85e+01 d.107.1.2 108279 1repC 251 3.86e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1g0cA 364 3.86e+01 7a3hA c.1.8.3 60165 2aabL 218 3.88e+01 1wy5A 317 3.93e+01 1svdA 473 4.02e+01 1qsmA 152 4.03e+01 1qsmA d.108.1.1 40808 2ampA 304 4.03e+01 1lvoA 302 4.04e+01 b.47.1.4 74284 1xb4A 202 4.06e+01 1xeoA 168 4.06e+01 1bs4A 168 4.06e+01 1bs4A d.167.1.1 42287 1j97A 211 4.06e+01 1f5sA c.108.1.4 62753 1qv9A 283 4.07e+01 c.127.1.1 96356 2acaA 189 4.08e+01 1m7gA 211 4.11e+01 c.37.1.4 78724 1vetA 124 4.13e+01 d.110.7.1 108553 1seqL 213 4.15e+01 1ztxL 212 4.20e+01 1ush 550 4.22e+01 1ush d.114.1.1,d.159.1.2 40923,42079 1g8sA 230 4.22e+01 c.66.1.3 90507 1dbiA 280 4.24e+01 1gci c.41.1.1 32543 1vh5A 148 4.25e+01 d.38.1.5 100642 1yu6A 275 4.25e+01 1rvgA 305 4.25e+01 c.1.10.2 97920 1ekeA 230 4.27e+01 1ekeA c.55.3.1 33572 1o8uA 257 4.28e+01 c.14.1.3 81194 1forL 210 4.33e+01 8fabA b.1.1.1,b.1.1.2 19988,21044 1i05A 180 4.35e+01 1mup b.60.1.1 27130 1wqaA 455 4.36e+01 1i06A 180 4.40e+01 1mup b.60.1.1 27131 2cdcA 366 4.48e+01 1r94A 118 4.49e+01 b.124.1.1 97251 1px5A 349 4.50e+01 a.160.1.2,d.218.1.6 95277,95278 1ih8A 271 4.53e+01 2nsyA c.26.2.1 62377 1cseE 274 4.56e+01 1gci c.41.1.1 32481 2bo4A 397 4.57e+01 2b6eA 146 4.59e+01 1vp2A 208 4.59e+01 1ebfA 358 4.61e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1s8nA 205 4.65e+01 c.23.1.1 105374 1phk 298 4.69e+01 1cdkA d.144.1.7 41635 1kqpA 271 4.73e+01 c.26.2.1 72883 2fp8A 322 4.74e+01 2fbjL 213 4.76e+01 8fabA b.1.1.1,b.1.1.2 19850,20954 1o97D 320 4.78e+01 c.26.2.3,c.31.1.2 81233,81234 1w96A 554 4.79e+01 1hp1A 516 4.90e+01 d.114.1.1,d.159.1.2 70976,70977 1ji0A 240 4.91e+01 c.37.1.12 71665 7odcA 424 4.93e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1ue1A 164 4.93e+01 b.40.4.3 99243 1xwiA 322 4.98e+01 1bg4 302 4.98e+01 1taxA c.1.8.3 28806 1r0rE 274 5.00e+01 c.41.1.1 96735 2dri 271 5.06e+01 2dri c.93.1.1 35637 1mup 166 5.09e+01 1mup b.60.1.1 27133 1uyrA 737 5.18e+01 c.14.1.4,c.14.1.4 100188,100189 1o66A 275 5.23e+01 c.1.12.8 92547 1qy1A 174 5.27e+01 b.60.1.1 96568 2bl5A 140 5.29e+01 1i6iA 366 5.34e+01 1bg2 c.37.1.9 61844 1q74A 303 5.36e+01 c.134.1.1 96019 1el5A 389 5.38e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1r0wA 286 5.38e+01 c.37.1.12 96754 1zndA 174 5.38e+01 2ethA 154 5.46e+01 2cw9A 194 5.47e+01 1z5yE 149 5.47e+01 1ryiA 382 5.48e+01 1wyzA 242 5.55e+01 1qmyA 167 5.57e+01 1qmyA d.3.1.2 37094 2al2A 436 5.57e+01 1thm 279 5.62e+01 1gci c.41.1.1 32544 1f89A 291 5.65e+01 d.160.1.1 64988 2cvhA 220 5.71e+01 1nu7D 282 5.71e+01 a.8.6.1,a.8.6.1 92191,92192 1ekqA 272 5.71e+01 1c3qA c.72.1.2 34941 1sjwA 144 5.74e+01 d.17.4.9 98899 7a3hA 303 5.76e+01 7a3hA c.1.8.3 28817 1fzvA 132 5.79e+01 1vpfA g.17.1.1 60159 1e55A 512 5.79e+01 1e70M c.1.8.4 28934 1eur 365 5.81e+01 1eut b.68.1.1 27607 1h49A 512 5.81e+01 c.1.8.4 83477 1ntvA 152 5.85e+01 b.55.1.2 86168 1gvnB 287 5.87e+01 c.37.1.21 76354 2cqnA 77 5.88e+01 2ajuL 216 5.88e+01 1z90A 469 5.92e+01 1g5aA 628 5.94e+01 b.71.1.1,c.1.8.1 65152,65153 1a0cA 438 5.97e+01 1a0cA c.1.15.3 29529 1h3fA 432 6.03e+01 c.26.1.1,d.66.1.4 76631,76632 1zhvA 134 6.04e+01 1nu0A 138 6.09e+01 c.55.3.8 92165 1gvfA 286 6.12e+01 c.1.10.2 70599 1u9tA 354 6.14e+01 1ctn 540 6.15e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 1jv4A 162 6.19e+01 b.60.1.1 67343 1pvdA 537 6.19e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1gmlA 178 6.21e+01 c.8.5.2 70273 1u9aA 160 6.21e+01 1u9aA d.20.1.1 38333 1n2eA 300 6.24e+01 c.26.1.4 85268 1o69A 394 6.32e+01 c.67.1.4 92560 1vhsA 175 6.35e+01 d.108.1.1 100698 1n13B 113 6.37e+01 1hl9A 449 6.39e+01 b.71.1.3,c.1.8.11 90650,90651 1lwjA 441 6.49e+01 b.71.1.1,c.1.8.1 74303,74304 1eiwA 111 6.52e+01 1eiwA c.23.3.1 31130 1t9bA 677 6.53e+01 1eq2A 310 6.61e+01 1eq2A c.2.1.2 29814 1w2xA 758 6.66e+01 c.14.1.4,c.14.1.4 109134,109135 1yh6A 179 6.71e+01 1qipA 183 6.73e+01 1qipA d.32.1.1 38470 1jx7A 117 6.74e+01 c.114.1.1 77195 1llnA 262 6.76e+01 d.165.1.1 84625 1qsoA 149 6.82e+01 1qsmA d.108.1.1 40812 1vrmA 325 6.82e+01 1fzqA 181 6.85e+01 1hurA c.37.1.8 32060 1k2eA 156 6.85e+01 d.113.1.1 72010 1vdmA 153 6.90e+01 1eqjA 511 6.91e+01 1ejjA c.105.1.1,c.76.1.3 59495,59496 1e6oL 212 6.91e+01 32c2A b.1.1.1,b.1.1.2 20494,21452 1q4uA 151 6.97e+01 d.38.1.5 95828 1ek0A 170 7.12e+01 1ctqA c.37.1.8 32076 1hzdA 272 7.14e+01 c.14.1.3 65969 1q7zA 566 7.24e+01 c.1.21.2,c.1.26.1 96090,96091 2pia 321 7.26e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 2grrA 161 7.29e+01 1h8gA 95 7.38e+01 b.109.1.1 65735 1mexL 213 7.43e+01 b.1.1.1,b.1.1.2 91259,91260 1z7bA 358 7.47e+01 1q9rA 219 7.49e+01 b.1.1.1,b.1.1.2 96305,96306 2al1A 436 7.59e+01 1gvhA 396 7.68e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1ma3A 253 7.70e+01 c.31.1.5 78883 1tfr 305 7.76e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1bzyA 217 7.77e+01 1qk3A c.61.1.1 34071 1j5sA 463 7.78e+01 c.1.9.8 71580 1jkxA 212 7.85e+01 c.65.1.1 66813 1iw7C 1119 7.96e+01 e.29.1.1 71474 2ac2A 309 7.98e+01 1me8A 503 8.00e+01 c.1.5.1 79028 1f9aA 168 8.05e+01 1f9aA c.26.1.3 31602 1qhtA 775 8.08e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1nzjA 298 8.10e+01 c.26.1.1 92377 2au3A 407 8.11e+01 1xdfA 157 8.11e+01 1s2dA 167 8.23e+01 c.23.14.1 98377 1hziA 129 8.23e+01 1rcb a.26.1.2 61449 2d48A 129 8.26e+01 1gvnA 90 8.35e+01 a.8.2.1 76353 1u9jA 358 8.36e+01 2be1A 339 8.37e+01 1xttA 216 8.37e+01 1edqA 540 8.42e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 2fbwA 621 8.48e+01 2aefA 234 8.48e+01 2ac4A 309 8.50e+01 1ps9A 671 8.50e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1svfB 38 8.52e+01 1svfB h.3.2.1 45764 1rcb 129 8.57e+01 1rcb a.26.1.2 16854 1har 216 8.60e+01 1rthA e.8.1.2 43025 1fts 295 8.62e+01 1ng1 a.24.13.1,c.37.1.10 16968,32279 1gcoA 261 8.63e+01 1ybvA c.2.1.2 29884 1ef8A 261 8.64e+01 1ef8A c.14.1.3 30921 1auk 489 8.66e+01 1auk c.76.1.2 35030 1zc3B 113 8.67e+01 6mhtA 327 8.70e+01 6mhtA c.66.1.26 34226 2frnA 278 8.70e+01 1pwhA 327 8.73e+01 c.79.1.1 95224 1xh3A 276 8.74e+01 1z5lA 285 8.80e+01 1geeA 261 8.82e+01 c.2.1.2 90509 1juhA 350 8.84e+01 b.82.1.5 71884 1v5eA 590 8.85e+01 1ezm 301 8.97e+01 1hyt d.92.1.2 58980 1skoA 143 8.97e+01 d.110.7.1 105676