# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 1h8lA 380 3.00e-25 b.3.2.1,c.56.5.1 65737,65738 2bcoA 350 1.36e-21 1yw4A 341 1.50e-20 2c1cA 312 7.55e-17 2bo9A 308 1.08e-16 1z5rA 306 2.31e-16 1kwmA 402 2.28e-15 c.56.5.1,d.58.3.1 73079,73080 1jqgA 433 5.86e-15 c.56.5.1,d.58.3.1 71791,71792 1dtdA 303 1.01e-14 1aye c.56.5.1 33823 1obr 326 1.60e-14 1aye c.56.5.2 33828 2ctc 307 1.33e-13 1aye c.56.5.1 33802 1m4lA 307 1.84e-13 c.56.5.1 78604 1jwqA 179 6.69e-02 c.56.5.6 90921 1m22A 503 1.45e-01 c.117.1.1 78464 1eceA 358 2.46e-01 1eceA c.1.8.3 28813 1ysjA 404 9.22e-01 1tvnA 293 1.15e+00 1ve3A 227 1.16e+00 1zuwA 272 1.47e+00 2czdA 208 1.96e+00 2absA 383 3.19e+00 1edg 380 3.29e+00 1edg c.1.8.3 28807 1zbmA 280 3.57e+00 1kewA 361 4.08e+00 c.2.1.2 68544 1b5qA 472 4.19e+00 1b37B c.3.1.2,d.16.1.5 30404,37968 1v73A 342 4.30e+00 2bznA 351 4.30e+00 1wzaA 488 4.50e+00 1vefA 395 4.82e+00 2c6qA 351 5.19e+00 1j6oA 268 5.44e+00 c.1.9.12 77088 1t0iA 191 5.48e+00 c.23.5.4 106209 1zthA 258 5.56e+00 1t0bA 252 5.61e+00 c.23.16.6 106199 1fobA 334 6.16e+00 c.1.8.3 83255 2aqjA 538 6.17e+00 1u9yA 284 6.18e+00 1db3A 372 6.20e+00 1db3A c.2.1.2 29813 1ea5A 537 6.29e+00 2bce c.69.1.1 34592 1r4xA 275 6.54e+00 b.1.10.3,d.105.1.2 97054,97055 1lwjA 441 6.64e+00 b.71.1.1,c.1.8.1 74303,74304 1liiA 363 7.58e+00 c.72.1.1 73921 1ceo 343 8.04e+00 1ceo c.1.8.3 28808 1wrmA 165 8.17e+00 1zklA 353 9.55e+00 1pl8A 356 9.72e+00 b.35.1.2,c.2.1.1 94878,94879 2fiqA 420 1.07e+01 1uteA 313 1.08e+01 1uteA d.159.1.1 42078 2givA 295 1.08e+01 1nbaA 264 1.18e+01 1nbaA c.33.1.3 31753 1va6A 518 1.21e+01 1h7eA 245 1.23e+01 c.68.1.13 60717 1cs0A 1073 1.28e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1t5iA 172 1.31e+01 c.37.1.19 106450 1i7dA 659 1.35e+01 1d6mA e.10.1.1 61886 1qhtA 775 1.38e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 2glzA 153 1.40e+01 1n7hA 381 1.40e+01 c.2.1.2 80250 1yt3A 375 1.48e+01 1wznA 252 1.55e+01 1vjzA 341 1.62e+01 c.1.8.3 100838 1ex1A 605 1.63e+01 1ex1A c.1.8.7,c.23.11.1 29013,31347 1xovA 326 1.75e+01 1e4iA 447 1.75e+01 1e70M c.1.8.4 59225 1fm2B 520 1.79e+01 1fm2B 1eybA 471 1.79e+01 1ey2A b.82.1.4 28115 1p0yA 444 1.82e+01 a.166.1.1,b.85.7.3 87654,87655 1owqA 361 1.89e+01 c.1.8.5,d.26.3.1 104041,104042 1or0B 528 1.98e+01 1x38A 602 2.02e+01 1fnsA 196 2.09e+01 1auq c.62.1.1 34136 1vp8A 201 2.10e+01 1wnfA 328 2.22e+01 1yqgA 263 2.26e+01 1ykhA 108 2.27e+01 1sziA 247 2.42e+01 a.24.23.1 106159 2bb3A 221 2.43e+01 1bn7A 294 2.44e+01 1bn6A c.69.1.8 34677 1ivnA 190 2.45e+01 c.23.10.5 83719 1l3aA 228 2.46e+01 d.18.1.2 73531 1yqeA 282 2.51e+01 1wlsA 328 2.52e+01 2govA 195 2.56e+01 1r6dA 337 2.63e+01 c.2.1.2 97148 1o86A 589 2.65e+01 d.92.1.5 81177 1j1iA 296 2.68e+01 c.69.1.10 83977 1y9qA 192 2.68e+01 1ccwB 483 2.77e+01 1cb7B c.1.19.2 29646 1auoA 218 2.81e+01 1auoA c.69.1.14 34716 2acvA 463 2.83e+01 1gnxA 479 2.87e+01 c.1.8.4 76241 2bv9A 290 2.95e+01 2av7A 275 2.96e+01 1el4A 195 2.97e+01 1ej3A a.39.1.5 59453 1qqcA 773 2.98e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1wkyA 464 2.99e+01 1h1nA 305 3.02e+01 c.1.8.3 70855 2au3A 407 3.05e+01 1auiA 521 3.08e+01 1auiA d.159.1.3 42085 2bi7A 384 3.08e+01 1pmmA 466 3.08e+01 c.67.1.6 94901 1ad4A 266 3.12e+01 1aj2 c.1.21.1 29670 3proC 166 3.14e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1upvA 257 3.14e+01 1dpe 507 3.19e+01 1dpe c.94.1.1 35799 1uzeA 589 3.19e+01 d.92.1.5 108174 1xm3A 264 3.25e+01 1xyzA 347 3.26e+01 1taxA c.1.8.3 28804 1mtyB 384 3.28e+01 1mtyB a.25.1.2 16740 2b5dX 528 3.30e+01 2ae5B 528 3.34e+01 1b5l 172 3.34e+01 1b5l a.26.1.3 16900 1bywA 110 3.34e+01 1bywA d.110.3.6 40912 1h4pA 408 3.37e+01 c.1.8.3 90617 1a6q 382 3.41e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1bxkA 355 3.42e+01 1bxkA c.2.1.2 29803 5eau 548 3.42e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1li5A 461 3.46e+01 a.27.1.1,c.26.1.1 73912,73913 1eur 365 3.54e+01 1eut b.68.1.1 27607 1qd1A 325 3.62e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1khtA 192 3.70e+01 c.37.1.1 84401 2g50A 530 3.70e+01 1g0cA 364 3.73e+01 7a3hA c.1.8.3 60165 1dkuA 317 3.77e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1vggA 161 3.85e+01 1a49A 530 3.88e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1mvwB 145 4.03e+01 i.15.1.1 79524 1jqeA 292 4.10e+01 c.66.1.19 71789 2c9aA 259 4.12e+01 1m1zA 513 4.14e+01 c.26.2.1,d.153.1.1 78457,78458 1mlwA 301 4.17e+01 d.178.1.1 79289 2bpqA 373 4.18e+01 1aop 497 4.19e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1ta8A 332 4.28e+01 1ufaA 520 4.29e+01 a.8.3.3,c.6.2.4 99329,99330 1yloA 348 4.35e+01 2mnr 357 4.38e+01 2mnr c.1.11.2,d.54.1.1 29245,38889 1rx0A 393 4.39e+01 a.29.3.1,e.6.1.1 98007,98008 1ab4 477 4.40e+01 1ab4 e.11.1.1 43251 1hjsA 332 4.41e+01 c.1.8.3 83492 2aotA 292 4.47e+01 1csh 435 4.48e+01 1csh a.103.1.1 18880 1yb0A 159 4.62e+01 1sl8A 191 4.74e+01 1ypxA 375 4.75e+01 1ijbA 202 4.86e+01 c.62.1.1 71229 1j93A 353 4.89e+01 c.1.22.1 66454 1pbgA 468 4.91e+01 1e70M c.1.8.4 28946 2citA 282 4.98e+01 2bleA 367 4.98e+01 1u32A 293 5.00e+01 d.159.1.3 107631 1eqcA 394 5.06e+01 1cz1A c.1.8.3 28811 2fnaA 357 5.10e+01 4pah 308 5.24e+01 4pah d.178.1.1 42576 2aunA 317 5.26e+01 2f1sA 186 5.32e+01 1i4fA 275 5.33e+01 1agdA b.1.1.2,d.19.1.1 61687,61688 2bbrA 195 5.39e+01 1ks8A 433 5.40e+01 a.102.1.2 77519 1broA 277 5.41e+01 1brt c.69.1.12 34700 1nvmA 345 5.42e+01 a.5.7.1,c.1.10.5 86249,86250 1i6lA 328 5.45e+01 c.26.1.1 66041 1y1nA 291 5.46e+01 1l0bA 229 5.47e+01 c.15.1.3,c.15.1.3 73391,73392 1ycdA 243 5.52e+01 1li5B 461 5.52e+01 a.27.1.1,c.26.1.1 73914,73915 1jf2A 195 5.58e+01 1ej3A a.39.1.5 62930 1wy1A 172 5.64e+01 1d2rA 326 5.66e+01 1d2rB c.26.1.1 31572 1v3rA 116 5.68e+01 1vhmA 195 5.72e+01 d.110.2.1 100691 1vfjA 116 5.74e+01 1mdl 359 5.74e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1j8uA 325 5.81e+01 d.178.1.1 71611 1qv1A 195 5.84e+01 a.39.1.5 96347 1l5xA 280 5.87e+01 c.106.1.1 77718 1di6A 195 5.88e+01 1di6A c.57.1.1 33863 1nni1 174 5.88e+01 1hdhA 536 5.90e+01 c.76.1.2 65805 1a9xA 1058 5.94e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1w4vA 119 5.97e+01 1pot 325 5.98e+01 1pot c.94.1.1 35807 2aumA 317 5.99e+01 2cw5A 255 6.02e+01 1hnnA 282 6.17e+01 c.66.1.15 65895 2fywA 267 6.19e+01 1qw1A 121 6.30e+01 1v3wA 173 6.30e+01 b.81.1.5 100291 1p5dX 463 6.31e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1wraA 308 6.33e+01 1k2yX 463 6.43e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1c8uA 285 6.44e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1fwsA 267 6.44e+01 1d9eA c.1.10.4 60063 1jf3A 147 6.46e+01 a.1.1.2 71642 1t8xA 267 6.47e+01 1rqbA 539 6.54e+01 a.5.7.2,c.1.10.5 105057,105058 1vkcA 158 6.54e+01 1t64A 377 6.56e+01 c.42.1.2 106543 1svvA 359 6.63e+01 c.67.1.1 106054 1miwA 404 6.65e+01 a.173.1.1,d.218.1.4 79162,79163 1zrsA 317 6.72e+01 1d8dA 377 6.72e+01 1ft1A a.118.6.1 19185 1cvrA 435 6.73e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1nv8A 284 6.77e+01 c.66.1.30 86224 1w4xA 542 6.79e+01 c.3.1.5,c.3.1.5 109171,109172 1ej6B 1275 6.79e+01 i.7.1.1 45968 1qbkB 890 6.81e+01 1qbkB a.118.1.1 19127 1pvvA 315 6.82e+01 c.78.1.1,c.78.1.1 95190,95191 1f46A 140 6.91e+01 1f46A d.129.4.1 59643 1mhyB 395 6.92e+01 1mtyB a.25.1.2 16781 1vr5A 547 6.94e+01 1w1oA 534 6.97e+01 d.58.32.4,d.145.1.1 109071,109072 1vd5A 377 7.04e+01 a.102.1.7 108518 1zosA 230 7.12e+01 1egaA 301 7.16e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 1o7jA 327 7.17e+01 c.88.1.1 81140 1v4vA 376 7.18e+01 c.87.1.3 100313 1ojaA 520 7.20e+01 c.3.1.2,d.16.1.5 93096,93097 1tbmA 326 7.22e+01 a.211.1.2 106744 1c3pA 375 7.38e+01 1c3pA c.42.1.2 32606 1brt 277 7.42e+01 1brt c.69.1.12 34699 1j9yA 385 7.56e+01 1j9yA c.1.8.3 62791 1m70A 190 7.56e+01 a.3.1.4,a.3.1.4 91200,91201 1szoA 257 7.57e+01 c.14.1.3 106164 1kcfA 258 7.63e+01 a.140.2.1,c.55.3.7 68434,68435 1w0mA 226 7.65e+01 c.1.1.1 109027 1f0kA 364 7.65e+01 1f0kA c.87.1.2 35465 1ad1A 266 7.68e+01 1aj2 c.1.21.1 29668 1ny1A 240 7.70e+01 c.6.2.3 86395 1ohvA 472 7.71e+01 c.67.1.4 93031 2g8lA 299 7.72e+01 1t6cA 315 7.82e+01 c.55.1.8,c.55.1.8 106558,106559 1dbxA 158 7.83e+01 1dbuA d.116.1.1 40928 1f89A 291 7.96e+01 d.160.1.1 64988 1wr7A 41 8.01e+01 1hynP 379 8.02e+01 1hynP d.112.1.2 61408 1ws6A 171 8.04e+01 1ur4A 399 8.12e+01 1dl2A 511 8.22e+01 1dl2A a.102.2.1 18844 1w24A 182 8.22e+01 1jx6A 342 8.28e+01 c.93.1.1 67406 1ufyA 122 8.31e+01 d.79.1.2 88489 1fxqA 267 8.32e+01 1d9eA c.1.10.4 60108 1sffA 426 8.35e+01 c.67.1.4 105482 1xm7A 195 8.36e+01 1mjfA 281 8.42e+01 c.66.1.17 79198 1fjgE 162 8.44e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 2an3A 289 8.47e+01 1d1nA 99 8.52e+01 1d1nA b.43.3.1 25718 1uvzA 119 8.54e+01 1vi0A 206 8.56e+01 a.4.1.9,a.121.1.1 100720,100721 1epxA 370 8.63e+01 1fbaA c.1.10.1 29150 2b43A 526 8.69e+01 1s7oA 113 8.70e+01 a.4.13.3 105354 1lba 146 8.71e+01 1lba d.118.1.1 41062 1efdN 266 8.80e+01 1efdN c.92.2.1 35597 1pbyB 337 8.86e+01 b.69.2.2 94422 1nq6A 302 8.91e+01 c.1.8.3 92046 2hbg 147 8.92e+01 2hbg a.1.1.2 15014 1l2uA 245 8.98e+01 c.1.2.3 73516 1af7 274 8.98e+01 1af7 a.58.1.1,c.66.1.8 17928,34203