# List of top-scoring protein chains for t2k.100-30-stride-ebghtl 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.soe.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 2w01A 208 2.03e-34 1wc1A 226 1.60e-30 d.58.29.1 114492 1wc3A 219 2.28e-30 d.58.29.1 114495 2wz1A 219 1.84e-27 1culA 217 3.58e-26 1azsA d.58.29.1 39417 1ybtA 184 5.01e-26 1azsA 220 1.29e-25 1azsA d.58.29.1 39416 1fx2A 235 2.67e-25 1fx2A d.58.29.1 39430 1fx4A 231 6.26e-25 1fx2A d.58.29.1 39431 1y10A 407 4.87e-22 1azsB 212 6.99e-22 1azsA d.58.29.1 39423 1ab8A 220 4.87e-19 1azsA d.58.29.1 39414 2qv6A 268 4.97e-04 3iclA 171 5.79e-03 3lmbA 165 1.59e-02 3i5aA 334 2.27e-02 3ezuA 342 1.18e-01 1dgjA 907 1.27e-01 1alo a.56.1.1 17909 d.15.4.2 37694 d.41.1.1 38585 d.133.1.1 41415 2hf9A 226 1.54e-01 2fmyA 220 1.79e-01 3i5bA 179 2.44e-01 3breA 358 2.83e-01 1w25A 459 5.16e-01 c.23.1.1 114090 c.23.1.1 114091 d.58.29.2 114092 2a8mA 420 5.29e-01 3i5cA 206 6.88e-01 2v0hA 456 9.11e-01 3gmgA 170 9.90e-01 2a8lA 420 1.54e+00 2a8jA 420 1.57e+00 1q5qA 259 2.18e+00 d.153.1.4 95904 3m7vA 413 2.34e+00 2i09A 403 2.48e+00 c.76.1.5 136946 d.327.1.1 136947 3hvaA 177 2.51e+00 1taq 832 2.73e+00 1taq 2q8pA 260 2.75e+00 3khrA 341 2.80e+00 3kxwA 590 3.05e+00 3gqcA 504 3.12e+00 1ta9A 450 3.26e+00 1tgoA 773 3.31e+00 1tgoA c.55.3.5 33721 e.8.1.1 43010 2pp6A 102 3.32e+00 b.106.1.2 149728 2pqmA 343 3.56e+00 2jjeA 449 3.57e+00 2cjgA 449 3.57e+00 1o4sA 389 3.83e+00 c.67.1.1 86620 2ntkA 222 3.85e+00 d.153.2.1 138583 2diuA 96 3.90e+00 3kruA 343 4.56e+00 2aydA 76 4.77e+00 1ebmA 317 4.88e+00 1ebmA a.96.1.3 18751 d.129.1.2 41300 1im4A 221 4.94e+00 e.8.1.7 62581 1hjxA 362 4.99e+00 c.1.8.5 83512 d.26.3.1 83513 2ftpA 302 5.12e+00 2fyxA 143 5.14e+00 d.58.57.1 134411 1n91A 108 5.23e+00 d.206.1.1 80326 1kuuA 202 5.49e+00 d.153.2.1 73019 1atzA 189 5.52e+00 1atzA c.62.1.1 34132 3h4tA 404 5.55e+00 2hzgA 401 5.58e+00 2wm1A 336 5.62e+00 1uqwA 509 5.73e+00 c.94.1.1 99799 2vwkA 773 5.81e+00 c.55.3.5 153677 e.8.1.1 153678 2jjhA 449 5.84e+00 2jjfA 449 5.93e+00 2gaiA 633 6.14e+00 1yvuA 706 6.76e+00 b.34.14.1 124120 c.55.3.10 124121 1jmtA 104 6.94e+00 d.58.7.3 63180 3hdoA 360 7.00e+00 1tz9A 367 7.08e+00 c.1.15.6 107466 1n3lA 372 7.12e+00 c.26.1.1 79966 3dffA 273 7.13e+00 2jejA 358 7.17e+00 d.240.1.1 138284 e.8.1.7 138285 1jx4A 352 7.21e+00 d.240.1.1 90378 e.8.1.7 90379 1duvG 333 7.39e+00 1othA c.78.1.1 35228 c.78.1.1 35229 1nqkA 381 7.46e+00 c.1.16.4 92050 1rhyA 202 8.00e+00 d.14.1.9 97491 d.14.1.9 97492 1t2dA 322 8.32e+00 c.2.1.5 99084 d.162.1.1 99085 1ao3A 187 8.34e+00 1atzA c.62.1.1 34134 2ps1A 226 8.54e+00 1m41A 380 8.61e+00 c.1.16.4 78595 1r8gA 372 8.73e+00 d.128.1.3 104845 1goiA 499 9.19e+00 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 3douA 191 9.22e+00 2g0bA 198 9.39e+00 3h5aA 358 9.49e+00 1yzyA 413 9.68e+00 c.146.1.1 124292 3e5xA 250 9.83e+00 1lwyA 324 9.86e+00 a.96.1.3 78285 d.129.1.2 78286 2zbiA 292 9.88e+00 1mioB 458 1.05e+01 1qguB c.92.2.3 35602 3i4jA 430 1.06e+01 3h5nA 353 1.07e+01 3d36A 244 1.07e+01 1lgyA 269 1.10e+01 3tgl c.69.1.17 34758 2qdfA 335 1.11e+01 2j5gA 263 1.11e+01 1e15A 499 1.16e+01 1e15A b.72.2.1 27810 c.1.8.5 29006 d.26.3.1 38440 2igbA 179 1.17e+01 c.61.1.1 147655 3fy1A 395 1.20e+01 1mu5A 471 1.22e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 2c3fA 358 1.24e+01 b.108.1.5 146370 3lxxA 239 1.24e+01 3hkmA 246 1.30e+01 1iooA 196 1.31e+01 d.124.1.1 71250 3drnA 161 1.36e+01 1vkwA 218 1.37e+01 d.90.1.2 108695 1ve2A 235 1.37e+01 c.90.1.1 120008 2w3wA 167 1.41e+01 2b81A 323 1.43e+01 2hkjA 469 1.45e+01 a.156.1.3 136553 d.14.1.3 136554 d.122.1.2 136555 2z67A 456 1.47e+01 c.67.1.9 154170 2bj7A 138 1.49e+01 a.43.1.3 128608 d.58.18.4 128609 2rilA 99 1.49e+01 3k28A 429 1.49e+01 1zuoA 186 1.50e+01 d.20.1.1 125680 1ps9A 671 1.50e+01 c.1.4.1 95076 c.3.1.1 95077 c.4.1.1 95078 2fwmX 250 1.51e+01 3gedA 247 1.52e+01 2nvpA 435 1.52e+01 a.102.1.8 148478 1m3qA 317 1.52e+01 a.96.1.3 91184 d.129.1.2 91185 3d55A 91 1.53e+01 1a2zA 220 1.53e+01 1a2zA c.56.4.1 33794 1n7kA 234 1.61e+01 c.1.10.1 85374 1hf2A 210 1.62e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 2ifaA 208 1.62e+01 d.90.1.1 137329 2pjhB 193 1.64e+01 b.52.2.3 149563 d.31.1.1 149564 2e3zA 465 1.64e+01 2qh9A 184 1.65e+01 1df7A 159 1.68e+01 3dfr c.71.1.1 34885 3ebuA 313 1.75e+01 2wlvA 144 1.82e+01 1e6pA 499 1.82e+01 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1mx0A 472 1.83e+01 a.156.1.3 79618 d.14.1.3 79619 d.122.1.2 79620 3htnA 149 1.83e+01 3hgjA 349 1.83e+01 3eawX 313 1.84e+01 1wj2A 78 1.86e+01 g.79.1.1 114689 1pwjA 89 1.91e+01 d.39.1.1 95228 1ko9A 345 1.94e+01 a.96.1.3 68717 d.129.1.2 68718 1bdb 277 1.96e+01 1bdb 1bdbA 277 1.96e+01 c.2.1.2 29874 2isbA 192 2.03e+01 c.8.9.1 137601 1hkkA 364 2.05e+01 c.1.8.5 90634 d.26.3.1 90635 1bf6A 291 2.05e+01 1pscA c.1.9.3 29065 1vqtA 213 2.06e+01 c.1.2.3 120417 1ursA 402 2.14e+01 c.94.1.1 99833 1gg1A 350 2.14e+01 1qr7A c.1.10.4 29187 1v6tA 255 2.16e+01 c.6.2.5 113550 1j5uA 136 2.19e+01 d.208.1.1 71584 1ypvA 313 2.22e+01 1ldg 316 2.26e+01 1ceqA 1j93A 353 2.27e+01 c.1.22.1 66454 1an0A 190 2.28e+01 1ctqA c.37.1.8 32066 3bdkA 386 2.29e+01 1snyA 267 2.47e+01 c.2.1.2 105833 2go8A 122 2.48e+01 d.58.4.5 147144 2es7A 142 2.50e+01 c.47.1.20 132314 1edoA 244 2.51e+01 1ybvA c.2.1.2 29896 2z61A 370 2.52e+01 3cg0A 140 2.53e+01 1lj1A 571 2.53e+01 a.138.1.3 78023 c.3.1.4 78024 d.168.1.1 78025 1ejjA 511 2.55e+01 1ejjA c.105.1.1 59422 c.76.1.3 59423 1dfoA 417 2.55e+01 1bj4A c.67.1.4 34480 1mwqA 101 2.56e+01 d.58.4.7 91481 1qjdA 571 2.57e+01 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 1atiA 505 2.57e+01 1atiA c.51.1.1 33196 d.104.1.1 40745 3emxA 135 2.59e+01 1pmi 440 2.62e+01 1pmi 1pmiA 440 2.62e+01 b.82.1.3 28114 3ehiX 313 2.70e+01 1zghA 260 2.71e+01 b.46.1.1 125028 c.65.1.1 125029 1lg2A 365 2.75e+01 c.1.8.5 77950 d.26.3.1 77951 1ltlA 279 2.80e+01 b.40.4.11 84701 2dplA 308 2.80e+01 2odkA 89 2.82e+01 d.306.1.1 139030 5nllA 138 2.83e+01 c.23.5.1 31198 2p5yA 311 2.83e+01 3hywA 430 2.85e+01 1pea 385 2.87e+01 1pea 1peaA 385 2.87e+01 c.93.1.1 35662 1qd1A 325 2.88e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1wb0A 445 2.91e+01 c.1.8.5 120825 d.26.3.1 120826 1efuA 385 2.92e+01 1efcA b.43.3.1 25682 b.44.1.1 25722 c.37.1.8 32115 2pgcA 207 2.93e+01 d.58.4.23 149457 2fncA 381 2.94e+01 1u08A 386 2.96e+01 c.67.1.1 107543 2vqxA 341 2.96e+01 3g6mA 406 2.98e+01 1q9iA 571 3.01e+01 a.138.1.3 96273 c.3.1.4 96274 d.168.1.1 96275 2apjA 260 3.04e+01 c.23.10.7 127128 3kqfA 265 3.04e+01 1p2hA 571 3.04e+01 a.138.1.3 93930 c.3.1.4 93931 d.168.1.1 93932 2vpnA 316 3.04e+01 1m64A 571 3.06e+01 a.138.1.3 78683 c.3.1.4 78684 d.168.1.1 78685 1nv8A 284 3.06e+01 c.66.1.30 86224 1zj8A 566 3.08e+01 d.58.36.1 146003 d.58.36.1 146004 d.134.1.1 146005 d.134.1.1 146006 1uehA 253 3.08e+01 c.101.1.1 99259 2q02A 272 3.08e+01 c.1.15.4 149978 1x12A 208 3.10e+01 1gm5A 780 3.12e+01 a.24.21.1 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 2vfkA 205 3.13e+01 1vgjA 184 3.14e+01 1iqqA 200 3.15e+01 d.124.1.1 66274 2hhjA 267 3.15e+01 c.60.1.1 136497 3tglA 269 3.17e+01 c.69.1.17 34733 2r9iA 141 3.28e+01 1n8fA 350 3.31e+01 c.1.10.4 85397 2wmkA 606 3.32e+01 1spxA 278 3.32e+01 c.2.1.2 98958 1b76A 442 3.34e+01 1atiA c.51.1.1 33198 d.104.1.1 40747 1o98A 511 3.37e+01 c.105.1.1 86684 c.76.1.3 86685 3eleA 398 3.37e+01 1kssA 571 3.40e+01 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1bwvS 138 3.43e+01 1rboC d.73.1.1 39662 2pqcA 445 3.48e+01 2gg6A 455 3.49e+01 1phkA 298 3.58e+01 d.144.1.7 41635 2dkjA 407 3.65e+01 1jksA 294 3.66e+01 d.144.1.7 71710 2pi6A 361 3.69e+01 c.1.8.5 149501 d.26.3.1 149502 1f75A 249 3.71e+01 1f75A c.101.1.1 59662 2wmiB 606 3.72e+01 3h8hA 112 3.74e+01 3gbhA 213 3.76e+01 3d5pA 144 3.83e+01 2pgnA 589 3.89e+01 3e6cC 250 3.91e+01 a.4.5.4 158038 b.82.3.2 158039 3ddvA 145 3.92e+01 d.190.1.2 157563 1owfA 99 3.93e+01 a.55.1.1 87487 2wp8B 246 3.96e+01 1wmhA 89 3.97e+01 d.15.2.2 114744 2cjwA 192 3.98e+01