# 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 2qgsA 225 3.08e-25 3b57A 209 1.39e-24 2pq7A 220 2.03e-18 2o08A 188 2.71e-07 2ogiA 196 4.10e-06 2hekA 371 1.39e-04 a.211.1.1 136354 3ccgA 190 1.61e-04 2dqbA 376 2.43e-03 1xx7A 184 2.85e-03 a.211.1.1 116143 1z1lA 345 8.03e-03 1ynbA 173 8.99e-03 a.211.1.1 123718 2paqA 201 1.01e-02 a.211.1.1 139643 2parA 201 1.98e-02 2hd1A 326 3.99e-02 a.211.1.2 136338 1yoyA 175 5.73e-02 a.211.1.1 123795 2r8qA 359 9.92e-02 1zklA 353 1.71e-01 1frvB 536 1.91e-01 1h2rL e.18.1.1 43296 1vj7A 393 2.45e-01 a.211.1.1 100801 d.218.1.8 100802 1wuiL 534 2.65e-01 e.18.1.1 121289 1ubkL 534 2.65e-01 e.18.1.1 88422 2es9A 115 2.95e-01 a.247.1.1 132318 2frvB 536 3.03e-01 1h2rL e.18.1.1 43291 1h2rL 534 3.36e-01 1h2rL e.18.1.1 43298 1tbfA 347 7.40e-01 a.211.1.2 106743 1h2aL 567 8.99e-01 1h2rL e.18.1.1 43299 1u6zA 513 1.01e+00 a.211.1.5 119608 c.55.1.8 119609 c.55.1.8 119610 1e3dB 542 1.02e+00 1h2rL e.18.1.1 59189 2ovyA 362 1.17e+00 2a61A 145 1.19e+00 a.4.5.28 126187 1y2kA 349 1.20e+00 a.211.1.2 122571 2h12A 436 1.35e+00 1f0jA 377 1.59e+00 1f0jA a.211.1.2 19346 2q14A 410 1.64e+00 2ousA 331 1.82e+00 2qxfA 482 1.86e+00 1r8sE 203 2.06e+00 a.118.3.1 97248 1ezfA 340 2.25e+00 1ezfA a.128.1.2 19440 1oyjA 231 2.88e+00 a.45.1.1 87597 c.47.1.5 87598 1tbbA 332 2.92e+00 a.211.1.2 106741 1pbv 195 2.95e+00 1pbv 1pbvA 195 2.95e+00 a.118.3.1 19179 1v4eA 299 3.03e+00 a.128.1.1 100296 1rkpA 326 3.06e+00 a.211.1.2 97620 2csbA 519 3.28e+00 a.60.2.4 130751 a.60.2.4 130752 a.60.2.4 130753 a.60.2.4 130754 a.267.1.1 130755 1s3qA 173 3.35e+00 a.25.1.1 118848 1qazA 351 3.62e+00 1qazA a.102.3.1 18848 1vdkA 466 3.69e+00 a.127.1.1 100561 2jnsA 90 3.98e+00 1h8eA 510 4.08e+00 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1j77A 209 4.39e+00 1j77A a.132.1.2 62674 1r8mE 203 4.62e+00 a.118.3.1 97242 3cz6A 168 4.80e+00 1d3uB 201 4.97e+00 1aisB a.74.1.2 18386 a.74.1.2 18387 2pgsA 451 5.47e+00 1w9iA 770 5.92e+00 1ezm 301 6.22e+00 1hyt 3brjA 175 6.25e+00 1u4gA 301 6.27e+00 d.92.1.2 107670 2jdiA 510 6.31e+00 1sedA 117 6.34e+00 a.219.1.1 105449 1uhkA 191 6.59e+00 a.39.1.5 119681 1ej3A 191 6.64e+00 1ej3A a.39.1.5 17259 1u0jA 267 6.71e+00 c.37.1.20 107546 1d0yA 761 6.72e+00 1lvk b.34.3.1 24581 c.37.1.9 32178 3bcgA 215 7.31e+00 1lvk 762 7.38e+00 1lvk 1kcxA 518 7.61e+00 b.92.1.3 90953 c.1.9.6 90954 1dlyA 164 8.15e+00 1dlyA a.1.1.1 14983 1unlD 208 8.27e+00 a.74.1.1 113326 2ibnA 250 8.32e+00 a.211.1.4 137195 1iv8A 720 8.47e+00 b.71.1.1 76842 c.1.8.1 76843 2akaA 776 8.67e+00 1ku2A 241 8.69e+00 a.4.13.1 83096 a.177.1.1 83097 1tazA 365 8.73e+00 a.211.1.2 106734 2f2cA 254 8.81e+00 a.74.1.1 132805 a.74.1.1 132806 3cucA 291 9.07e+00 1k4tA 592 9.08e+00 a.2.8.1 77263 d.163.1.2 77264 e.15.1.1 77265 1gai 472 9.13e+00 1ayx 1gaiA 472 9.13e+00 a.102.1.1 18819 3b6hA 498 9.14e+00 2hsbA 126 9.22e+00 1q0sA 259 9.46e+00 c.66.1.28 95509 1fxxA 482 9.50e+00 1fxxA c.55.3.5 33726 1y10A 407 9.58e+00 2jhnA 295 9.94e+00 1xngA 268 1.01e+01 c.26.2.1 122186 2qsaA 109 1.02e+01 1hy3A 294 1.02e+01 c.37.1.5 71090 2h5xA 196 1.04e+01 1rtrA 301 1.09e+01 a.128.1.1 97820 1phd 414 1.10e+01 1phd 2ojqA 348 1.11e+01 2ct9A 208 1.16e+01 2iagA 482 1.17e+01 1aisB 200 1.23e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 2ev1A 222 1.30e+01 3bkxA 275 1.30e+01 2vglA 621 1.32e+01 2ri9A 475 1.34e+01 1yrcA 414 1.36e+01 a.104.1.1 123917 1euhA 475 1.36e+01 1euhA c.82.1.1 35369 2qe0A 475 1.36e+01 2dplA 308 1.37e+01 1x38A 602 1.40e+01 c.1.8.7 121655 c.23.11.1 121656 1h4lD 147 1.41e+01 a.74.1.1 70873 1dz4A 414 1.44e+01 1phd a.104.1.1 18903 1wa5B 530 1.45e+01 a.118.1.1 114432 1bjt 793 1.45e+01 1bjt 1bjtA 793 1.45e+01 e.11.1.1 43249 2yvuA 186 1.48e+01 2ivxA 257 1.48e+01 2gkmA 136 1.50e+01 1idrA 136 1.50e+01 1dlyA a.1.1.1 62301 1va4A 279 1.50e+01 c.69.1.12 108458 1iapA 211 1.52e+01 a.91.1.1 62119 1bk5A 422 1.52e+01 1bk5A a.118.1.1 19130 2d68A 82 1.53e+01 1r9oA 477 1.58e+01 a.104.1.1 104878 1yf3A 259 1.59e+01 c.66.1.28 123046 1khyA 148 1.60e+01 a.174.1.1 77410 2fzsA 193 1.60e+01 c.14.1.1 134462 1clc 639 1.60e+01 1clc 1clcA 639 1.60e+01 a.102.1.2 18835 b.1.18.2 21872 1tyfA 193 1.60e+01 1tyfA c.14.1.1 30885 2qk1A 249 1.61e+01 2px0A 296 1.61e+01 1ee4A 423 1.62e+01 1ee4A a.118.1.1 19128 1rfmA 344 1.64e+01 c.122.1.1 97385 1bu2A 229 1.69e+01 1bu2A a.74.1.1 18360 a.74.1.1 18361 2eb0A 307 1.70e+01 2q1zA 184 1.75e+01 1allB 161 1.77e+01 1qgwC a.1.1.3 15648 3bpzA 202 1.83e+01 2h56A 233 1.84e+01 1g3mA 294 1.85e+01 c.37.1.5 83268 1kq3A 376 1.87e+01 e.22.1.2 68790 2rgxA 206 1.90e+01 1kktA 511 1.91e+01 a.102.2.1 68687 2z6iA 332 1.92e+01 1qmqA 414 1.99e+01 1phd a.104.1.1 18907 2gz4A 207 2.00e+01 2bpqA 373 2.01e+01 1gw5A 621 2.02e+01 a.118.1.10 70629 1rw6A 210 2.05e+01 a.47.4.1 105113 1vpdA 299 2.07e+01 a.100.1.1 113951 c.2.1.6 113952 1ex1A 605 2.10e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 2c9eA 327 2.12e+01 1qsaA 618 2.13e+01 1qsaA a.118.5.1 19182 d.2.1.6 36988 1ixsA 62 2.15e+01 a.5.1.1 76932 1dc1A 323 2.18e+01 1dc1A c.52.1.11 33321 1qdbA 473 2.18e+01 1qdbA a.138.1.3 19688 1qbqA 333 2.18e+01 1ft1A a.118.6.1 19187 1xszA 356 2.25e+01 a.118.3.1 116005 d.129.9.1 116006 1w27A 714 2.33e+01 a.127.1.2 114096 1yhlA 362 2.34e+01 3c86A 328 2.34e+01 2d2jA 329 2.35e+01 c.1.9.3 131175 1w33A 181 2.38e+01 1kfrA 147 2.42e+01 a.1.1.2 72424 1ow4A 129 2.46e+01 a.39.2.1 93628 1b33B 161 2.48e+01 1qgwC a.1.1.3 15650 1n97A 389 2.51e+01 a.104.1.1 80335 1ak0 270 2.56e+01 1ak0 1ak0A 270 2.56e+01 a.124.1.2 19345 2d1lA 253 2.59e+01 2hhvA 580 2.59e+01 c.55.3.5 136514 e.8.1.1 136515 1gvnB 287 2.61e+01 c.37.1.21 76354 1u4bA 580 2.63e+01 c.55.3.5 107664 e.8.1.1 107665 1q3eA 207 2.63e+01 b.82.3.2 95669 1ykhB 132 2.65e+01 a.252.1.1 123519 1j3eA 115 2.66e+01 d.228.1.1 103834 2p3yA 491 2.67e+01 1nk4A 580 2.67e+01 c.55.3.5 91923 e.8.1.1 91924 1jcrA 377 2.71e+01 a.118.6.1 66506 1xwl 580 2.72e+01 1xwl 2g80A 253 2.81e+01 c.108.1.22 134741 1ft1A 377 2.82e+01 1ft1A a.118.6.1 19186 1q7gA 359 2.83e+01 c.2.1.3 96038 d.81.1.2 96039 1w7jA 795 2.84e+01 b.34.3.1 120688 c.37.1.9 120689 1chuA 540 2.85e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1y8aA 332 2.86e+01 1ciy 590 2.88e+01 1ciy 1ciyA 590 2.88e+01 b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1me8A 503 2.90e+01 c.1.5.1 79028 1tn6A 382 2.94e+01 a.118.6.1 112527 1bk6A 422 2.96e+01 1bk5A a.118.1.1 19133 1wzdA 215 2.97e+01 a.132.1.1 121493 3buxB 329 2.98e+01 1wy0A 342 2.99e+01 2optA 234 3.00e+01 1muhA 481 3.01e+01 c.55.3.4 79485 1rcwA 231 3.01e+01 a.132.1.4 97299 1ak5 503 3.02e+01 1ak5 1x0lA 333 3.06e+01 1gnd 447 3.07e+01 1gnd 1d8dA 377 3.11e+01 1ft1A a.118.6.1 19185 1bl8A 97 3.11e+01 1bl8A f.14.1.1 43652 1fhjB 146 3.12e+01 1abwA a.1.1.2 59838 1rp4A 389 3.13e+01 a.227.1.1 105027 1ppjB 439 3.14e+01 d.185.1.1 104254 d.185.1.1 104255 1iw0A 215 3.19e+01 a.132.1.1 83720 2qk2A 242 3.21e+01 1ea3A 164 3.25e+01 1aa7A a.95.1.1 59398 2g5cA 281 3.27e+01 a.100.1.12 134646 c.2.1.6 134647 1musA 477 3.29e+01 c.55.3.4 79494 1rqbA 539 3.32e+01 a.5.7.2 105057 c.1.10.5 105058 1lrrA 131 3.36e+01 d.228.1.1 78165 1jq0A 84 3.37e+01 h.3.2.1 71786 2h6fA 382 3.39e+01 a.118.6.1 136185 1pv0A 46 3.40e+01 a.2.12.1 95141 3d3iA 761 3.41e+01 1aj2 282 3.43e+01 1aj2 1aj2A 282 3.43e+01 c.1.21.1 29665 1xg7A 250 3.43e+01 a.96.1.6 115281 1wolA 122 3.46e+01 1jf0A 195 3.47e+01 1ej3A a.39.1.5 62926 1z7lA 276 3.49e+01 1g71A 347 3.54e+01 1g71A d.264.1.1 43268 2ds3A 761 3.54e+01 1w5tA 412 3.57e+01 a.4.5.11 114255 c.37.1.20 114256 2b3yA 888 3.60e+01 c.8.2.1 127803 c.83.1.1 127804 3cymA 440 3.60e+01 1pyfA 312 3.62e+01 c.1.7.1 95334 2eqxA 105 3.64e+01 3b8xA 390 3.75e+01 1h97A 147 3.75e+01 1h97A a.1.1.2 60812 2bs2C 256 3.78e+01 f.21.2.1 129035 1mpgA 282 3.83e+01 1mpgA a.96.1.3 18747 d.129.1.2 41296 1dt6A 473 3.85e+01 1dt6A a.104.1.1 18977 1rcsA 105 3.90e+01 1jhgA a.4.12.1 19025 2ebyA 113 3.90e+01 1xm9A 457 3.92e+01 a.118.1.24 122142 2fd5A 180 3.95e+01 a.4.1.9 133291 a.121.1.1 133292 2uwjG 115 3.95e+01 2uxuA 210 3.96e+01 1vhnA 318 3.98e+01 c.1.4.1 100693