# List of top-scoring protein chains for t2k.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.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 3ezwA 526 2.03e-01 1qdlB 195 2.13e-01 1qdlB c.23.16.1 31437 1glaG 501 2.19e-01 1glcG c.55.1.4 33507 c.55.1.4 33508 1glcG 501 2.19e-01 1glcG c.55.1.4 33519 c.55.1.4 33520 1gljO 501 2.86e-01 1glcG c.55.1.4 33525 c.55.1.4 33526 1bu6O 501 3.94e-01 1glcG c.55.1.4 33499 c.55.1.4 33500 2itmA 484 5.22e-01 3eo3A 333 9.89e-01 1m113 238 1.05e+00 3flcO 518 1.16e+00 2d4wA 504 1.19e+00 3h3nO 506 1.29e+00 3h46O 506 1.30e+00 1r59O 505 1.47e+00 c.55.1.4 111697 c.55.1.4 111698 3d7eO 505 1.47e+00 3g25A 501 1.74e+00 1ig8A 486 1.77e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 3l9vA 189 1.84e+00 2phcB 225 2.10e+00 b.62.1.4 149466 d.74.5.1 149467 1zc6A 305 2.31e+00 c.55.1.5 124888 c.55.1.5 124889 1zbsA 291 2.37e+00 c.55.1.5 124870 c.55.1.5 124871 2orwA 184 2.62e+00 3b8aX 485 2.74e+00 3h6eA 482 3.88e+00 1zxoA 291 4.32e+00 c.55.1.5 125784 c.55.1.5 125785 2ea3A 189 4.49e+00 1y2tA 142 4.71e+00 b.97.1.2 116407 1sfnA 246 4.72e+00 b.82.1.11 105496 1dyqA 234 5.48e+00 3seb b.40.2.2 59140 d.15.6.1 59141 2zf5O 497 5.66e+00 2fwiA 183 5.71e+00 1vbiA 344 5.99e+00 1bg3A 918 6.14e+00 1qhaA c.55.1.3 33491 c.55.1.3 33492 c.55.1.3 33493 c.55.1.3 33494 2z0rA 103 6.42e+00 1ebdA 455 6.51e+00 1lvl c.3.1.5 30577 c.3.1.5 30578 d.87.1.1 40210 2vyoA 254 6.60e+00 2dknA 255 6.62e+00 2abrA 418 6.65e+00 d.126.1.4 126530 2aafA 418 6.71e+00 d.126.1.4 126471 1xupO 487 6.71e+00 c.55.1.4 116062 c.55.1.4 116063 2a9gA 418 6.72e+00 d.126.1.4 126435 1rxxA 421 6.74e+00 d.126.1.4 98061 2aciA 418 7.03e+00 d.126.1.4 126551 2a8xA 464 7.25e+00 3ii4A 466 7.28e+00 3hnnA 262 8.31e+00 2fw7A 183 8.44e+00 2fw8A 183 8.70e+00 2jrrA 67 8.99e+00 1i4gA 233 9.37e+00 3seb b.40.2.2 25148 d.15.6.1 37737 2wpxA 339 9.39e+00 2fwaA 183 9.42e+00 1ez4A 318 9.62e+00 c.2.1.5 64917 d.162.1.1 64918 1esfA 233 1.04e+01 3seb b.40.2.2 25146 d.15.6.1 37735 1lo5D 233 1.04e+01 b.40.2.2 78120 d.15.6.1 78121 3flbA 267 1.05e+01 1qhaA 917 1.08e+01 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1w7lA 422 1.09e+01 c.67.1.1 109226 3fvsA 422 1.09e+01 2fwbA 183 1.10e+01 2q8nA 460 1.11e+01 1yewA 382 1.11e+01 1u11A 182 1.26e+01 c.23.8.1 107576 2fwjA 183 1.28e+01 c.23.8.1 134243 2gtdA 251 1.31e+01 c.55.1.13 135634 c.55.1.13 135635 3kulA 325 1.32e+01 3e5mA 299 1.33e+01 3kulB 325 1.34e+01 3dxfA 299 1.35e+01 2wm3A 299 1.35e+01 2gn0A 342 1.36e+01 2q5bA 105 1.36e+01 b.6.1.1 150045 1bawA 105 1.36e+01 1plc b.6.1.1 22868 2w8cA 106 1.36e+01 2exxA 306 1.39e+01 1hkbA 917 1.39e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 2asuB 234 1.42e+01 2iwoA 120 1.51e+01 3gafA 256 1.56e+01 3g6eE 172 1.57e+01 2obdA 476 1.60e+01 3d1pA 139 1.62e+01 3l76A 600 1.66e+01 3flaA 267 1.73e+01 2hc9A 491 1.75e+01 1jj2E 177 1.77e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1vqoE 178 1.78e+01 d.141.1.1 120366 d.141.1.1 120367 3l0qA 554 1.79e+01 3gg4A 554 1.79e+01 2zgyA 320 1.87e+01 c.55.1.1 154425 c.55.1.1 154426 1mwmA 320 1.87e+01 c.55.1.1 79580 c.55.1.1 79581 1rt8A 513 1.87e+01 a.40.1.1 105095 3bexA 249 1.91e+01 c.55.1.13 155198 c.55.1.13 155199 2o4cA 380 1.98e+01 1olmE 403 2.00e+01 a.5.3.1 104014 b.132.1.1 104015 c.13.1.1 104016 1czaN 917 2.02e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 2a03A 206 2.08e+01 3hhfA 213 2.08e+01 3ix9A 190 2.10e+01 1olmA 403 2.11e+01 a.5.3.1 104008 b.132.1.1 104009 c.13.1.1 104010 1ljoA 77 2.16e+01 b.38.1.1 73941 3bqvA 105 2.16e+01 2gojA 197 2.19e+01 3hhgA 306 2.20e+01 2bpiA 206 2.22e+01 3hm8A 445 2.25e+01 3ll3A 504 2.25e+01 3gbtA 504 2.25e+01 3cvbA 105 2.26e+01 2nnjA 476 2.28e+01 a.104.1.1 148320 1dgkN 917 2.31e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1jaeA 471 2.31e+01 b.71.1.1 27773 c.1.8.1 28760 3mcpA 366 2.34e+01 1jogA 146 2.35e+01 a.24.16.2 77142 3gaaA 252 2.48e+01 1g5bA 221 2.51e+01 1g5bA d.159.1.3 60261 1xxgA 233 2.65e+01 2f6uA 234 2.65e+01 c.1.4.1 133061 1btcA 491 2.68e+01 c.1.8.1 28791 1bybA 495 2.71e+01 c.1.8.1 28790 1viwA 471 2.74e+01 1smd b.71.1.1 27776 c.1.8.1 28763 2v49C 229 2.75e+01 1jkmA 361 2.76e+01 1jkmA c.69.1.2 34633 3kv1A 267 2.77e+01 2zqzA 326 2.84e+01 1jr9A 202 2.85e+01 a.2.11.1 71822 d.44.1.1 71823 3g6eY 142 2.87e+01 3il6A 321 3.04e+01 2p08A 115 3.05e+01 2p04A 121 3.07e+01 2qp9X 355 3.08e+01 2awpA 198 3.12e+01 2g3mA 693 3.14e+01 1nhsA 447 3.18e+01 c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 2h1nA 567 3.26e+01 2e2oA 299 3.29e+01 2iagA 482 3.31e+01 2vq8A 139 3.37e+01 3b6hA 498 3.42e+01 1cdzA 96 3.43e+01 1cdzA c.15.1.1 30925 3il4A 320 3.44e+01 3ef6A 410 3.45e+01 2qm1A 326 3.48e+01 1llcA 325 3.49e+01 c.2.1.5 30176 d.162.1.1 42143 1nkqA 259 3.49e+01 d.177.1.1 103862 1wtuA 99 3.50e+01 1huuA a.55.1.1 17904 3il5A 343 3.53e+01 1q50A 561 3.55e+01 c.80.1.2 104535 2oz0A 511 3.62e+01 c.1.4.1 149083 d.120.1.1 149084 3dm3A 105 3.63e+01 2wsc1 241 3.72e+01 1t10A 605 3.76e+01 c.80.1.2 106235 2jgvA 330 3.77e+01 1nbwA 607 3.78e+01 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 3d8pA 163 3.78e+01 1qgaA 308 3.80e+01 1fnc b.43.4.2 25637 c.25.1.1 31527 1qg0A 308 3.80e+01 1fnc b.43.4.2 25639 c.25.1.1 31529 1qfzA 308 3.80e+01 1fnc b.43.4.2 25633 c.25.1.1 31523 1j9aA 184 3.83e+01 c.55.3.5 84135 2nn6G 289 3.83e+01 b.40.4.5 148307 b.84.4.2 148308 d.51.1.1 148309 2dm6A 333 3.84e+01 b.35.1.2 131567 c.2.1.1 131568 2jbaB 127 3.89e+01 2fw9A 183 3.92e+01 1gawA 314 3.99e+01 1fnc b.43.4.2 25643 c.25.1.1 31533 2derA 380 4.00e+01