# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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.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 2q1zB 195 3.84e-11 2qdrA 303 2.10e-08 1j58A 385 2.75e-08 b.82.1.2 71531 2f4pA 147 4.29e-08 b.82.1.9 132933 3cjxA 165 6.12e-08 1vj2A 126 1.21e-07 b.82.1.10 100796 1tq5A 242 2.10e-07 b.82.1.12 119311 3ebrA 159 2.98e-07 3ht1A 145 1.08e-06 1o4tA 133 1.21e-06 b.82.1.9 86622 2pfwA 116 1.28e-06 2o1qA 145 1.59e-06 b.82.1.21 148547 1lr5A 163 2.91e-06 b.82.1.2 74215 2d40A 354 6.13e-06 b.82.1.23 146454 1y3tA 337 6.37e-06 b.82.1.5 122600 2h0vA 338 6.43e-06 2vqaA 361 6.50e-06 3h8uA 125 2.45e-05 3h7jA 243 2.92e-05 2et1A 201 4.15e-05 b.82.1.2 132351 3cewA 125 4.25e-05 1sfnA 246 4.29e-05 b.82.1.11 105496 1fi2A 201 6.26e-05 1fi2A b.82.1.2 59845 3l2hA 162 7.72e-05 2q30A 110 1.20e-04 3i7dA 163 1.33e-04 2phdA 368 1.38e-04 b.82.1.23 149468 1v70A 105 5.00e-04 b.82.1.9 113555 2p17A 277 5.06e-04 1yfuA 174 5.06e-04 b.82.1.20 123094 3lwcA 119 6.59e-04 3d82A 102 7.58e-04 3fjsA 114 1.11e-03 2gm6A 208 1.50e-03 b.82.1.19 147130 3ibmA 167 1.58e-03 2o8qA 134 2.16e-03 1rc6A 261 2.50e-03 b.82.1.11 97287 1sefA 274 2.75e-03 b.82.1.11 105452 2fqpA 97 2.94e-03 1vr3A 191 3.73e-03 b.82.1.6 120431 1j1lA 290 5.31e-03 b.82.1.12 90766 1yhfA 115 5.34e-03 b.82.1.9 123176 3lagA 98 6.27e-03 3es1A 172 7.18e-03 3es4A 116 8.58e-03 3kgzA 156 8.68e-03 2oziA 98 9.49e-03 3eqeA 171 1.17e-02 2i45A 107 1.23e-02 2bnmA 198 1.36e-02 a.35.1.3,b.82.1.10 128835,128836 2pytA 133 1.40e-02 b.82.1.24 149957 2ozjA 114 1.72e-02 1zvfA 176 1.78e-02 b.82.1.20 146029 1xjaA 178 2.37e-02 b.82.4.1 115382 2zklA 369 2.85e-02 2vecA 256 3.17e-02 2aacA 177 3.36e-02 2arcA b.82.4.1 28150 2arcA 164 4.05e-02 2arcA b.82.4.1 28148 2b8mA 117 5.80e-02 b.82.1.18 128092 2e9qA 459 6.34e-02 2opkA 112 8.66e-02 1qwrA 319 8.95e-02 b.82.1.3 96491 1x82A 190 1.05e-01 b.82.1.7 114955 3dl3A 119 1.27e-01 b.82.2.13 157762 1qxrA 189 1.34e-01 b.82.1.7 96552 2gc1A 188 1.41e-01 b.82.1.7 134928 1juhA 350 2.34e-01 b.82.1.5 71884 1o5uA 101 2.35e-01 b.82.1.8 92518 1vrbA 342 2.56e-01 b.82.2.11 120450 2cavA 445 3.37e-01 1dgwA b.82.1.2,b.82.1.2 28094,28095 2qnkA 286 3.41e-01 2d5fA 493 3.54e-01 3jv1A 182 3.81e-01 1od5A 492 3.87e-01 b.82.1.2,b.82.1.2 86832,86833 1y9qA 192 4.06e-01 a.35.1.8,b.82.1.15 116592,116593 3eo6A 106 4.48e-01 3hqxA 111 4.75e-01 2yu1A 451 9.10e-01 2oa2A 148 9.34e-01 3f6zB 101 9.40e-01 3b2mA 295 1.08e+00 3gldA 295 1.10e+00 2gu9A 113 1.18e+00 2j3xA 431 1.26e+00 3gleA 295 1.40e+00 1nr0A 611 1.95e+00 b.69.4.1,b.69.4.1 86078,86079 1vp6A 138 2.02e+00 b.82.3.2 113939 3frxA 319 2.34e+00 2c0zA 216 2.36e+00 b.82.1.1 129615 1ep0A 185 2.37e+00 1dzrA b.82.1.1 28080 1pmi 440 2.39e+00 1pmi 1pmiA 440 2.39e+00 b.82.1.3 28114 1zrrA 179 2.46e+00 b.82.1.6 125555 1e5rA 290 2.66e+00 1e5rA b.82.2.4 59276 2e26A 725 3.00e+00 2aujD 309 3.10e+00 1yqfA 203 3.12e+00 d.25.1.1 123880 2ea7A 434 3.36e+00 1wkbA 810 3.46e+00 3ie4A 107 3.77e+00 3cbtA 237 4.13e+00 3exmA 237 4.13e+00 3bcwA 123 4.29e+00 3iteA 562 4.53e+00 1fxzA 476 4.93e+00 b.82.1.2,b.82.1.2 65059,65060 1oi6A 205 5.31e+00 b.82.1.1 103940 3c3vA 510 5.36e+00 2ux0A 143 6.31e+00 d.17.4.7 152231 2ixkA 184 6.51e+00 3pchA 200 6.93e+00 3pchA b.3.6.1 22653 3pcgA 200 7.21e+00 3pchA b.3.6.1 22647 2eceA 462 7.46e+00 2qtwB 546 7.52e+00 3d0jA 140 7.53e+00 3e5zA 296 7.85e+00 3eh0A 341 8.48e+00 2b9uA 176 8.81e+00 1ne6A 283 8.96e+00 b.82.3.2,b.82.3.2 91831,91832 1qs2A 401 9.13e+00 1qs1A d.166.1.1,d.166.1.1 42268,42269 3ea9A 306 9.46e+00 3kl9A 355 9.57e+00 2gy5A 423 9.73e+00 1n26A 325 9.81e+00 b.1.1.4,b.1.2.1,b.1.2.1 79850,79851,79852 1dmhA 311 9.82e+00 1dmhA b.3.6.1 22633 1r6vA 671 9.86e+00 c.41.1.1 111710 1qs1A 462 1.05e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 2vpvA 166 1.09e+01 3a7qA 725 1.09e+01 3mmlA 318 1.09e+01 1v8qA 85 1.11e+01 b.84.4.1 108428 1dgwA 178 1.23e+01 1dgwA b.82.1.2 28090 2a1xA 308 1.23e+01 b.82.2.9 126022 1cauA 181 1.24e+01 1dgwA b.82.1.2 28102 1vj0A 380 1.25e+01 b.35.1.2,c.2.1.1 100786,100787 2cg7A 90 1.27e+01 g.27.1.1,g.27.1.1 130423,130424 1mt6A 280 1.27e+01 b.76.2.1,b.85.7.1 79446,79447 1stmA 157 1.29e+01 1stmA b.121.7.1 23281 1xruA 282 1.38e+01 b.82.1.13 122262 1ajkA 214 1.45e+01 1axkA b.29.1.2 24176 1ci3M 249 1.47e+01 1hcz b.2.6.1,b.84.2.2 22480,28266 2z0tA 109 1.55e+01 3fz3A 531 1.60e+01 1ri6A 343 1.63e+01 b.69.11.1 97503 2p4eA 692 1.65e+01 1wapA 75 1.66e+01 1wapA b.82.5.1 28153 2h2zA 306 1.69e+01 1hfuA 503 1.82e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 3greA 437 1.88e+01 1rl3A 288 1.92e+01 b.82.3.2,b.82.3.2 104975,104976 2prdA 174 1.96e+01 b.40.5.1 25435 2c12A 439 2.01e+01 a.29.3.1,e.6.1.1 129616,129617 3e91A 306 2.01e+01 3mbeD 259 2.02e+01 1hocA 272 2.02e+01 1agdA b.1.1.2,d.19.1.1 20815,38297 3hpeA 164 2.07e+01 1cnuA 137 2.09e+01 1cof d.109.1.2 40862 1p3wA 404 2.13e+01 c.67.1.3 87752 3ffjA 666 2.23e+01 3gyrA 612 2.23e+01 2qv8A 159 2.27e+01 3lvmA 423 2.35e+01 1yllA 200 2.38e+01 b.82.1.17 123653 2v72A 143 2.41e+01 1yjmA 110 2.46e+01 b.26.1.2 123427 1xsrA 168 2.50e+01 b.82.1.14 116001 1a65A 504 2.51e+01 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 3bzhA 194 2.53e+01 2awfA 172 2.55e+01 d.20.1.1 127432 3bodA 178 2.58e+01 3eadA 137 2.59e+01 1gytA 503 2.61e+01 c.50.1.1,c.56.5.3 70765,70766 1q2wA 308 2.64e+01 b.47.1.4 88355 1iz6A 138 2.70e+01 b.34.5.2,b.40.4.5 76976,76977 3k3oA 371 2.72e+01 3ea8A 306 2.77e+01 1c4rA 182 2.78e+01 1c4rA b.29.1.4 24229 1hlcA 129 2.79e+01 1c1lA b.29.1.3 24208 2brfA 110 2.80e+01 b.26.1.2 128996 2bdrA 175 2.87e+01 b.82.1.14 128342 2amdA 311 2.88e+01 1j1tA 233 2.92e+01 b.29.1.18 90771 2wwuA 371 2.92e+01 2g6yA 217 2.93e+01 1d2eA 397 2.94e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1i69A 219 2.95e+01 c.94.1.1 61825 1sixA 174 2.96e+01 b.85.4.1 98892 2qp2A 511 2.98e+01 1axkA 394 2.99e+01 1axkA b.29.1.2,b.29.1.11 24181,24315 2cwrA 103 3.02e+01 2r76A 152 3.03e+01 2do3A 69 3.07e+01 b.34.5.5 131596 1ifc 132 3.10e+01 1ifcA 132 3.10e+01 b.60.1.2 27173 2x7lA 231 3.12e+01 3djaA 579 3.12e+01 3lhnA 126 3.14e+01 2khaA 130 3.14e+01 1reqB 637 3.18e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 2x8uA 412 3.20e+01 3emiA 116 3.22e+01 2as9A 210 3.26e+01 3m46A 666 3.34e+01 2i24N 121 3.38e+01 1icmA 131 3.45e+01 b.60.1.2 27174 1extA 162 3.49e+01 1extA g.24.1.1,g.24.1.1,g.24.1.1 44900,44901,44902 1ujxA 119 3.57e+01 b.26.1.2 99473 2pn0A 141 3.60e+01 2kctA 94 3.60e+01 1y6lA 149 3.61e+01 d.20.1.1 116509 2hesX 330 3.62e+01 2xbnA 427 3.65e+01 1x8mA 288 3.65e+01 b.82.1.13 109516 2jg2A 422 3.66e+01 1lci 550 3.72e+01 1lci 2pqmA 343 3.73e+01 2w8tA 427 3.74e+01 1ub1A 133 3.76e+01 d.10.1.3 99140 2mspA 126 3.79e+01 1mspA b.1.11.2 22335 3iylW 1299 3.85e+01 1tdtA 259 3.86e+01 3tdt b.81.1.2 28055 1jmxB 349 3.87e+01 b.69.2.2 66906 1n27A 96 3.87e+01 b.34.9.2 91549 2nqrA 411 3.90e+01 b.85.6.1,b.103.1.1,c.57.1.2 138490,138491,138492 1w4sA 174 3.92e+01 1wd3A 482 3.94e+01 b.29.1.21,b.42.8.1 109233,109234 2dgyA 111 3.95e+01 3khpA 311 3.97e+01 1c5eA 95 4.01e+01 1c5eA b.85.2.1 28317 1aipA 405 4.02e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 3gbnA 331 4.06e+01 1fnhA 271 4.07e+01 1fnhA b.1.2.1,b.1.2.1,b.1.2.1 21976,21977,21978 2ggoA 401 4.11e+01 2jenA 261 4.11e+01 1u2cA 246 4.22e+01 b.1.6.2,d.272.1.1 107610,107611 2cohA 202 4.25e+01 a.4.5.4,b.82.3.2 130677,130678 2zcwA 202 4.25e+01 1rvxA 327 4.26e+01 b.19.1.2 97937 2b9wA 424 4.26e+01 2extA 77 4.32e+01 b.82.5.1 132563 3etjA 355 4.37e+01 b.84.2.1,c.30.1.1,d.142.1.2 158204,158205,158206 1jnyA 435 4.48e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 3e9tA 114 4.50e+01 2vmhA 151 4.52e+01 b.18.1.33 153327 1upsA 420 4.53e+01 b.29.1.2,b.42.2.3 113394,113395 1gtfA 74 4.56e+01 b.82.5.1 70460 1i6aA 219 4.58e+01 c.94.1.1 61827 3ep0A 170 4.68e+01 3mhwU 247 4.71e+01 3b3qE 197 4.74e+01 b.29.1.4 154813 3km3A 206 4.80e+01 3gosA 276 4.80e+01 3fzeA 196 4.83e+01 2in5A 207 4.87e+01 b.177.1.1 147736 3g7gA 158 4.89e+01 2elfA 370 4.91e+01 3ia8A 163 4.93e+01 3esgA 193 5.00e+01 1abrA 251 5.12e+01 1mrj d.165.1.1 42196 2e4qA 109 5.12e+01 2r0hA 164 5.16e+01 2ayvA 166 5.19e+01 d.20.1.1 127572 1gj7B 253 5.26e+01 2j73A 103 5.34e+01 b.3.1.3 147899 3ef4A 124 5.34e+01 3tdt 274 5.38e+01 3tdt 3tdtA 274 5.38e+01 b.81.1.2 28053 1gpr 162 5.38e+01 1gpr 1gprA 162 5.38e+01 b.84.3.1 28267 3c5jA 181 5.40e+01 1bec 238 5.46e+01 1bec 1becA 238 5.46e+01 b.1.1.1,b.1.1.2 20627,21561 1f60A 458 5.57e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1wu2A 396 5.58e+01 b.85.6.1,b.103.1.1,c.57.1.2 114884,114885,114886 1ssfA 156 5.63e+01 b.34.9.1,b.34.9.1 105982,105983 2nmmA 135 5.64e+01 d.322.1.1 138372 1z2uA 150 5.65e+01 d.20.1.1 124389 3e0cA 1140 5.66e+01 1g8lA 411 5.74e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 3h9xA 125 5.85e+01 1fnf 368 5.86e+01 1fnf 2hkdA 320 5.87e+01 1k28A 584 5.88e+01 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 1qr4A 186 5.89e+01 1qr4B b.1.2.1,b.1.2.1 21986,21987 2dscA 212 6.00e+01 3ei3A 1158 6.04e+01 1rgs 288 6.10e+01 1rgs 2nncA 124 6.12e+01 3l6fA 182 6.13e+01 1u13A 455 6.15e+01 a.104.1.1 107578 3lwaA 183 6.19e+01 2gc7A 386 6.24e+01 b.69.2.1 134954 2oz4A 265 6.24e+01 b.1.1.3,b.1.1.4,b.1.1.4 149099,149100,149101 3pcgM 238 6.26e+01 3pchM b.3.6.1 22742 2zylA 386 6.30e+01 2w3xA 147 6.34e+01 1efcA 393 6.38e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 3m0oA 389 6.49e+01 2cxkA 95 6.49e+01 b.1.18.1 131006 1f39A 101 6.50e+01 1umuA b.87.1.1 28386 2v0hA 456 6.51e+01 1yf9A 171 6.53e+01 d.20.1.1 123054 1sjnA 170 6.54e+01 b.85.4.1 98896 3lmiA 307 6.56e+01 1x8vA 455 6.60e+01 a.104.1.1 114968 1jtdB 273 6.63e+01 b.69.5.2 67265 3dlrA 202 6.66e+01 2cibA 455 6.66e+01 a.104.1.1 146398 1ea1A 455 6.67e+01 1ea1A a.104.1.1 18970 2jngA 105 6.70e+01 b.34.9.4 148150 3ef2A 293 6.71e+01 1h5zA 455 6.72e+01 a.104.1.1 90622 1d3cA 686 6.78e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1ueaB 184 6.84e+01 1br9 b.40.3.1 25232 2jd4A 383 6.84e+01 2d2eA 250 6.86e+01 1gu3A 149 6.87e+01 b.18.1.14 76350 2vxrA 482 6.91e+01 3esmA 152 6.93e+01 2qjvA 270 6.95e+01 2bbkH 355 6.96e+01 2bbkH b.69.2.1 27634 3bm4A 210 6.98e+01 1j34B 123 6.99e+01 d.169.1.1 84049 1a1nA 276 7.00e+01 1agdA b.1.1.2,d.19.1.1 20755,38267 3kweA 213 7.03e+01 2yueA 168 7.04e+01 3c7fA 487 7.07e+01 2g3mA 693 7.08e+01 1k5nA 276 7.09e+01 b.1.1.2,d.19.1.1 77266,77267 1xh3A 276 7.14e+01 b.1.1.2,d.19.1.1 115287,115288 3bwaA 276 7.14e+01 b.1.1.2,d.19.1.1 155683,155684 2qf3A 243 7.14e+01 b.47.1.1 150724 2zo7A 222 7.15e+01 3h09A 989 7.24e+01 1vybA 238 7.31e+01 d.151.1.1 108897 1fzoA 274 7.31e+01 1agdA b.1.1.2,d.19.1.1 60155,60156 1tyvA 554 7.37e+01 b.80.1.6 28038 1p35A 299 7.40e+01 1p35A b.28.1.1 23925 1h0pA 182 7.44e+01 b.62.1.1 76450 2vveA 254 7.44e+01 1fxoA 293 7.48e+01 1g0rA c.68.1.6 34524 1b6sA 355 7.48e+01 1b6rA b.84.2.1,c.30.1.1,d.142.1.2 28242,31649,41494 1uypA 432 7.53e+01 b.29.1.19,b.67.2.3 100176,100177 1v88A 130 7.55e+01 b.55.1.1 108423 3c6kA 381 7.55e+01 1f3zA 161 7.59e+01 b.84.3.1 28273 1qhoA 686 7.59e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 3fsyA 332 7.63e+01 3k2oA 336 7.64e+01 2a6hC 1119 7.64e+01 e.29.1.1 126264 1zvtA 256 7.65e+01 3fzdA 301 7.65e+01 2bibA 547 7.66e+01 b.109.1.1,d.157.1.8 128581,128582 1neu 124 7.77e+01 1neu 1neuA 124 7.77e+01 b.1.1.1 19704 1ejnA 253 7.79e+01 5ptp b.47.1.2 26356 2fneA 117 7.80e+01 b.36.1.1 133813 1agdA 276 7.84e+01 1agdA b.1.1.2,d.19.1.1 20741,38260 1bkb 136 7.87e+01 1bkb 1bkbA 136 7.87e+01 b.34.5.2,b.40.4.5 24609,25341