# List of top-scoring protein chains for t2k-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.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 1vi3A 170 2.60e-01 b.17.1.2 100730 1fjjA 159 2.87e-01 1fjjA b.17.1.2 59852 1on0A 158 3.80e+00 d.108.1.1 87095 1mh1 186 4.06e+00 1eesA 1mh1A 186 4.06e+00 c.37.1.8 32002 3cddA 361 4.89e+00 2oiwA 136 5.27e+00 1mxgA 435 5.79e+00 b.71.1.1,c.1.8.1 85193,85194 1z1zA 131 6.46e+00 d.323.1.1 124366 1ufhA 180 6.69e+00 d.108.1.1 88485 1mzjA 339 6.82e+00 c.95.1.2,c.95.1.2 79700,79701 1qspA 165 7.71e+00 1qspA a.24.10.2 16639 1c02A 166 9.85e+00 1qspA a.24.10.2 16633 1ra0A 430 1.00e+01 b.92.1.2,c.1.9.5 111756,111757 2r25A 167 1.02e+01 2bkdN 134 1.02e+01 1mr3F 181 1.05e+01 c.37.1.8 79422 1isiA 265 1.07e+01 c.23.14.3 71394 1nhp 447 1.11e+01 1nhp 1nhpA 447 1.11e+01 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 2qr4A 587 1.13e+01 2fywA 267 1.24e+01 c.135.1.1 134408 1ew3A 159 1.29e+01 1mup b.60.1.1 27114 1nhsA 447 1.44e+01 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1ibxB 145 1.46e+01 1c9fA d.15.2.1 62232 1o63A 219 1.76e+01 c.94.1.1 92540 1gs5A 258 1.79e+01 c.73.1.2 70395 1k6wA 426 1.94e+01 b.92.1.2,c.1.9.5 68236,68237 2bu3A 254 1.95e+01 d.3.1.14 129167 1xuvA 178 1.98e+01 d.129.3.5 116069 2q3zA 687 1.98e+01 2jn9A 105 2.02e+01 1zpwX 90 2.10e+01 d.58.58.1 125478 1o7sA 127 2.14e+01 b.1.1.1 86644 2j0vA 212 2.29e+01 1gsjA 258 2.33e+01 c.73.1.2 70397 2pvbA 107 2.46e+01 1a75A a.39.1.4 17205 2oseA 234 2.54e+01 2qpwA 149 2.58e+01 1azpA 66 2.61e+01 1azpA b.34.13.1 37467 1xyiA 66 2.65e+01 2ak5A 64 2.66e+01 1r8sA 164 2.68e+01 c.37.1.8 97247 1g5vA 88 2.78e+01 1g5vA b.34.9.1 60292 1qoiA 177 2.88e+01 2cpl b.62.1.1 27490 1f2rI 100 2.89e+01 1c9fA d.15.2.1 37641 1mhnA 59 2.94e+01 b.34.9.1 84964 1aohA 147 2.98e+01 1aohA b.2.2.2 22401 1qjwA 365 3.02e+01 1bvwA c.6.1.1 30657 2f5kA 102 3.05e+01 b.34.13.3 132995 1eu3A 210 3.08e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1m2oB 190 3.18e+01 c.37.1.8 78485 2c2hA 192 3.40e+01 c.37.1.8 129668 2hq9A 149 3.42e+01 b.45.1.1 136659 1p9yA 121 3.42e+01 d.241.2.1 94402 1ht6A 405 3.44e+01 b.71.1.1,c.1.8.1 83629,83630 2bsjA 133 3.45e+01 2r99A 173 3.49e+01 2fp3A 316 3.54e+01 2ivyA 101 3.55e+01 2g6fX 59 3.61e+01 1wkoA 180 3.64e+01 1kolA 398 3.65e+01 b.35.1.2,c.2.1.1 77474,77475 2cbpA 96 3.73e+01 b.6.1.1 22895 2v94A 107 3.83e+01 1i8dA 213 3.88e+01 b.43.4.3,b.43.4.3 61953,61954 2f1fA 164 3.88e+01 d.58.18.6,d.58.18.6 132760,132761 1q3lA 69 4.03e+01 b.34.13.2 111652 1fuxA 166 4.16e+01 1fjjA b.17.1.2 60034 1rzfH 235 4.20e+01 b.1.1.1,b.1.1.2 98150,98151 1qwoA 442 4.23e+01 c.60.1.2 104620 2eifA 136 4.25e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1v9jA 113 4.26e+01 d.52.6.1 100542 2j01E 206 4.34e+01 1f8fA 371 4.52e+01 b.35.1.2,c.2.1.1 83246,83247 2ptfA 233 4.53e+01 1ris 101 4.66e+01 1ris 1avaC 181 4.83e+01 1avaC b.42.4.1 25604 1nkoA 132 4.87e+01 b.1.1.1 85829 1xniA 118 4.92e+01 b.34.9.1,b.34.9.1 115582,115583 3be4A 217 4.97e+01 1oebA 62 5.07e+01 b.34.2.1 86909 2g3rA 123 5.14e+01 b.34.9.1,b.34.9.1 134570,134571 1yoaA 159 5.16e+01 b.45.1.2 123775 1nykA 165 5.17e+01 b.33.1.1 86408 1utiA 58 5.30e+01 b.34.2.1 99962 2g82A 331 5.33e+01 c.2.1.3,d.81.1.1 134746,134747 2bshA 125 5.34e+01 2bzsA 236 5.43e+01 c.23.5.3 129560 2nptB 100 5.44e+01 d.15.2.2 138449 2z10A 194 5.47e+01 1qwdA 177 5.54e+01 b.60.1.1 96471 1cqmA 101 5.55e+01 1ris d.58.14.1 39321 2q7nA 488 5.61e+01 3ciwA 348 5.76e+01 1hurA 180 5.77e+01 1hurA c.37.1.8 32052 1louA 101 5.77e+01 1ris d.58.14.1 39323 1j9aA 184 5.80e+01 c.55.3.5 84135 3cmnA 372 5.84e+01 2iwrA 178 5.95e+01 1zj6A 187 6.01e+01 c.37.1.8 125145 1o9rA 162 6.16e+01 a.25.1.1 86706 1bpv 112 6.22e+01 1bpv 2acoA 173 6.44e+01 2gu2A 312 6.46e+01 2fgsA 179 6.70e+01 1avaA 403 6.90e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 1ehsA 48 6.96e+01 g.2.1.1 43998 1aonO 97 6.98e+01 b.35.1.1 24642 1w4vA 119 7.06e+01 3b3fA 341 7.09e+01 2arhA 203 7.25e+01 d.108.1.9 127197 1ws8A 109 7.26e+01 b.6.1.1 114843 2gpuA 230 7.27e+01 a.123.1.1 135493 2v74B 346 7.28e+01 1cr5A 189 7.31e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 2ovsA 118 7.48e+01 2c9oA 456 7.50e+01 2gfhA 260 7.57e+01 c.108.1.6 135096 1mkzA 172 7.61e+01 c.57.1.1 84998 2pthA 193 7.64e+01 c.56.3.1 33793 2pth 193 7.64e+01 2pth 1xo3A 101 7.65e+01 d.15.3.3 115678 2re9A 181 7.67e+01 1s9pA 227 7.67e+01 a.123.1.1 105384 1gwyA 175 7.70e+01 b.97.1.1 83356 2ogfA 122 7.75e+01 2yzjA 169 7.79e+01 1o3yA 166 7.80e+01 c.37.1.8 86618 1yixA 265 7.83e+01 c.1.9.12 123371 1l1oC 181 7.86e+01 b.40.4.3 73480 1b7aA 186 7.87e+01 1a44 b.17.1.1 23705 1kn3A 183 7.88e+01 b.17.1.1 72764 1at3A 247 7.93e+01 1at3A b.57.1.1 27021 2f60K 64 7.96e+01