# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 2jz5A 91 3.00e-14 2cz8A 69 8.61e-01 1u55A 188 9.90e-01 d.278.1.1 107677 2obdA 476 2.55e+00 1skoB 130 2.66e+00 d.110.7.1 105677 2gcoA 201 2.84e+00 1kmqA 184 3.15e+00 c.37.1.8 84412 1klqA 197 3.90e+00 d.135.1.1 68689 1tx4B 178 4.10e+00 1ctqA c.37.1.8 32045 2qx2A 344 5.88e+00 1vetB 125 6.89e+00 d.110.7.1 108554 1zg2A 107 7.24e+00 2gpyA 233 7.54e+00 2oap1 511 8.51e+00 1in0A 163 9.27e+00 d.58.49.1,d.58.49.1 83694,83695 2fb6A 117 1.02e+01 1kjvA 284 1.03e+01 b.1.1.2,d.19.1.1 77421,77422 1crwG 333 1.04e+01 1dssG c.2.1.3,d.81.1.1 30026,39941 1dssG 333 1.05e+01 1dssG c.2.1.3,d.81.1.1 30022,39937 1h2wA 710 1.05e+01 b.69.7.1,c.69.1.4 76596,76597 1qfmA 710 1.11e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 1e8nA 710 1.12e+01 1qfmA b.69.7.1,c.69.1.4 27675,34643 1h2xA 710 1.13e+01 b.69.7.1,c.69.1.4 76598,76599 2yxyA 115 1.19e+01 2vfxA 206 1.22e+01 2z0dA 357 1.23e+01 1o6gA 710 1.23e+01 b.69.7.1,c.69.1.4 81087,81088 1gydB 315 1.40e+01 b.67.2.1 70751 1kf6A 602 1.47e+01 a.7.3.1,c.3.1.4,d.168.1.1 72394,72395,72396 1dujA 187 1.51e+01 1dujA d.135.1.1 41449 2ek0A 90 1.62e+01 1t7vA 278 1.64e+01 b.1.1.2,d.19.1.1 112302,112303 2bjdA 101 1.68e+01 1gyhA 318 1.72e+01 b.67.2.1 70757 2jyaA 106 1.73e+01 2j0vA 212 1.80e+01 2cy7A 396 1.80e+01 1h6vA 499 1.90e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 1f45B 197 1.94e+01 1f45B a.26.1.1 59642 1k2yX 463 1.98e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1qzrA 418 2.05e+01 d.14.1.3,d.122.1.2 96659,96660 1rm4A 337 2.06e+01 c.2.1.3,d.81.1.1 105000,105001 1k5nA 276 2.06e+01 b.1.1.2,d.19.1.1 77266,77267 1p5dX 463 2.13e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2cstA 411 2.16e+01 1ajsA c.67.1.1 34273 1u8fO 335 2.19e+01 c.2.1.3,d.81.1.1 119626,119627 1pvgA 418 2.27e+01 d.14.1.3,d.122.1.2 95161,95162 1go4A 205 2.28e+01 d.135.1.1 70292 1f9mA 112 2.37e+01 1erv c.47.1.1 32736 2jamA 304 2.41e+01 2g7zA 282 2.48e+01 2b25A 336 2.48e+01 c.66.1.13 127699 3bwdD 182 2.49e+01 1ci0A 228 2.56e+01 1ci0A b.45.1.1 25750 2dkhA 639 2.65e+01 1azvA 153 2.70e+01 1mfmA b.1.8.1 22247 1a6zA 275 2.72e+01 1agdA b.1.1.2,d.19.1.1 20781,38280 1zq1C 633 2.74e+01 a.182.1.2,d.74.4.1,d.128.1.5 125493,125494,125495 3pcgM 238 2.82e+01 3pchM b.3.6.1 22742 2fjlA 150 2.97e+01 b.55.1.1 133611 1fnoA 417 3.02e+01 d.58.19.1,c.56.5.4 70145,75841 1we0A 187 3.08e+01 c.47.1.10 120930 1faaA 124 3.10e+01 1erv c.47.1.1 32738 1n3yA 198 3.41e+01 c.62.1.1 79976 1fy7A 278 3.43e+01 1fy7A d.108.1.1 40817 2ptfA 233 3.45e+01 1mfmA 153 3.48e+01 1mfmA b.1.8.1 22246 1r9wA 145 3.73e+01 d.89.1.2 97264 2asfA 137 3.87e+01 b.45.1.1 127253 1a0p 290 4.04e+01 1a0p 1a0pA 290 4.04e+01 a.60.9.1,d.163.1.1 18105,42165 2e7vA 121 4.13e+01 1lxdA 100 4.21e+01 1lfdA d.15.1.5 37624 1u58A 253 4.28e+01 2pptA 155 4.33e+01 2hyxA 352 4.41e+01 1ytbA 180 4.44e+01 1ytbA d.129.1.1,d.129.1.1 41276,41277 2opaA 61 4.45e+01 1agdA 276 4.54e+01 1agdA b.1.1.2,d.19.1.1 20741,38260 1zb9A 143 4.66e+01 2burB 241 4.70e+01 b.3.6.1 129228 2cdnA 201 4.75e+01 c.37.1.1 130289 2sak 121 4.86e+01 2sak 2sakA 121 4.86e+01 d.15.5.1 37711 2bvpA 276 4.91e+01 b.1.1.2,d.19.1.1 129291,129292 1c9bB 180 4.93e+01 1ytbA d.129.1.1,d.129.1.1 41216,41217 2yvsA 219 4.94e+01 1vq2A 193 5.01e+01 c.97.1.2 114004 2pu9C 111 5.03e+01 3bevA 274 5.03e+01 1pieA 419 5.07e+01 d.14.1.5,d.58.26.7 94706,94707 1p1lA 102 5.08e+01 d.58.5.2 87695 2buwB 241 5.14e+01 2ikkA 173 5.15e+01 2iqhA 499 5.17e+01 1u5rA 348 5.66e+01 d.144.1.7 113050 1dq3A 454 5.69e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 2fipA 115 5.70e+01 1vixA 420 5.77e+01 c.56.5.4,d.58.19.1 100777,100778 1a9eA 277 5.78e+01 1agdA b.1.1.2,d.19.1.1 20757,38268 2g0qA 173 5.78e+01 2p10A 286 5.85e+01 1upqA 123 5.99e+01 b.55.1.1 113392 1a1oA 276 6.38e+01 1agdA b.1.1.2,d.19.1.1 20751,38265 1vbkA 307 6.41e+01 c.26.2.6,d.308.1.1 119957,119958 1gadO 330 6.42e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 2gagA 965 6.47e+01 2b5eA 504 6.50e+01 c.47.1.2,c.47.1.2,c.47.1.2,c.47.1.2 127888,127889,127890,127891 2rb9A 334 6.55e+01 1kgyA 181 6.57e+01 b.18.1.4 72449 1b24A 188 6.67e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1y7rA 133 6.84e+01 d.108.1.1 122716 1p3dA 475 7.11e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1xh3A 276 7.12e+01 b.1.1.2,d.19.1.1 115287,115288 3bwaA 276 7.12e+01 1w2iA 91 7.21e+01 d.58.10.1 109127 2exuA 200 7.69e+01 1xkzA 255 7.73e+01 e.3.1.1 115426 2uubJ 105 7.76e+01 d.58.15.1 139941 2ffsA 157 7.81e+01 d.129.3.7 133391 3b4tA 262 7.86e+01 2qikA 285 7.86e+01 2zfzA 79 7.91e+01 1yx2A 365 7.91e+01 1dkgD 383 7.92e+01 1ba1 c.55.1.1,c.55.1.1 33427,33428 1eaf 243 7.98e+01 1eaf 2nvnA 122 7.98e+01 d.18.1.3 138633