# List of top-scoring protein chains for t04-100-30-str2-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 2.01e-11 1u55A 188 1.71e-01 d.278.1.1 107677 2cz8A 69 7.01e-01 1ww7A 160 1.26e+00 1fnoA 417 1.42e+00 d.58.19.1,c.56.5.4 70145,75841 1a6zA 275 1.74e+00 1agdA b.1.1.2,d.19.1.1 20781,38280 2ux9A 69 2.50e+00 1p5dX 463 2.75e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2gagA 965 2.78e+00 3cedA 98 2.78e+00 1k2yX 463 3.07e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 2olnA 397 3.18e+00 1k5nA 276 3.40e+00 b.1.1.2,d.19.1.1 77266,77267 3bevA 274 3.57e+00 1wsrA 375 4.11e+00 2bjdA 101 4.25e+00 2obdA 476 4.72e+00 1vloA 381 4.76e+00 b.44.2.1,d.250.1.1 108838,108839 2cstA 411 4.78e+00 1ajsA c.67.1.1 34273 2dkhA 639 4.95e+00 2uuuA 584 5.14e+00 1t7vA 278 5.43e+00 b.1.1.2,d.19.1.1 112302,112303 1sr9A 644 5.44e+00 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 2r2zA 93 5.52e+00 2bvpA 276 5.69e+00 b.1.1.2,d.19.1.1 129291,129292 1gyhA 318 5.95e+00 b.67.2.1 70757 1gydB 315 6.27e+00 b.67.2.1 70751 2imjA 166 6.49e+00 1f08A 148 6.84e+00 1f08A d.89.1.2 59564 2gpyA 233 7.18e+00 1kjvA 284 7.24e+00 b.1.1.2,d.19.1.1 77421,77422 1u5rA 348 7.36e+00 d.144.1.7 113050 2asfA 137 7.84e+00 b.45.1.1 127253 2vfxA 206 8.28e+00 1ry9A 145 8.56e+00 d.198.1.1 98094 1csn 298 8.78e+00 1csn 1csnA 298 8.78e+00 d.144.1.7 41664 1go4A 205 9.26e+00 d.135.1.1 70292 1r9wA 145 9.42e+00 d.89.1.2 97264 1v5vA 401 9.70e+00 b.44.2.1,d.250.1.1 113539,113540 1z57A 339 9.83e+00 3cx5B 352 9.87e+00 2g6yA 217 1.01e+01 1yx2A 365 1.02e+01 2cy7A 396 1.04e+01 1jjiA 311 1.05e+01 c.69.1.2 66766 2ftrA 108 1.17e+01 d.58.4.15 134077 1skoB 130 1.18e+01 d.110.7.1 105677 2yx1A 336 1.18e+01 2fjlA 150 1.18e+01 b.55.1.1 133611 1icxA 155 1.27e+01 d.129.3.1 71191 1a1oA 276 1.27e+01 1agdA b.1.1.2,d.19.1.1 20751,38265 1tu1A 148 1.31e+01 d.107.1.3 107316 1qzrA 418 1.31e+01 d.14.1.3,d.122.1.2 96659,96660 1xh3A 276 1.33e+01 b.1.1.2,d.19.1.1 115287,115288 2fipA 115 1.34e+01 2oap1 511 1.38e+01 1cg2A 393 1.38e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 2qluA 314 1.39e+01 1i8aA 189 1.41e+01 1i82A b.1.9.2 61951 2abyA 146 1.41e+01 1yycA 174 1.42e+01 1qgvA 142 1.46e+01 1qgvA c.47.1.8 33056 2z1eA 342 1.46e+01 3bwaA 276 1.46e+01 1b24A 188 1.51e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1a1nA 276 1.51e+01 1agdA b.1.1.2,d.19.1.1 20755,38267 1xrsB 262 1.51e+01 c.23.6.1,d.230.4.1 115884,115885 1pvgA 418 1.55e+01 d.14.1.3,d.122.1.2 95161,95162 2iykA 162 1.60e+01 1wl7A 312 1.60e+01 b.67.2.1 120996 1zo2A 129 1.68e+01 2flhA 155 1.71e+01 2yxyA 115 1.72e+01 1q8yA 373 1.78e+01 d.144.1.7 96234 2jyaA 106 1.82e+01 3b8mA 280 1.82e+01 2dtjA 178 1.82e+01 1nrkA 328 1.83e+01 b.44.2.1,d.250.1.1 92089,92090 1o6gA 710 1.83e+01 b.69.7.1,c.69.1.4 81087,81088 1vixA 420 1.86e+01 c.56.5.4,d.58.19.1 100777,100778 1rm4A 337 1.92e+01 c.2.1.3,d.81.1.1 105000,105001 1tw0A 157 1.93e+01 d.129.3.1 119364 2jh1A 246 1.93e+01 2rioA 434 1.94e+01 2rb9A 334 1.94e+01 2ac3A 316 1.96e+01 2c2aA 258 1.99e+01 a.30.2.1,d.122.1.3 129662,129663 2iihA 157 2.00e+01 1gz8A 299 2.03e+01 d.144.1.7 83405 1wr2A 238 2.12e+01 1is3A 135 2.15e+01 b.29.1.3 76773 2z1uA 343 2.15e+01 1uy4A 145 2.17e+01 b.18.1.10 108131 2fhfA 1083 2.21e+01 2joqA 91 2.21e+01 2sak 121 2.23e+01 2sak 2sakA 121 2.23e+01 d.15.5.1 37711 1pjqA 457 2.28e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1pqnA 127 2.33e+01 c.47.1.8 95025 1dq3A 454 2.35e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1earA 147 2.40e+01 b.107.1.1,d.58.38.1 64875,64876 1vkwA 218 2.42e+01 d.90.1.2 108695 2ah6A 208 2.43e+01 2b4rO 345 2.46e+01 c.2.1.3,d.81.1.1 127845,127846 3fruA 269 2.50e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 2av7A 275 2.51e+01 b.1.1.2,d.19.1.1 127359,127360 1in0A 163 2.52e+01 d.58.49.1,d.58.49.1 83694,83695 1nbcA 155 2.59e+01 1nbcA b.2.2.2 22390 2yweA 600 2.60e+01 1vetB 125 2.61e+01 d.110.7.1 108554 2hyxA 352 2.67e+01 1m1sA 116 2.67e+01 b.1.11.2 84747 1phkA 298 2.73e+01 d.144.1.7 41635 2z0dA 357 2.80e+01 2jamA 304 2.80e+01 1g5hA 454 2.82e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 2uubJ 105 2.82e+01 d.58.15.1 139941 1xkzA 255 2.87e+01 e.3.1.1 115426 1p3dA 475 2.88e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2qswA 100 2.91e+01 2hq4A 161 3.00e+01 1h6vA 499 3.00e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 2op5A 117 3.05e+01 2av1A 275 3.16e+01 b.1.1.2,d.19.1.1 127349,127350 2r3iA 298 3.17e+01 2zfzA 79 3.20e+01 1jl2A 156 3.24e+01 c.55.3.1 66822 2if1A 126 3.26e+01 d.64.1.1 39547 1i4fA 275 3.26e+01 1agdA b.1.1.2,d.19.1.1 61687,61688 2e7vA 121 3.28e+01 2cc1A 262 3.29e+01 e.3.1.1 130211 1avwB 171 3.30e+01 1wba b.42.4.1 25599 2qikA 285 3.34e+01 1th7A 81 3.40e+01 b.38.1.1 119264 3bgyA 237 3.41e+01 1aisA 182 3.42e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 2rerA 173 3.51e+01 2h9uA 102 3.52e+01 1b7gO 340 3.64e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 2b1pA 355 3.68e+01 d.144.1.7 127672 1whnA 128 3.70e+01 d.50.1.1 114648 1iujA 106 3.71e+01 d.58.4.5 90701 2ca9A 148 3.85e+01 2dumA 170 3.86e+01 1bywA 110 3.86e+01 1bywA d.110.3.6 40912 2nvnA 122 3.86e+01 d.18.1.3 138633 1kid 203 3.87e+01 1derA 1kidA 203 3.87e+01 c.8.5.1 30771 1roaA 122 3.89e+01 d.17.1.2 105024 1whxA 111 3.90e+01 d.58.7.1 114654 1e25A 282 3.91e+01 1e25A e.3.1.1 42731 2o5aA 125 3.91e+01 1iooA 196 3.99e+01 d.124.1.1 71250 2o0uA 364 4.00e+01 d.144.1.7 138868 2dtcA 126 4.04e+01 1e30A 155 4.13e+01 1rcy b.6.1.1 23016 2b7aA 293 4.14e+01 1vjyA 303 4.14e+01 d.144.1.7 108633 1vlyA 338 4.17e+01 b.44.2.1,d.250.1.1 108871,108872 1nvmB 312 4.21e+01 c.2.1.3,d.81.1.1 86251,86252 1y10A 407 4.27e+01 2qm4A 235 4.27e+01 1hrhA 136 4.33e+01 1rthA c.55.3.1 33577 1vgjA 184 4.39e+01 1dssG 333 4.40e+01 1dssG c.2.1.3,d.81.1.1 30022,39937 1bowA 159 4.43e+01 1bowA d.60.1.1 39528 1u8fO 335 4.44e+01 c.2.1.3,d.81.1.1 119626,119627 1v6iA 232 4.47e+01 b.29.1.1 100383 2jigA 224 4.53e+01 2hw6A 307 4.56e+01 1pmnA 364 4.57e+01 d.144.1.7 94907 1ko3A 230 4.58e+01 d.157.1.1 90974 1c7nA 399 4.62e+01 1d2fA c.67.1.3 34413 2ptfA 233 4.63e+01 1pyaB 228 4.67e+01 1pyaB 1r89A 437 4.80e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 2p4pA 86 4.85e+01 2cw9A 194 4.85e+01 d.17.4.13 130920 4blmA 265 4.85e+01 1btl e.3.1.1 42721 1lfoA 127 4.90e+01 b.60.1.2 27223 1hcl 298 4.98e+01 1hcl 1juvA 193 5.02e+01 c.71.1.1 90912 1u8sA 192 5.03e+01 d.58.18.5,d.58.18.5 107737,107738 2ewhA 98 5.10e+01 d.58.56.1 132466 1uhvA 500 5.13e+01 b.71.1.2,c.1.8.3 99402,99403 1pc6A 146 5.15e+01 d.262.1.1 94430 1r7lA 110 5.15e+01 d.277.1.1 104837 3c0iA 351 5.16e+01 3pcgM 238 5.18e+01 3pchM b.3.6.1 22742 2eu9A 355 5.28e+01 2qmmA 197 5.31e+01 2ffsA 157 5.32e+01 d.129.3.7 133391 2b5eA 504 5.38e+01 c.47.1.2,c.47.1.2,c.47.1.2,c.47.1.2 127888,127889,127890,127891 1iq0A 592 5.43e+01 a.27.1.1,c.26.1.1,d.67.2.1 66257,66258,66259 1mai 131 5.45e+01 1mai 1maiA 131 5.45e+01 b.55.1.1 26951 2b7nA 273 5.45e+01 2gk9A 426 5.46e+01 2adbA 148 5.53e+01 d.58.7.1 126581 2cc6A 68 5.58e+01 d.230.2.1 130218 1lnsA 763 5.63e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 2v94A 107 5.65e+01 2i24N 121 5.70e+01 2joeA 139 5.73e+01 2bfxA 284 5.74e+01 1tz0A 114 5.78e+01 d.58.4.5 107463 1gtdA 85 5.82e+01 d.284.1.1 76344 1rgzA 363 5.83e+01 e.3.1.1 97457 1lu4A 136 5.84e+01 c.47.1.10 91124 1ev0A 58 5.84e+01 1ev0A d.71.1.1 39594 2ohdA 151 5.90e+01 1ysrA 150 5.94e+01 d.122.1.3 123981 3blcA 330 6.01e+01 2ebbA 101 6.05e+01 1we0A 187 6.11e+01 c.47.1.10 120930 1h2wA 710 6.20e+01 b.69.7.1,c.69.1.4 76596,76597 1sqeA 109 6.25e+01 d.58.4.5 105908 1ftrA 296 6.27e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 3bs6A 280 6.29e+01 1t4hA 290 6.32e+01 d.144.1.7 106420 2atzA 180 6.33e+01 d.264.1.3 127317 1xn5A 146 6.40e+01 d.129.3.5 115574 1omp 370 6.63e+01 4mbp 1u58A 253 6.65e+01 2a15A 139 6.65e+01 d.17.4.3 125973 2p3hA 101 6.66e+01 1l2mA 118 6.69e+01 d.89.1.4 77657 1t17A 148 6.75e+01 d.129.3.6 112215 1vqoU 66 6.78e+01 g.39.1.6 120382 2iw2A 494 6.78e+01 1faaA 124 6.80e+01 1erv c.47.1.1 32738 1ve3A 227 6.82e+01 c.66.1.43 120010 3b4tA 262 6.84e+01 2coqA 108 6.92e+01 1wbiA 129 6.98e+01 2av4A 162 7.00e+01 1q5yA 85 7.07e+01 d.58.18.4 95950 2qx0A 159 7.07e+01 3c10A 423 7.19e+01 2vjxA 846 7.21e+01 2aujD 309 7.21e+01 1ng4A 390 7.22e+01 c.3.1.2,d.16.1.3 85666,85667 1yb3A 175 7.24e+01 d.296.1.2 122869 3biqA 467 7.30e+01 1laxA 370 7.63e+01 c.94.1.1 84576 2jhpA 644 7.66e+01 1t3lA 337 7.66e+01 b.34.2.1,c.37.1.1 106358,106359 1nd4A 264 7.70e+01 d.144.1.6 91815 2calA 154 7.76e+01 2odsA 265 7.76e+01 2bk8A 97 7.78e+01 1rcy 151 7.80e+01 1rcy 2q22A 139 7.82e+01 1j6wA 175 8.00e+01 1j98A d.185.1.2 62663