# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 3f8mA 248 1.54e-01 2cyyA 151 3.89e-01 a.4.5.32,d.58.4.2 131028,131029 2e7xA 150 4.90e-01 2pn6A 150 5.81e-01 1w9yA 319 9.64e-01 b.82.2.1 120801 1m5yA 408 1.40e+00 a.223.1.2,d.26.1.1,d.26.1.1 78664,78665,78666 2ia0A 171 1.49e+00 2octA 98 1.99e+00 1uhnA 189 2.20e+00 a.39.1.5 99399 2jrbA 88 2.37e+00 1lq9A 112 2.66e+00 d.58.4.3 78129 3b42A 135 2.88e+00 3e8oA 119 2.89e+00 3bwgA 239 3.82e+00 a.4.5.6,d.190.1.2 155693,155694 2d5rB 116 4.07e+00 d.370.1.1 146467 1vctA 205 4.57e+00 a.7.12.1,d.286.1.1 119986,119987 3f5oA 148 4.93e+00 2cfxA 144 5.36e+00 a.4.5.32,d.58.4.2 130395,130396 1ri7A 171 5.94e+00 a.4.5.32,d.58.4.2 97504,97505 3k67A 159 6.21e+00 2r1iA 172 6.44e+00 1y0hA 105 6.45e+00 d.58.4.11 116303 2wv0A 243 6.50e+00 2b0lA 102 6.71e+00 a.4.5.66 127641 1vjqA 79 7.00e+00 k.43.1.1 100830 1jyaA 130 7.55e+00 d.198.1.1 67453 1l8rA 101 7.76e+00 a.6.1.4 73700 3gjoA 72 8.06e+00 2hxjA 144 8.31e+00 a.136.1.1 147432 2zfdA 226 8.36e+00 a.39.1.5 154406 3d01A 165 8.52e+00 3fdrA 94 8.63e+00 1s3jA 155 8.78e+00 a.4.5.28 98437 2z15A 130 9.19e+00 d.370.1.1 153921 2qkdA 404 9.20e+00 1m1eB 81 9.21e+00 a.161.1.1 78400 1xj4A 119 9.24e+00 d.110.3.2 122027 1di1A 300 9.72e+00 1di1A a.128.1.4 19446 2vv6A 119 9.78e+00 2b3nA 159 1.04e+01 d.38.1.4 127792 1zy4A 303 1.04e+01 2euiA 153 1.08e+01 d.108.1.1 132387 1y1vS 179 1.09e+01 i.8.1.1 116361 1wi5A 119 1.16e+01 b.40.4.5 114661 1sfuA 75 1.20e+01 a.4.5.19 105503 2o37A 92 1.22e+01 2reuA 258 1.27e+01 2vhhA 405 1.30e+01 3jv1A 182 1.32e+01 2dbbA 151 1.34e+01 1h6wA 312 1.38e+01 d.231.1.1,b.108.1.1 83059,83060 1txqB 86 1.40e+01 a.245.1.1 119389 2q3pA 112 1.52e+01 d.58.4.4 139798 3c6fA 153 1.55e+01 1ax8 146 1.55e+01 1ax8 1ax8A 146 1.55e+01 a.26.1.1 16844 1ue1A 164 1.59e+01 b.40.4.3 99243 2d74B 148 1.59e+01 1hkqA 132 1.60e+01 a.4.5.10 83555 3aazB 229 1.62e+01 2d1uA 104 1.65e+01 1nz0A 118 1.67e+01 d.14.1.2 86433 3g0oA 303 1.67e+01 1ug8A 87 1.73e+01 d.68.7.1 107825 3cqbA 107 1.74e+01 2oa6A 320 1.77e+01 3bnyA 320 1.80e+01 3devA 320 1.81e+01 1jj2E 177 1.82e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1k6kA 143 1.83e+01 a.174.1.1 77274 3ir3A 148 1.86e+01 2ciuA 127 1.88e+01 3ckdA 312 1.92e+01 2rfpA 171 2.03e+01 3lg3A 435 2.06e+01 1ow1A 195 2.10e+01 b.131.1.3 93625 1mzuA 129 2.20e+01 d.110.3.1 79714 3i79A 484 2.23e+01 3b47A 134 2.28e+01 1u6mA 199 2.34e+01 d.108.1.1 113069 3icxA 255 2.61e+01 3dy0A 336 2.62e+01 3c4iA 99 2.67e+01 3e9vA 120 2.67e+01 d.370.1.1 158072 2azeA 155 2.78e+01 e.63.1.1 127605 2a7lA 136 2.78e+01 d.20.1.1 126350 3g0kA 148 2.79e+01 1zunA 325 2.80e+01 c.26.2.2 125676 3kheA 191 2.91e+01 2wpvB 59 2.91e+01 2c5uA 375 2.92e+01 2kl8A 85 2.93e+01 1or7A 194 2.94e+01 a.4.13.2,a.177.1.1 87332,87333 1yhuB 144 2.96e+01 2vpaA 216 3.01e+01 b.45.1.1 153421 1y2qA 143 3.04e+01 3bz1C 473 3.05e+01 1kpgA 287 3.08e+01 c.66.1.18 68735 1lmb3 92 3.11e+01 1lmb3 1rfmA 344 3.19e+01 c.122.1.1 97385 3id1A 95 3.21e+01 3fncA 163 3.25e+01 1eysH 259 3.25e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 1k6zA 141 3.30e+01 d.198.1.1 68247 2uuzA 99 3.34e+01 2gykB 134 3.37e+01 d.4.1.1 135857 2yzrA 330 3.39e+01 3k2yA 109 3.42e+01 1wu9A 80 3.46e+01 a.245.1.1 121279 1u8bA 133 3.46e+01 1h5wA 309 3.50e+01 e.27.1.1 65635 3encA 87 3.60e+01 1o0pA 104 3.65e+01 d.58.7.1 86535 3fc7A 125 3.75e+01 2cukA 311 3.76e+01 1aijH 260 3.84e+01 6prcH b.41.1.1,f.23.10.1 25466,43463 1rzhH 260 3.84e+01 b.41.1.1,f.23.10.1 98162,98163 1xo5A 183 3.87e+01 a.39.1.5 115680 2nshA 169 3.93e+01 1x7vA 99 3.95e+01 d.58.4.11 109501 2f0xA 148 3.95e+01 d.38.1.5 132673 1dvoA 152 4.01e+01 1dvoA a.136.1.1 19623 3kvpA 72 4.04e+01 1vqoE 178 4.07e+01 d.141.1.1,d.141.1.1 120366,120367 1p65A 73 4.07e+01 d.254.1.1 94156 3kz3A 80 4.09e+01 1woyA 500 4.10e+01 a.27.1.1,c.26.1.1 121130,121131 2jmpA 107 4.10e+01 1auiB 169 4.12e+01 1auiB a.39.1.5 17325 2cxcA 144 4.14e+01 2ptmA 198 4.38e+01 1gd0A 122 4.43e+01 1dptA d.80.1.3 39834 2uuiA 156 4.44e+01 f.56.1.1 152184 1b16A 254 4.58e+01 1b16A c.2.1.2 29875 2vlqB 134 4.61e+01 1ehwA 162 4.67e+01 1npk d.58.6.1 39088 1fipA 98 4.71e+01 1fipA a.4.1.12 18980 3kysB 125 4.73e+01 3fb9A 90 4.76e+01 3d1lA 266 4.78e+01 3bjnA 165 4.79e+01 1sq9A 397 4.79e+01 b.69.4.1 105889 1fzdA 201 4.79e+01 3fib d.171.1.1 42484 1qczA 169 4.81e+01 1qczA c.23.8.1 31276 3k63A 126 4.82e+01 1wspA 84 4.83e+01 d.15.1.8 145834 1s0yA 76 4.90e+01 d.80.1.1 98314 3a8rA 179 4.93e+01 2yzuA 109 4.97e+01 2ahqA 76 5.02e+01 1vykA 149 5.05e+01 1qbjA 81 5.05e+01 1qbjA a.4.5.19 16155 2cg4A 152 5.07e+01 a.4.5.32,d.58.4.2 130417,130418 3ej9A 76 5.09e+01 1emvB 134 5.12e+01 1bxiB d.4.1.1 37135 3kuuA 174 5.13e+01 2hl0A 143 5.15e+01 2cvkA 110 5.31e+01 1dljA 402 5.34e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 2gz4A 207 5.36e+01 a.211.1.1 147196 3hhtB 229 5.45e+01 2glwA 92 5.45e+01 2zzdB 157 5.49e+01 1wsuA 124 5.49e+01 a.4.5.35,a.4.5.35 121245,121246 2k02A 87 5.50e+01 1vqoM 195 5.53e+01 d.12.1.2 120374 1s0yB 71 5.63e+01 d.80.1.1 98315 2v9vA 135 5.63e+01 a.4.5.35,a.4.5.35 152809,152810 1sbyA 254 5.66e+01 c.2.1.2 118930 3h3zA 235 5.67e+01 2db9A 149 5.75e+01 b.34.21.1 146482 3juaB 39 5.77e+01 1y9wA 140 5.80e+01 d.108.1.1 122783 3bb6A 127 5.81e+01 b.82.2.13 155045 2j5zA 221 5.83e+01 3iurA 693 5.84e+01 2x1wA 110 5.87e+01 2hts 88 5.88e+01 2hts 2axtC 473 5.91e+01 f.55.1.1 144928 2wkbA 125 5.92e+01 1iq4A 179 6.02e+01 1iq4A d.77.1.1 62641 1i0aA 466 6.03e+01 1auwA a.127.1.1 61479 3b96A 587 6.09e+01 2g2kA 170 6.18e+01 1qvbA 481 6.19e+01 1qvbA c.1.8.4 28983 1w3oA 216 6.21e+01 b.45.1.1 144544 2kiiA 181 6.24e+01 3i4pA 162 6.26e+01 1wy5A 317 6.28e+01 c.26.2.5,d.229.1.1 121428,121429 1go4E 100 6.37e+01 h.1.22.1 70296 2j7tA 302 6.39e+01 1s28A 132 6.40e+01 d.198.1.1 105223 8rucI 123 6.40e+01 1rboC d.73.1.1 39629 3dkqA 243 6.52e+01 3kdaA 301 6.53e+01 2kc8A 98 6.53e+01 1dliA 402 6.63e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 2uxwA 607 6.65e+01 2dbqA 334 6.75e+01 2odeB 141 6.76e+01 1ufwA 95 6.78e+01 d.58.7.1 99358 1hrdA 449 6.80e+01 1k89 c.2.1.7,c.58.1.1 30219,33867 2g5dA 422 6.80e+01 b.52.1.4 147083 3fn2A 106 6.86e+01 1y8xB 98 6.87e+01 c.111.1.2 144607 1xttA 216 6.88e+01 c.61.1.1 122300 2obpA 96 6.94e+01 a.4.5.71 148718 3duzA 487 6.97e+01 1lswA 131 7.01e+01 d.110.3.2 78181 2kjkA 100 7.01e+01 2p5vA 162 7.04e+01 2z86A 625 7.09e+01 2ct9A 208 7.15e+01 2zplA 97 7.16e+01 1xkpB 124 7.17e+01 d.198.1.1 122087 2rfqA 394 7.19e+01 2eulA 156 7.25e+01 a.2.1.1,d.26.1.2 132392,132393 3bjkA 153 7.29e+01 1k4nA 192 7.30e+01 d.32.1.5 72059 2opaA 61 7.33e+01 2gx5A 170 7.36e+01 3ldtA 169 7.39e+01 2ffgA 87 7.44e+01 d.317.1.1 133383 3i08B 69 7.46e+01 1ir21 140 7.48e+01 3b84A 119 7.55e+01 1fr2B 134 7.57e+01 d.4.1.1 83257 2f2uA 402 7.59e+01 2jhmF 218 7.63e+01 1x3eA 165 7.64e+01 2vkjA 106 7.67e+01 2wnpF 217 7.68e+01 3dfuA 232 7.70e+01 3fevA 65 7.70e+01 1p4wA 99 7.74e+01 a.4.6.2 87783 1exrA 148 7.81e+01 1cll a.39.1.5 17299 2q8nA 460 7.87e+01 2ko6A 89 7.89e+01