# List of top-scoring protein chains for t06-100-30-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.cse.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 2ae0X 345 2.62e-02 2gaeA 346 4.17e-02 1v04A 355 5.93e-01 b.68.6.2 100240 2g5dA 422 7.18e-01 2c3mA 1231 7.47e-01 1wucA 250 1.04e+00 1i0lA 221 1.69e+00 c.61.1.1 71096 1wi1A 126 2.08e+00 1s5uA 138 2.16e+00 d.38.1.1 98573 1kmvA 186 2.33e+00 c.71.1.1 72757 1mrj 247 2.75e+00 1mrj d.165.1.1 42177 1pgl1 185 3.44e+00 3cox 507 3.50e+00 1b8sA c.3.1.2,d.16.1.1 30332,37863 1d2fA 390 3.68e+00 1d2fA c.67.1.3 34411 1ja1A 622 3.84e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1vjhA 122 4.24e+00 d.129.3.1 100811 2ghsA 326 4.51e+00 1a34A 159 4.62e+00 1a34A b.121.7.1 23286 8dfr 189 4.75e+00 1aoeA c.71.1.1 34895 1j6qA 136 5.68e+00 b.40.9.1 77091 1n67A 359 6.06e+00 b.2.3.4,b.2.3.4 85354,85355 1x8vA 455 6.18e+00 2cx1A 187 7.45e+00 1mrg 263 7.59e+00 1mrj d.165.1.1 42183 1ahsA 126 8.22e+00 1ahsA b.19.1.1 23794 1ryp2 233 9.42e+00 1ryp2 1yemA 179 9.46e+00 1sq9A 397 9.76e+00 b.69.4.1 105889 1dyoA 160 9.92e+00 1dyoA b.18.1.7 23771 1izoA 417 1.11e+01 a.104.1.1 83851 2cwzA 141 1.12e+01 1ixlA 131 1.17e+01 d.38.1.5 90717 1fsgA 233 1.19e+01 1qk3A c.61.1.1 34029 1udzA 182 1.23e+01 b.51.1.1 99239 1agi 125 1.23e+01 7rsa d.5.1.1 37303 1yueA 427 1.25e+01 1zkpA 268 1.25e+01 1qy5A 269 1.27e+01 d.122.1.1 96573 1ok8A 394 1.28e+01 b.1.18.4,f.10.1.1 93236,93237 1at3A 247 1.31e+01 1at3A b.57.1.1 27021 1b0uA 262 1.32e+01 1b0uA c.37.1.12 32370 1vclA 432 1.38e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1ftrA 296 1.39e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1yqzA 438 1.46e+01 1nuyA 337 1.48e+01 e.7.1.1 86213 1e7uA 961 1.54e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1y0bA 197 1.54e+01 1vhh 162 1.59e+01 1vhh d.65.1.2 39550 1vemA 516 1.60e+01 1pixA 587 1.61e+01 c.14.1.4 94708 1zh5A 195 1.65e+01 1m98A 317 1.70e+01 a.175.1.1,d.17.4.6 78866,78867 1vpjA 192 1.72e+01 1wnyA 186 1.73e+01 1aoeA 192 1.73e+01 1aoeA c.71.1.1 34923 2fdbM 164 1.75e+01 1wwrA 171 1.83e+01 1y2tA 142 1.84e+01 2bvbA 137 1.88e+01 1e8yA 966 1.90e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1g2rA 100 1.94e+01 1g2rA d.192.1.1 60231 1kdgA 546 2.00e+01 c.3.1.2,d.16.1.1 77337,77338 2c3gA 98 2.04e+01 1wmhB 86 2.19e+01 2f86B 143 2.22e+01 1b8aA 438 2.33e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1wmmA 145 2.33e+01 3pcgA 200 2.35e+01 3pchA b.3.6.1 22647 1n62B 809 2.39e+01 d.41.1.1,d.133.1.1 80092,80093 2cyeA 133 2.41e+01 1sgjA 284 2.56e+01 c.1.12.5 105535 1xezA 721 2.65e+01 2gw6A 123 2.69e+01 1sqrA 95 2.77e+01 2fuqA 747 2.81e+01 1vqvA 306 2.88e+01 1zk7A 467 2.89e+01 1ko3A 230 2.94e+01 d.157.1.1 90974 1l2tA 235 2.97e+01 c.37.1.12 73514 1uq5A 263 2.98e+01 d.165.1.1 99778 1dytA 133 2.98e+01 7rsa d.5.1.1 37288 1vdmA 153 2.99e+01 1cfzA 162 3.05e+01 1cfzA c.56.1.1 33754 3pcgM 238 3.06e+01 3pchM b.3.6.1 22742 1i2aA 219 3.08e+01 e.24.1.1 90660 1cqyA 99 3.12e+01 1b9zA b.3.1.1 22527 1ihgA 370 3.16e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 1v3eA 431 3.25e+01 b.68.1.1 100287 1vlyA 338 3.32e+01 b.44.2.1,d.250.1.1 108871,108872 1xocA 520 3.34e+01 1zd0A 150 3.45e+01 4tmkA 213 3.47e+01 5tmpA c.37.1.1 31930 1qw2A 102 3.54e+01 d.249.1.1 96456 2apr 325 3.59e+01 2er7E b.50.1.2 26819 1y5eA 169 3.66e+01 3fib 249 3.69e+01 3fib d.171.1.1 42455 1wtaA 275 3.71e+01 1m2tA 254 3.72e+01 d.165.1.1 84761 1ct9A 553 3.77e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1dcs 311 3.93e+01 1dcs b.82.2.1 28124 1ixmA 192 4.02e+01 1ixmA d.123.1.1 41114 1ryp1 222 4.06e+01 1ryp1 2booA 247 4.08e+01 1ok7A 366 4.14e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1jb9A 316 4.15e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 2fhxA 246 4.19e+01 1f8fA 371 4.24e+01 b.35.1.2,c.2.1.1 83246,83247 3gcb 470 4.28e+01 3gcb d.3.1.1 37032 1i9zA 347 4.46e+01 1i9yA d.151.1.2 62102 1rocA 155 4.47e+01 b.1.22.1 97673 1rjdA 334 4.50e+01 c.66.1.37 97558 1g79A 218 4.50e+01 1ci0A b.45.1.1 25752 1jx4A 352 4.59e+01 d.240.1.1,e.8.1.7 90378,90379 2a9dA 372 4.59e+01 1ckmA 330 4.60e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1jndA 420 4.62e+01 c.1.8.5,d.26.3.1 71757,71758 1azo 232 4.79e+01 1azo c.52.1.14 33329 1jhfA 202 4.82e+01 a.4.5.2,b.87.1.1 63057,63058 1rypL 212 4.82e+01 d.153.1.4 41880 1sgpE 185 4.88e+01 1qq4A b.47.1.1 25816 1j48A 110 4.90e+01 b.1.7.1 84112 1lf6A 684 5.00e+01 a.102.1.5,b.30.5.5 77918,77919 1bvoA 175 5.02e+01 1a3qA b.2.5.3 22457 1ugxA 133 5.06e+01 1l3iA 192 5.07e+01 c.66.1.22 77676 1wguA 136 5.08e+01 1dywA 173 5.20e+01 2cpl b.62.1.1 27505 1fh0A 221 5.31e+01 1cs8A d.3.1.1 59832 1a2yB 116 5.33e+01 1gc1H b.1.1.1 19927 1bn7A 294 5.65e+01 1bn6A c.69.1.8 34677 1cz4A 185 5.67e+01 1cz4A b.52.2.3,d.31.1.1 26934,38468 1dmhA 311 5.76e+01 1dmhA b.3.6.1 22633 1n4wA 504 5.76e+01 c.3.1.2,d.16.1.1 91676,91677 1r77A 103 5.77e+01 2cxxA 190 5.87e+01 1ysrA 150 5.88e+01 1tc1A 220 5.88e+01 1tc1A c.61.1.1 34083 1grj 158 5.94e+01 1grj a.2.1.1,d.26.1.2 15691,38433 2ai4A 119 5.95e+01 1rypJ 204 6.07e+01 d.153.1.4 41878 1m4jA 142 6.21e+01 d.109.1.2 78602 1vdwA 254 6.24e+01 e.7.1.1 100569 1byfA 125 6.34e+01 1byfA d.169.1.1 42419 1gntA 553 6.48e+01 e.26.1.1 70290 1f20A 435 6.53e+01 b.43.4.1,c.25.1.4 64932,64933 1wk2A 121 6.53e+01 1gnyA 153 6.54e+01 b.18.1.11 65404 1n40A 396 6.54e+01 a.104.1.1 79977 1vzoA 355 6.55e+01 d.144.1.7 108971 1q8iA 783 6.63e+01 c.55.3.5,e.8.1.1 96208,96209 2sli 679 6.66e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1zo2A 129 6.69e+01 1qamA 244 6.69e+01 2ercA c.66.1.24 34220 1efdN 266 6.69e+01 1efdN c.92.2.1 35597 1mj5A 302 6.70e+01 c.69.1.8 91285 2cxcA 144 6.73e+01 1el6A 219 6.74e+01 1el6B d.182.1.1 42606 1x3mA 415 6.77e+01 1dnlA 199 6.80e+01 1ci0A b.45.1.1 25753 1ry6A 360 6.81e+01 c.37.1.9 98090 1a8d 452 6.82e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1cbs 137 6.86e+01 1hmt b.60.1.2 27201 1jofA 365 6.86e+01 b.69.10.1 71775 1mfgA 95 6.87e+01 b.36.1.1 79043 1lyqA 104 6.93e+01 b.1.18.17 78302 1ddgA 374 6.96e+01 1amoA b.43.4.1,c.25.1.4 25671,31559 2sfa 191 7.00e+01 1qq4A b.47.1.1 25815 1zdrA 164 7.05e+01 1s68A 249 7.09e+01 d.142.2.4 98591 1f5jA 199 7.14e+01 1axkA b.29.1.11 24342 1gwmA 153 7.17e+01 b.18.1.19 83348 1x8gA 227 7.18e+01 1cxqA 162 7.20e+01 1cxqA c.55.3.2 33621 1x8hA 228 7.26e+01 1n9lA 109 7.29e+01 d.110.3.6 85468 2fblA 153 7.35e+01 2bcmA 165 7.50e+01 3seb 238 7.51e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1h6hA 143 7.51e+01 d.189.1.1 65681 1l8fA 207 7.53e+01 b.52.1.1 84537 2auhB 59 7.66e+01 1nnxA 109 7.73e+01 b.40.10.1 92013 2bivA 243 7.76e+01 1ajsA 412 7.77e+01 1ajsA c.67.1.1 34276 1h3gA 601 7.87e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1n9pA 207 7.91e+01 b.1.18.16 80343 1pk6C 129 7.93e+01 b.22.1.1 94803 1xw3A 110 7.95e+01 1wpoA 256 7.96e+01 1lay b.57.1.1 27012 1qreA 247 7.99e+01 1qreA b.81.1.5 28066 1oygA 447 8.05e+01 b.67.2.2 93726 1v9sA 208 8.08e+01 1j05B 121 8.24e+01 b.1.1.1 90736 1fi2A 201 8.25e+01 1fi2A b.82.1.2 59845 2exnA 136 8.27e+01 1hxxA 340 8.31e+01 2omf f.4.3.1 61385 2d28C 149 8.37e+01 1gen 218 8.41e+01 1gen b.66.1.1 27536 1oacA 727 8.45e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1ssxA 198 8.59e+01 b.47.1.1 98978 1l2mA 118 8.69e+01 d.89.1.4 77657 1wruA 379 8.77e+01 2frgP 106 8.80e+01 1l1oC 181 8.95e+01 b.40.4.3 73480 1vh5A 148 8.95e+01 d.38.1.5 100642 1uynX 308 8.98e+01 f.4.5.1 100174