# 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.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 1ebfA 358 1.43e-01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1tu1A 148 5.60e-01 d.107.1.3 107316 3pcgA 200 9.13e-01 3pchA b.3.6.1 22647 2cyeA 133 1.38e+00 1v8fA 276 1.64e+00 c.26.1.4 100503 1twuA 139 2.42e+00 d.32.1.8 107413 2dbbA 151 2.90e+00 3proC 166 3.86e+00 3proC d.52.1.1,d.52.1.1 38812,38813 2d93A 134 3.96e+00 1kao 167 4.52e+00 1ctqA c.37.1.8 32014 1ohpA 125 4.66e+00 1xakA 83 5.15e+00 1h8eH 146 5.69e+00 1e79H b.93.1.1 60757 2b20A 403 7.16e+00 1jae 471 7.28e+00 1smd b.71.1.1,c.1.8.1 27773,28760 2evwX 166 7.62e+00 1vr3A 191 7.65e+00 2a90A 240 7.66e+00 1ocvA 125 7.93e+00 d.17.4.3 86810 2b18A 164 8.05e+00 2as0A 396 8.15e+00 1g55A 343 8.23e+00 1g55A c.66.1.26 34247 2h3bA 494 9.27e+00 1vk0A 206 9.28e+00 c.55.3.5 100839 1ifrA 121 9.71e+00 b.1.16.1 71203 1zpvA 91 9.90e+00 1e19A 314 1.03e+01 1b7bA c.73.1.1 34967 1x4rA 99 1.08e+01 1y6hA 177 1.13e+01 2c52B 59 1.15e+01 1y7rA 133 1.17e+01 1yhfA 115 1.18e+01 1iuhA 198 1.22e+01 d.61.1.2 83711 2basA 431 1.23e+01 2atvA 196 1.26e+01 1ki0A 253 1.31e+01 g.14.1.1,g.14.1.1,g.14.1.1 72493,72494,72495 1ois 223 1.31e+01 1a36A e.15.1.1 43267 2stv 195 1.32e+01 2stv b.121.7.1 23287 2bukA 196 1.32e+01 1x9gA 200 1.32e+01 c.33.1.3 109527 1pyaB 228 1.35e+01 1pyaB 1wfuA 120 1.35e+01 1k4tA 592 1.42e+01 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 1ecrA 309 1.48e+01 1ecrA e.2.1.1 42678 1o0iA 138 1.49e+01 d.38.1.5 86532 2bmoB 194 1.56e+01 1smd 496 1.60e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1qwtA 255 1.71e+01 b.26.1.3 96501 1v3yA 192 1.80e+01 1jb0C 80 1.81e+01 1jb0C d.58.1.2 62822 1e79H 146 1.82e+01 1e79H a.2.10.1,b.93.1.1 15721,28438 1fjrA 195 1.82e+01 1fjrA b.102.1.1 59855 1eazA 125 1.83e+01 b.55.1.1 70113 1hpi 71 1.89e+01 1ckuA g.35.1.1 44995 1x82A 190 1.93e+01 2bjuA 453 1.96e+01 1dkgA 197 1.98e+01 1dkgA b.73.1.1,h.1.9.1 27812,45626 1hx0A 496 2.02e+01 b.71.1.1,c.1.8.1 61346,61347 1h2wA 710 2.02e+01 b.69.7.1,c.69.1.4 76596,76597 1tdtA 259 2.05e+01 3tdt b.81.1.2 28055 1jyhA 157 2.10e+01 d.60.1.3 71956 1v8hA 107 2.10e+01 1vdeA 454 2.13e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28378,40581,40582 2a84A 300 2.14e+01 1tiqA 180 2.23e+01 d.108.1.1 107010 1skoA 143 2.25e+01 d.110.7.1 105676 1dfmA 223 2.34e+01 1d2iA c.52.1.5 33295 2gj8A 172 2.40e+01 1bcpF 99 2.41e+01 1prtF b.40.2.1 25142 1wgkA 114 2.45e+01 1n2eA 300 2.46e+01 c.26.1.4 85268 1c3hA 137 2.48e+01 b.22.1.1 90405 2axyA 73 2.50e+01 1a7cA 379 2.57e+01 1sek e.1.1.1 42660 2cfxA 144 2.59e+01 1xvsA 126 2.60e+01 1ctqA 166 2.68e+01 1ctqA c.37.1.8 31965 1ve6A 582 2.69e+01 1sesA 421 2.70e+01 1sesA a.2.7.1,d.104.1.1 15710,40710 1dmhA 311 2.72e+01 1dmhA b.3.6.1 22633 1nstA 325 2.88e+01 1nstA c.37.1.5 31951 1t6aA 126 2.94e+01 d.129.8.1 106555 1wi5A 119 2.97e+01 1rgxA 114 3.00e+01 g.77.1.1 104932 1fzqA 181 3.00e+01 1hurA c.37.1.8 32060 1x1rA 178 3.05e+01 1t5yA 190 3.05e+01 b.122.1.1,d.17.6.3 106495,106496 6mhtA 327 3.12e+01 6mhtA c.66.1.26 34226 1vetA 124 3.14e+01 d.110.7.1 108553 1wwjA 105 3.16e+01 1qfmA 710 3.17e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 1uw4A 91 3.25e+01 d.58.7.4 100071 2cjtA 131 3.27e+01 1jv2A 957 3.31e+01 b.1.15.1,b.1.15.1,b.1.15.1,b.69.8.1 67334,67335,67336,67337 1lj5A 379 3.33e+01 e.1.1.1 73928 1gvp 87 3.34e+01 1gvp b.40.4.7 25369 1dixA 208 3.36e+01 1bk7A d.124.1.1 41122 1vqb 87 3.36e+01 1gvp b.40.4.7 25370 1m7vA 363 3.44e+01 d.174.1.1 78748 1jxcA 68 3.46e+01 g.3.7.5 77201 1xo3A 101 3.53e+01 2bzuA 181 3.65e+01 1qxrA 189 3.77e+01 b.82.1.7 96552 1v25A 541 3.81e+01 e.23.1.1 108275 1prtF 98 3.85e+01 1prtF b.40.2.1 25140 1garA 212 3.86e+01 2gar c.65.1.1 34162 1b34B 118 3.93e+01 1b34B b.38.1.1 24797 1r5pA 108 3.96e+01 c.47.1.15 97101 1s72Q 96 4.02e+01 b.34.5.1 105336 1i7pA 274 4.05e+01 b.43.4.2,c.25.1.1 66048,66049 1sskA 158 4.06e+01 b.148.1.1 105986 2gkpA 167 4.16e+01 1zg2A 107 4.16e+01 1jv4A 162 4.27e+01 b.60.1.1 67343 1nnxA 109 4.37e+01 b.40.10.1 92013 2gn4A 344 4.43e+01 1lf2A 331 4.44e+01 b.50.1.2 77914 1iwmA 186 4.53e+01 b.125.1.2 83758 1q1oA 98 4.53e+01 d.15.2.2 95596 1d0dA 60 4.61e+01 1kigI g.8.1.2 44566 1i05A 180 4.62e+01 1mup b.60.1.1 27130 1jj2P 95 4.62e+01 1ffkN b.34.5.1 63101 2faoA 309 4.63e+01 2bnmA 198 4.74e+01 1epaA 164 4.74e+01 1epaA b.60.1.1 27128 3tdt 274 4.78e+01 3tdt b.81.1.2 28053 1ri7A 171 4.79e+01 a.4.5.32,d.58.4.2 97504,97505 1uteA 313 4.80e+01 1uteA d.159.1.1 42078 1ugjA 141 4.80e+01 b.41.1.3 107826 1vm6A 228 4.83e+01 c.2.1.3,d.81.1.3 108876,108877 2occG 84 4.88e+01 2occG f.23.2.1 43522 2erxA 172 4.90e+01 1cl8A 276 4.97e+01 1ckqA c.52.1.1 33230 1i06A 180 4.97e+01 1mup b.60.1.1 27131 1h59B 54 4.99e+01 g.3.9.1 70881 1o6aA 96 5.01e+01 b.139.1.1 92562 1jwiA 131 5.06e+01 d.169.1.1 67383 1rtfB 252 5.06e+01 5ptp 1oivA 191 5.09e+01 c.37.1.8 93076 2bkqA 212 5.10e+01 1mwwA 128 5.13e+01 d.80.1.4 91483 1ze3D 125 5.23e+01 1miwA 404 5.27e+01 a.173.1.1,d.218.1.4 79162,79163 1iybA 208 5.28e+01 d.124.1.1 90720 1aqcA 172 5.30e+01 1x11A b.55.1.2 26983 1zsyA 357 5.36e+01 2f9lA 199 5.53e+01 1tvjA 166 5.58e+01 1yuiA 54 5.59e+01 1yuiA g.37.1.1 45073 1mpp 361 5.69e+01 2rmpA b.50.1.2 26856 1xt9A 212 5.71e+01 1svy 114 5.92e+01 1svy d.109.1.1 40831 1sh8A 154 5.95e+01 d.38.1.5 105549 1ddwA 120 5.95e+01 1evhA b.55.1.4 27001 1mup 166 6.05e+01 1mup b.60.1.1 27133 1g94A 448 6.06e+01 b.71.1.1,c.1.8.1 65169,65170 2exnA 136 6.06e+01 1i0vA 104 6.07e+01 9rnt d.1.1.4 36054 1un7A 400 6.12e+01 b.92.1.5,c.1.9.10 99657,99658 1xcbA 211 6.12e+01 a.4.5.38,c.2.1.12 109552,109553 2apr 325 6.15e+01 2er7E b.50.1.2 26819 1cojA 212 6.17e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 2bkrA 212 6.22e+01 2b6eA 146 6.23e+01 1xl3C 92 6.27e+01 1zq4A 693 6.30e+01 2bmjA 178 6.33e+01 2fsqA 243 6.36e+01 1blxA 326 6.38e+01 1hcl d.144.1.7 41596 1g2aA 168 6.45e+01 d.167.1.1 65109 2bzvA 181 6.45e+01 1t46A 313 6.56e+01 d.144.1.7 106397 2gfaA 119 6.73e+01 1luzA 88 6.74e+01 b.40.4.5 74271 1vj2A 126 6.76e+01 b.82.1.10 100796 1h72C 296 6.90e+01 d.14.1.5,d.58.26.1 60712,60713 1y9wA 140 6.90e+01 1bkjA 240 6.91e+01 1bkjA d.90.1.1 40243 1aqm 453 6.95e+01 1smd b.71.1.1,c.1.8.1 27717,28704 1nciA 110 6.99e+01 1edhA b.1.6.1 22191 1xiyA 182 7.16e+01 1ti6B 274 7.25e+01 b.3.5.1,d.58.1.5 106976,106977 1jkxA 212 7.25e+01 c.65.1.1 66813 1d8hA 311 7.25e+01 1d8iA d.63.1.1 39544 3aprE 325 7.51e+01 2er7E b.50.1.2 26820 2a5jA 191 7.55e+01 1kdj 102 7.55e+01 1plc b.6.1.1 22864 1fgkA 310 7.59e+01 1fgkA d.144.1.7 41693 1qsoA 149 7.60e+01 1qsmA d.108.1.1 40812 1he7A 126 7.61e+01 1wwcA b.1.1.4 60970 1tx4B 178 7.62e+01 1ctqA c.37.1.8 32045 1fwkA 296 7.64e+01 1fwkA d.14.1.5,d.58.26.1 37576,39398 1hnf 182 7.65e+01 1qa9A b.1.1.1,b.1.1.3 19741,21680 1j9bA 141 7.66e+01 c.47.1.12 66459 1f5mA 180 7.77e+01 1f5mB d.110.2.1 40895 1sxvA 172 7.78e+01 3rubS 123 7.90e+01 1rboC d.73.1.1 39616 2cttA 104 7.99e+01 1dbxA 158 8.00e+01 1dbuA d.116.1.1 40928 2db9A 149 8.02e+01 1dhkB 223 8.08e+01 1led b.29.1.1 24157 2frnA 278 8.11e+01 1jj2H 167 8.32e+01 1ffkF d.41.4.1 63093 1ppt 36 8.35e+01 1ppt j.6.1.1 46089 1umkA 275 8.41e+01 1x99A 145 8.42e+01 3gcb 470 8.42e+01 3gcb d.3.1.1 37032 1w2xA 758 8.44e+01 c.14.1.4,c.14.1.4 109134,109135 1y8oB 128 8.44e+01 1q7lA 198 8.47e+01 c.56.5.4 96044 1uyrA 737 8.54e+01 c.14.1.4,c.14.1.4 100188,100189 1q38A 89 8.58e+01 b.1.2.1 95663 1v54G 85 8.60e+01 f.23.2.1 100328 1soxA 466 8.62e+01 1soxA b.1.18.6,d.120.1.1,d.176.1.1 21947,41090,42563 1w2lA 99 8.64e+01 1ogaE 252 8.65e+01 b.1.1.1,b.1.1.2 86992,86993 1s3cA 141 8.65e+01 1djrD 103 8.69e+01 3chbD b.40.2.1 24865 1amx 180 8.80e+01 1amx b.2.3.1 22410 1wddS 128 8.84e+01 2cdpA 160 8.88e+01 1vqoQ 96 8.96e+01 1ujnA 348 8.98e+01 e.22.1.1 99460