# 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 1y96B 85 5.13e-01 1tzaA 134 6.69e-01 b.1.23.1 107468 1fr3A 67 8.77e-01 1fr3A b.40.6.1 25436 2d1uA 104 1.11e+00 1wmhB 86 1.51e+00 1gutA 68 1.68e+00 b.40.6.1 65576 1souA 194 1.95e+00 c.124.1.6 105858 1h2cA 140 3.22e+00 b.31.1.1 83462 1hyuA 521 4.08e+00 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1qvcA 145 4.12e+00 3ullA b.40.4.3 25284 2bw2A 140 4.21e+00 1yg6A 193 4.55e+00 1pqxA 91 5.02e+00 d.267.1.1 104296 2a2pA 129 5.14e+00 1tlk 154 5.50e+00 1tlk b.1.1.4 21707 1lqtA 456 5.93e+00 c.3.1.1,c.4.1.1 74198,74199 1fhgA 154 5.96e+00 1tlk b.1.1.4 21706 2f4mA 295 6.51e+00 1oiaA 95 7.05e+00 d.58.7.1 87051 1ddf 127 7.96e+00 1ddf a.77.1.2 18423 1ma3A 253 8.09e+00 c.31.1.5 78883 1hqz1 141 9.98e+00 1xkrA 206 1.10e+01 1yaxA 153 1.11e+01 1q59A 172 1.12e+01 f.1.4.1 95881 1uheA 97 1.15e+01 1ov3A 138 1.19e+01 b.34.2.1,b.34.2.1 87451,87452 1nxiA 132 1.20e+01 d.58.47.1 86381 2g0uA 92 1.20e+01 1urnA 97 1.29e+01 1urnA d.58.7.1 39153 1o0pA 104 1.31e+01 d.58.7.1 86535 2d9rA 104 1.33e+01 1rfeA 162 1.37e+01 1wmhA 89 1.40e+01 1q38A 89 1.42e+01 b.1.2.1 95663 1d4tA 104 1.43e+01 1d4tA d.93.1.1 40537 1oeyJ 107 1.43e+01 d.15.2.2 92804 1ft5A 211 1.44e+01 1bvb a.138.1.3 19681 1jenB 67 1.45e+01 1jenB d.156.1.1 42029 2axwA 134 1.52e+01 1o9iA 266 1.58e+01 a.25.1.3 92671 1wrjA 156 1.59e+01 1jkvA 266 1.62e+01 a.25.1.3 71719 1pnsC 206 1.67e+01 i.1.1.1 88170 1t0hA 132 1.69e+01 b.34.2.1 106207 1fw9A 164 1.70e+01 1fw9A d.190.1.1 60059 1nteA 82 1.70e+01 b.36.1.1 86163 1xn5A 146 1.75e+01 1r6jA 82 1.76e+01 b.36.1.1 97151 1ny4A 82 1.76e+01 b.40.4.5 92316 1c5eA 95 1.79e+01 1c5eA b.85.2.1 28317 2bpa1 426 1.80e+01 2bpa1 1vhxA 150 1.84e+01 c.55.3.8 100712 1yc5A 246 1.88e+01 1repC 251 1.93e+01 1repC a.4.5.10,a.4.5.10 16125,16126 2cunA 410 1.99e+01 2dfkA 402 1.99e+01 1i8fA 81 2.00e+01 1i8fA b.38.1.1 61959 1div 149 2.00e+01 1div d.99.1.1,d.100.1.1 40692,40693 1yqcA 170 2.03e+01 1toaA 313 2.12e+01 1toaA c.92.2.2 35598 1zynA 202 2.21e+01 1mkaA 171 2.25e+01 1mkaA d.38.1.2 38543 2d00A 109 2.31e+01 1q87A 221 2.39e+01 e.47.1.1 96192 1tt8A 164 2.42e+01 1jeyB 565 2.43e+01 1jeqB b.131.1.2,c.62.1.4 90372,90373 1g6gA 127 2.43e+01 1g6gA b.26.1.2 23916 1x7oA 287 2.47e+01 1m93A 55 2.49e+01 e.1.1.1 91235 1jeyA 609 2.56e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 1qwlA 505 2.61e+01 e.5.1.1 96483 2c1lA 358 2.61e+01 2gaiA 633 2.62e+01 1gg6B 131 2.64e+01 5ptp 1kveB 77 2.67e+01 1kveB 1o7kA 131 2.72e+01 d.189.1.1 81144 1s4nA 348 2.77e+01 c.68.1.16 98501 2aioA 269 2.77e+01 1k8mA 93 2.81e+01 b.84.1.1 68314 1f7sA 139 2.87e+01 1cof d.109.1.2 40857 1xsrA 168 2.89e+01 1v30A 124 2.93e+01 2aw42 46 2.98e+01 1xyiA 66 2.98e+01 1zkdA 387 2.99e+01 1fjgC 239 3.00e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 2fvtA 135 3.02e+01 1eg2A 319 3.15e+01 1eg2A c.66.1.11 34249 1b33N 67 3.18e+01 1b33N d.30.1.1 38459 1xsqA 168 3.20e+01 1wgvA 124 3.24e+01 1whbA 157 3.24e+01 1ep0A 185 3.31e+01 1dzrA b.82.1.1 28080 1ztcA 221 3.33e+01 1bia 321 3.40e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1q18A 332 3.44e+01 c.55.1.7,c.55.1.7 104470,104471 1vr4A 103 3.49e+01 1ne5A 42 3.52e+01 g.3.7.2 85588 1go3E 187 3.57e+01 b.40.4.5,d.230.1.1 83054,83055 1vp2A 208 3.59e+01 2fj6A 82 3.62e+01 2bsdA 264 3.63e+01 1v5tA 90 3.65e+01 d.15.1.1 108385 1tr0A 108 3.70e+01 d.58.4.4 107261 1mbyA 88 3.73e+01 d.223.1.1 78931 1xtoA 311 3.75e+01 1m07A 111 3.84e+01 d.5.1.1 78328 2gmqA 118 3.87e+01 1xewY 172 3.96e+01 1di2A 69 3.97e+01 1di2A d.50.1.1 38780 1gpmA 525 4.03e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 2fblA 153 4.05e+01 1ylqA 96 4.06e+01 2etxA 209 4.09e+01 2amyA 246 4.14e+01 1wh0A 134 4.18e+01 1x31D 99 4.18e+01 1iw7C 1119 4.21e+01 e.29.1.1 71474 1quqB 121 4.25e+01 1quqB b.40.4.3 25305 2bkfA 87 4.27e+01 2ak5A 64 4.28e+01 2fclA 169 4.28e+01 1yv4A 104 4.28e+01 1eziA 228 4.30e+01 1eyrA c.68.1.13 34512 1smlA 269 4.32e+01 1smlA d.157.1.1 42053 1wz7A 111 4.46e+01 1yphC 131 4.50e+01 1vbvA 105 4.59e+01 1preA 470 4.61e+01 1preA d.169.1.2,f.8.1.1 42437,43824 1upiA 225 4.62e+01 b.82.1.1 99757 1id0A 152 4.64e+01 d.122.1.3 66111 1fu9A 36 4.65e+01 1fu9A g.37.1.2 45074 1gy6A 127 4.65e+01 d.17.4.2 70736 1pxeA 63 4.71e+01 g.73.1.1 95286 1r1qA 100 4.74e+01 d.93.1.1 104763 1wyxA 69 4.79e+01 2ewcA 126 4.81e+01 1zruA 264 4.85e+01 1zlhB 75 4.86e+01 1z52A 470 4.89e+01 1yqfA 203 4.92e+01 1dwkA 156 4.93e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1rwiA 270 4.93e+01 b.68.9.1 97987 1np6A 174 4.96e+01 c.37.1.10 85954 1dyqA 234 4.96e+01 3seb b.40.2.2,d.15.6.1 59140,59141 1utyA 187 4.98e+01 b.147.1.1 108036 1kn7A 78 4.99e+01 j.12.1.1 84413 2cu3A 64 5.01e+01 1nrlA 316 5.12e+01 a.123.1.1 92091 2a6aA 218 5.18e+01 1g8lA 411 5.19e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 2ewrA 170 5.22e+01 1bby 69 5.27e+01 2bby a.4.5.15 16149 1nwwA 149 5.28e+01 d.17.4.8 86306 1omzA 293 5.36e+01 c.68.1.15 87093 1xedA 117 5.42e+01 1q7eA 428 5.44e+01 c.123.1.1 96035 1mwwA 128 5.51e+01 d.80.1.4 91483 1uc7A 125 5.55e+01 c.47.1.1 99163 1ryjA 70 5.57e+01 d.15.3.2 98104 1d1gA 168 5.67e+01 1d1gA c.71.1.1 34889 1zpvA 91 5.84e+01 1bj4A 470 5.85e+01 1bj4A c.67.1.4 34479 2a7uA 22 5.87e+01 1wojA 214 5.88e+01 1e25A 282 5.91e+01 1e25A e.3.1.1 42731 2b25A 336 5.97e+01 1cqtI 44 5.97e+01 1azpA 66 6.03e+01 1azpA b.34.13.1 37467 2adoA 196 6.10e+01 1x74A 360 6.21e+01 1wouA 123 6.21e+01 c.47.1.16 109471 1jogA 146 6.25e+01 a.24.16.2 77142 1wstA 417 6.28e+01 1pp0A 199 6.33e+01 d.103.1.1 104211 1h9mA 145 6.35e+01 1h9jA b.40.6.2,b.40.6.2 60833,60834 1jhfA 202 6.60e+01 a.4.5.2,b.87.1.1 63057,63058 1r29A 127 6.60e+01 d.42.1.1 96856 1no5A 114 6.63e+01 d.218.1.5 92014 1to2I 64 6.64e+01 2frnA 278 6.73e+01 1m2xA 223 6.92e+01 d.157.1.1 84764 1lq9A 112 6.96e+01 d.58.4.3 78129 2aj6A 159 6.97e+01 1hcnA 92 7.05e+01 1hcnA g.17.1.4 44809 1uurA 473 7.08e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 2c7hA 86 7.09e+01 1hh2P 344 7.11e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 1db3A 372 7.12e+01 1db3A c.2.1.2 29813 1i3zA 103 7.14e+01 d.93.1.1 83667 1w2iA 91 7.18e+01 d.58.10.1 109127 1gk9B 557 7.19e+01 1ff4A 65 7.19e+01 g.7.1.1 83251 1w5fA 353 7.29e+01 1gyxA 76 7.34e+01 d.80.1.1 76387 1oe1A 336 7.36e+01 b.6.1.3,b.6.1.3 86891,86892 1zo2A 129 7.38e+01 1wkwB 20 7.38e+01 2c0zA 216 7.47e+01 1bn8A 420 7.47e+01 1pcl b.80.1.1 28022 2gh1A 301 7.50e+01 1kx5C 128 7.55e+01 a.22.1.1 77595 1wr8A 231 7.56e+01 1jx2B 315 7.57e+01 c.37.1.8 67404 1kl9A 182 7.58e+01 b.40.4.5 72681 2g3aA 152 7.59e+01 1q7lB 88 7.61e+01 1t62A 166 7.62e+01 b.122.1.4 106541 1s12A 94 7.67e+01 2g6fX 59 7.67e+01 1e3aB 560 7.70e+01 1ajqB 1d2sA 170 7.71e+01 1d2sA b.29.1.4 24221 1ri5A 298 7.78e+01 c.66.1.34 97502 1nbuA 119 7.78e+01 d.96.1.3 91767 1vggA 161 7.81e+01 1nu0A 138 7.82e+01 c.55.3.8 92165 1nu4A 97 7.87e+01 d.58.7.1 80731 1nt2A 210 7.94e+01 c.66.1.3 86149 1ik9C 37 7.95e+01 1pbjA 125 8.04e+01 d.37.1.1,d.37.1.1 94414,94415 1h54A 754 8.24e+01 a.102.1.4,b.30.5.3 60634,60635 1yfbA 59 8.25e+01 1zud1 251 8.26e+01 2axpA 173 8.26e+01 1kmdA 117 8.27e+01 d.189.1.1 72744 1htyA 1015 8.30e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 1kjwA 295 8.34e+01 b.34.2.1,c.37.1.1 68643,68644 1cf7B 95 8.41e+01 1cf7B a.4.5.17 16152 2fz4A 237 8.43e+01 1aho 64 8.44e+01 1aho g.3.7.1 44127 2gfgA 193 8.47e+01 1td4A 115 8.50e+01 1vfsA 386 8.50e+01 b.49.2.2,c.1.6.1 108584,108585 1ip9A 85 8.50e+01 1ip9A d.15.2.2 62638 1wjnA 97 8.52e+01 1bypA 99 8.62e+01 1plc b.6.1.1 22858 1fmeA 28 8.67e+01 k.12.1.1 59878 1m5q1 130 8.70e+01 1oj4A 283 8.71e+01 d.14.1.5,d.58.26.5 93083,93084 2cu1A 103 8.77e+01 1np7A 489 8.77e+01 a.99.1.1,c.28.1.1 80677,80678 1rm6A 769 8.82e+01 1uz3A 102 8.87e+01 1ounA 127 8.89e+01 1ounA d.17.4.2 38090 1qwnA 1045 8.92e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1q68A 38 8.97e+01 j.48.1.1 95962