# 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 1.55e-01 1wmhB 86 7.46e-01 1urnA 97 1.87e+00 1urnA d.58.7.1 39153 1xewY 172 1.90e+00 1hyuA 521 2.21e+00 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1oiaA 95 2.24e+00 d.58.7.1 87051 2cunA 410 2.40e+00 1fr3A 67 2.73e+00 1fr3A b.40.6.1 25436 1u24A 337 3.92e+00 2etxA 209 4.05e+00 1repC 251 4.15e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1ip9A 85 4.60e+00 1ip9A d.15.2.2 62638 1e3aB 560 5.02e+00 1ajqB 1xn5A 146 5.11e+00 1vp2A 208 5.17e+00 2adoA 196 5.37e+00 1gk9B 557 5.60e+00 1hqz1 141 5.90e+00 1pnsC 206 6.93e+00 i.1.1.1 88170 1tlk 154 7.16e+00 1tlk b.1.1.4 21707 1d4tA 104 7.20e+00 1d4tA d.93.1.1 40537 1gutA 68 7.37e+00 b.40.6.1 65576 1vr7A 142 7.45e+00 1nu4A 97 7.53e+00 d.58.7.1 80731 2d9rA 104 7.94e+00 1s12A 94 8.50e+00 1fhgA 154 9.22e+00 1tlk b.1.1.4 21706 1di2A 69 9.63e+00 1di2A d.50.1.1 38780 1zpvA 91 9.64e+00 1iw7C 1119 9.68e+00 e.29.1.1 71474 1oeyJ 107 9.71e+00 d.15.2.2 92804 1qwlA 505 9.81e+00 e.5.1.1 96483 8rucI 123 9.98e+00 1rboC d.73.1.1 39629 1vhxA 150 1.05e+01 c.55.3.8 100712 2fhzB 108 1.07e+01 1h2cA 140 1.07e+01 b.31.1.1 83462 2g64A 140 1.11e+01 1kjwA 295 1.15e+01 b.34.2.1,c.37.1.1 68643,68644 2frnA 278 1.15e+01 1dyqA 234 1.16e+01 3seb b.40.2.2,d.15.6.1 59140,59141 2amyA 246 1.16e+01 1nrlA 316 1.16e+01 a.123.1.1 92091 1r6jA 82 1.23e+01 b.36.1.1 97151 1nteA 82 1.27e+01 b.36.1.1 86163 1xtoA 311 1.31e+01 1fw9A 164 1.33e+01 1fw9A d.190.1.1 60059 1yukB 120 1.40e+01 2gmqA 118 1.45e+01 1x74A 360 1.47e+01 2bkfA 87 1.50e+01 2c1lA 358 1.52e+01 1fjgC 239 1.53e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 2c7hA 86 1.54e+01 2ewrA 170 1.56e+01 1ylqA 96 1.59e+01 2b25A 336 1.61e+01 2ewcA 126 1.65e+01 1b33N 67 1.69e+01 1b33N d.30.1.1 38459 1hh2P 344 1.70e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 1tt8A 164 1.73e+01 1s4nA 348 1.73e+01 c.68.1.16 98501 1z52A 470 1.78e+01 1qopB 396 1.83e+01 2tysB c.79.1.1 35270 2ak5A 64 1.92e+01 1ycyA 71 1.94e+01 1i8fA 81 1.97e+01 1i8fA b.38.1.1 61959 1yg6A 193 1.99e+01 1preA 470 2.00e+01 1preA d.169.1.2,f.8.1.1 42437,43824 1wyxA 69 2.10e+01 1f7sA 139 2.15e+01 1cof d.109.1.2 40857 2fclA 169 2.16e+01 1go3E 187 2.16e+01 b.40.4.5,d.230.1.1 83054,83055 1smxA 96 2.17e+01 b.40.4.5 105772 1tluA 130 2.18e+01 d.156.1.2 107139 1z6gA 218 2.19e+01 2dfkA 402 2.25e+01 1zynA 202 2.25e+01 2g6fX 59 2.35e+01 1toaA 313 2.36e+01 1toaA c.92.2.2 35598 2d00A 109 2.38e+01 1aho 64 2.38e+01 1aho g.3.7.1 44127 1wkqA 164 2.38e+01 c.97.1.2 109393 1uwdA 103 2.40e+01 2cu6A 103 2.42e+01 1uurA 473 2.45e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1t0hA 132 2.47e+01 b.34.2.1 106207 1luzA 88 2.50e+01 b.40.4.5 74271 1vr4A 103 2.52e+01 1m5q1 130 2.58e+01 1div 149 2.65e+01 1div d.99.1.1,d.100.1.1 40692,40693 1wmhA 89 2.65e+01 1omzA 293 2.66e+01 c.68.1.15 87093 1tiyA 164 2.71e+01 c.97.1.2 107012 2fiuA 99 2.72e+01 1ml8A 134 2.89e+01 d.227.1.2 85013 1ft5A 211 2.91e+01 1bvb a.138.1.3 19681 1ma3A 253 2.97e+01 c.31.1.5 78883 1o0pA 104 3.00e+01 d.58.7.1 86535 2gw6A 123 3.01e+01 1vkuA 100 3.02e+01 a.28.1.1 108690 1lq9A 112 3.08e+01 d.58.4.3 78129 1x8dA 104 3.08e+01 1c9oA 66 3.09e+01 1mjc b.40.4.5 25325 1segA 64 3.19e+01 g.3.7.1 105453 1oj4A 283 3.21e+01 d.14.1.5,d.58.26.5 93083,93084 2aj6A 159 3.25e+01 1tr0A 108 3.29e+01 d.58.4.4 107261 1whbA 157 3.30e+01 1rfeA 162 3.32e+01 2a4dA 160 3.34e+01 1quqB 121 3.40e+01 1quqB b.40.4.3 25305 1zc1A 208 3.41e+01 1eziA 228 3.41e+01 1eyrA c.68.1.13 34512 1yqcA 170 3.46e+01 1wrjA 156 3.49e+01 1r1qA 100 3.51e+01 d.93.1.1 104763 1rwsA 77 3.55e+01 d.15.3.2 97991 1wz7A 111 3.56e+01 1pbjA 125 3.62e+01 d.37.1.1,d.37.1.1 94414,94415 1hfoA 113 3.72e+01 d.80.1.3 61006 1jx2B 315 3.75e+01 c.37.1.8 67404 1wojA 214 3.80e+01 2a6aA 218 3.85e+01 2fueA 262 3.87e+01 1h54A 754 3.90e+01 a.102.1.4,b.30.5.3 60634,60635 1mo9A 523 3.94e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1u6bA 98 3.95e+01 d.58.7.1 107703 1d1gA 168 3.96e+01 1d1gA c.71.1.1 34889 1xsqA 168 4.03e+01 1sqsA 242 4.05e+01 c.23.5.5 98968 1b66A 140 4.07e+01 1b66A d.96.1.2 40657 1no5A 114 4.15e+01 d.218.1.5 92014 2c6yA 111 4.18e+01 1c52 131 4.21e+01 1c52 a.3.1.1 15810 1ny4A 82 4.24e+01 b.40.4.5 92316 1j7dA 145 4.25e+01 1jatB d.20.1.1 62680 1f06A 320 4.30e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1gouA 116 4.34e+01 d.1.1.2 65429 1cf7B 95 4.34e+01 1cf7B a.4.5.17 16152 1v9jA 113 4.39e+01 d.52.6.1 100542 1u46A 291 4.40e+01 d.144.1.7 107656 1bia 321 4.54e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1xsrA 168 4.56e+01 1zvpA 133 4.57e+01 1m93A 55 4.57e+01 e.1.1.1 91235 2g3aA 152 4.57e+01 1ri7A 171 4.63e+01 a.4.5.32,d.58.4.2 97504,97505 1pqzA 238 4.66e+01 b.1.1.2,d.19.1.1 104297,104298 2aw42 46 4.68e+01 1nwwA 149 4.68e+01 d.17.4.8 86306 1yfbA 59 4.69e+01 1nwaA 203 4.72e+01 d.58.28.1 86295 1vbvA 105 4.87e+01 1icxA 155 4.87e+01 d.129.3.1 71191 1nt2A 210 4.89e+01 c.66.1.3 86149 1wspA 84 4.97e+01 1sn4A 64 5.09e+01 1aho g.3.7.1 44136 1v5tA 90 5.12e+01 d.15.1.1 108385 2gi9A 56 5.19e+01 1cc8A 73 5.22e+01 1cc8A d.58.17.1 39343 1qu9A 128 5.23e+01 1qu9A d.79.1.1 39755 1kgdA 180 5.24e+01 c.37.1.1 68582 1gy6A 127 5.29e+01 d.17.4.2 70736 2fmr 65 5.31e+01 2fmr d.51.1.1 38808 2f06A 144 5.36e+01 2g6tA 306 5.38e+01 1kl9A 182 5.39e+01 b.40.4.5 72681 1kz7A 353 5.39e+01 a.87.1.1,b.55.1.1 73333,73334 1omrA 201 5.39e+01 a.39.1.5 93349 1tig 94 5.39e+01 1tig d.68.1.1 39566 1qb2A 109 5.43e+01 1qb2A a.36.1.1 17125 1kv0A 66 5.43e+01 g.3.7.1 91040 2a8kA 108 5.45e+01 1vdxA 184 5.51e+01 1lqtA 456 5.52e+01 c.3.1.1,c.4.1.1 74198,74199 1xwvA 129 5.53e+01 1vrtA 560 5.63e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 2f9dA 125 5.67e+01 1a0rP 245 5.68e+01 1b9yC c.47.1.6 33054 1fvgA 199 5.73e+01 1fvaA d.58.28.1 39408 1rec 201 5.74e+01 1rec a.39.1.5 17326 1tq8A 163 5.80e+01 c.26.2.4 107204 1vi7A 217 5.81e+01 d.14.1.11,d.58.11.2 100740,100741 2gfgA 193 5.83e+01 1pp0A 199 5.84e+01 d.103.1.1 104211 1nhyA 219 5.86e+01 a.45.1.1,c.47.1.5 80520,80521 1jenB 67 5.88e+01 1jenB d.156.1.1 42029 1y14B 171 5.94e+01 1ifqA 138 5.96e+01 1ifqA d.110.4.1 62350 1qysA 106 5.96e+01 k.41.1.1 96603 1e25A 282 6.02e+01 1e25A e.3.1.1 42731 1zud1 251 6.18e+01 1ztcA 221 6.41e+01 1j8bA 112 6.44e+01 d.222.1.1 77101 1wr8A 231 6.56e+01 1gyxA 76 6.66e+01 d.80.1.1 76387 2a5hA 416 6.68e+01 1n7eA 97 6.69e+01 b.36.1.1 91691 1k0hA 117 6.75e+01 b.106.1.2 71975 1njhA 119 6.86e+01 b.128.1.1 85787 1upiA 225 6.89e+01 b.82.1.1 99757 1z02A 446 6.91e+01 1vazA 88 6.99e+01 d.245.1.1 100554 1pvdA 537 7.00e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 2cxcA 144 7.06e+01 1gkzA 388 7.10e+01 a.29.5.1,d.122.1.4 65268,65269 1uzcA 71 7.10e+01 a.159.2.1 100222 2myr 501 7.19e+01 2gh1A 301 7.23e+01 1qdeA 224 7.25e+01 1qvaA c.37.1.19 32410 2gaiA 633 7.26e+01 1kw4A 89 7.26e+01 a.60.1.2 73077 1hcnA 92 7.31e+01 1hcnA g.17.1.4 44809 1w2lA 99 7.31e+01 1juvA 193 7.34e+01 c.71.1.1 90912 1wnyA 186 7.45e+01 1pz1A 333 7.46e+01 c.1.7.1 95390 1q8bA 105 7.47e+01 d.58.4.6 96201 1n8nA 212 7.52e+01 c.108.1.12 91706 2bpa1 426 7.56e+01 2bpa1 1q68A 38 7.57e+01 j.48.1.1 95962 1bn8A 420 7.58e+01 1pcl b.80.1.1 28022 1jh3A 107 7.58e+01 d.66.1.4 71661 1jogA 146 7.68e+01 a.24.16.2 77142 1nsf 273 7.68e+01 1d2nA c.37.1.20 32429 2a50B 168 7.72e+01 1rmwA 212 7.75e+01 1ne5A 42 7.75e+01 g.3.7.2 85588 1eg2A 319 7.77e+01 1eg2A c.66.1.11 34249 1wi6A 88 7.77e+01 2mtaC 147 7.80e+01 2mtaC a.3.1.1 15908 1vd2A 89 7.83e+01 d.15.2.2 108517 2b82A 211 7.86e+01 1wkaA 147 7.88e+01 1vggA 161 7.89e+01 1ujrA 110 7.90e+01 2hrvA 142 7.97e+01 2hrvA b.47.1.4 26429 2bh4X 134 7.99e+01 1gppA 237 8.03e+01 b.86.1.2 76262 1z0rA 53 8.04e+01 1djtA 64 8.05e+01 1aho g.3.7.1 44132 1f2tB 148 8.07e+01 1f2tB 1rp4A 389 8.08e+01 a.227.1.1 105027 1vl6A 388 8.16e+01 c.2.1.7,c.58.1.3 108724,108725 1fjgD 209 8.20e+01 1c05A d.66.1.2 39553 1y8oB 128 8.21e+01 1eijA 80 8.22e+01 1eijA a.5.6.1 16298 1uelB 48 8.27e+01 j.105.1.1 99266 1m07A 111 8.31e+01 d.5.1.1 78328 1xn7A 78 8.32e+01 1fa0A 537 8.34e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1e4mM 501 8.36e+01 1e70M c.1.8.4 59226 1s14A 194 8.41e+01 d.122.1.2 98329 1neiA 60 8.49e+01 d.253.1.1 91843 1id0A 152 8.54e+01 d.122.1.3 66111 1oa8A 133 8.54e+01 b.145.1.1 92698 1d0bA 213 8.57e+01 1d0bA c.10.2.1 30866 1qfjA 232 8.79e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 1qjcA 158 8.79e+01 1b6tA c.26.1.3 63328 2eulA 156 8.85e+01 1dptA 117 8.96e+01 1dptA d.80.1.3 39862 1whi 122 9.00e+01 1whi b.39.1.1 24810