# List of top-scoring protein chains for t2k-100-30-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 2f4qA 346 2.34e-01 1tzaA 134 3.77e-01 b.1.23.1 107468 1ffyA 917 5.53e-01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1qu2A 917 5.53e-01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16925,26890,31592 1qx4A 274 1.62e+00 b.43.4.2,c.25.1.1 104624,104625 1i8vA 96 1.64e+00 d.1.1.2 61985 1rgeA 96 1.64e+00 1rgeA d.1.1.2 36028 1gmpA 96 1.65e+00 1rgeA d.1.1.2 36036 1lniA 96 1.74e+00 d.1.1.2 74046 1b24A 188 2.01e+00 1b24A d.95.2.1,d.95.2.1 40573,40574 1rec 201 2.35e+00 1rec a.39.1.5 17326 134l 130 2.39e+00 3lzt d.2.1.2 36505 1omrA 201 2.63e+00 a.39.1.5 93349 1ebdA 455 2.75e+00 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1dk8A 147 3.52e+00 1agrE a.91.1.1 18548 1ui0A 205 3.66e+00 c.18.1.2 99411 1b7rA 130 4.46e+00 3lzt d.2.1.2 36436 133l 130 4.47e+00 3lzt d.2.1.2 36524 1b7s 130 4.66e+00 3lzt d.2.1.2 36571 1lz1 130 4.66e+00 3lzt d.2.1.2 36415 1jsf 130 4.72e+00 3lzt d.2.1.2 36410 1b5vA 130 4.81e+00 3lzt d.2.1.2 36563 1b5wA 130 4.89e+00 3lzt d.2.1.2 36557 1wgoA 123 4.96e+00 1b7pA 130 5.05e+00 3lzt d.2.1.2 36551 1d4oA 184 5.09e+00 1d4oA c.31.1.4 31748 1b5uA 130 5.15e+00 3lzt d.2.1.2 36453 1b7qA 130 5.23e+00 3lzt d.2.1.2 36549 1lmt 136 5.34e+00 3lzt d.2.1.2 36416 1b5zA 130 5.35e+00 3lzt d.2.1.2 36567 1b5xA 130 5.37e+00 3lzt d.2.1.2 36550 1tqzA 133 5.44e+00 1b7nA 130 5.69e+00 3lzt d.2.1.2 36468 1b5yA 130 5.83e+00 3lzt d.2.1.2 36570 1bb3A 130 5.89e+00 3lzt d.2.1.2 36544 1b7mA 130 5.95e+00 3lzt d.2.1.2 36569 1b7lA 130 5.98e+00 3lzt d.2.1.2 36515 2c3vA 102 5.99e+00 1yksA 440 6.17e+00 1i56A 130 6.24e+00 d.2.1.2 66033 2fafA 608 6.35e+00 1b7oA 130 6.79e+00 3lzt d.2.1.2 36491 1qqyA 130 6.93e+00 3lzt d.2.1.2 36586 1bquA 215 7.02e+00 1bquA b.1.2.1,b.1.2.1 22066,22067 1jjgA 102 1.08e+01 b.40.4.5 71696 1tkeA 224 1.13e+01 1iscA 192 1.26e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1tp6A 128 1.28e+01 d.17.4.12 107184 1isaA 192 1.30e+01 1avmA a.2.11.1,d.44.1.1 15731,38724 1bmlC 362 1.33e+01 1bmlC d.15.5.1,d.15.5.1,d.15.5.1 37729,37730,37731 1o8uA 257 1.42e+01 c.14.1.3 81194 1ugjA 141 1.47e+01 b.41.1.3 107826 1mgrA 99 1.49e+01 d.1.1.2 79106 1n82A 331 1.55e+01 c.1.8.3 91703 1i3dA 146 1.60e+01 a.1.1.2 61587 2a25A 193 1.62e+01 1bj8 109 1.65e+01 1bquA b.1.2.1 22070 1szoA 257 1.65e+01 c.14.1.3 106164 1m7xA 617 1.68e+01 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 2dh4A 340 1.70e+01 1iiyA 101 1.86e+01 b.89.1.1 66152 1rpyA 114 1.88e+01 d.93.1.1 97718 1i7pA 274 1.96e+01 b.43.4.2,c.25.1.1 66048,66049 1vfrA 218 1.97e+01 1vfrA d.90.1.1 40247 1bkrA 109 2.04e+01 1bkrA a.40.1.1 17394 1pvuA 154 2.05e+01 3pviA c.52.1.6 33306 1byrA 155 2.10e+01 1byrA d.136.1.1 41450 1gxqA 106 2.15e+01 a.4.6.1 70721 1v30A 124 2.16e+01 1l9gA 192 2.23e+01 c.18.1.2 84568 1e5uI 187 2.32e+01 1f00I b.1.14.1,d.169.1.3 22372,42441 1yaxA 153 2.35e+01 1k2fA 190 2.35e+01 b.8.1.2 68054 1lwdA 413 2.37e+01 c.77.1.1 78265 1o7fA 469 2.49e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1bpv 112 2.50e+01 1bpv b.1.2.1 22071 1o7xD 377 2.54e+01 a.103.1.1 81174 3lriA 83 2.54e+01 1zeiA g.1.1.1 43995 1h6hA 143 2.55e+01 d.189.1.1 65681 1qqiA 104 2.57e+01 1opc a.4.6.1 16233 1jogA 146 2.58e+01 a.24.16.2 77142 2pviA 157 2.64e+01 3pviA c.52.1.6 33302 1o7xB 377 2.65e+01 a.103.1.1 81172 1xedA 117 2.66e+01 1zcxA 178 2.84e+01 1o7xC 377 2.84e+01 a.103.1.1 81173 1g8kA 825 3.05e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1w41A 101 3.17e+01 1bi5A 389 3.22e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1yqtA 538 3.26e+01 1aa2 108 3.46e+01 1bkrA a.40.1.1 17395 1g5aA 628 3.58e+01 b.71.1.1,c.1.8.1 65152,65153 1i86A 389 3.59e+01 c.95.1.2,c.95.1.2 66068,66069 1eyuA 157 3.59e+01 3pviA c.52.1.6 33304 2cfuA 658 3.67e+01 1qg0A 308 3.71e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1vjfA 180 3.75e+01 d.116.1.1 100809 1oz7A 131 3.81e+01 d.169.1.1 93806 1hbyA 123 3.92e+01 7rsa d.5.1.1 60936 1a9wE 146 3.93e+01 1cg5B a.1.1.2 15551 1k59A 123 3.95e+01 d.5.1.1 72073 1cch 82 3.97e+01 451c a.3.1.1 15902 1un3A 123 4.05e+01 d.5.1.1 99646 1mhnA 59 4.08e+01 b.34.9.1 84964 1zhvA 134 4.10e+01 2fa8A 105 4.17e+01 1a4yB 123 4.17e+01 7rsa d.5.1.1 37296 1ndh 272 4.29e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1gv3A 248 4.47e+01 a.2.11.1,d.44.1.1 70585,70586 1skoA 143 4.47e+01 d.110.7.1 105676 1xhcA 367 4.50e+01 1xewY 172 4.54e+01 1gyxA 76 4.61e+01 d.80.1.1 76387 1zy9A 564 4.69e+01 1b1eA 123 4.82e+01 7rsa d.5.1.1 37300 2dbnA 461 4.97e+01 1qhoA 686 4.99e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1g5vA 88 4.99e+01 1g5vA b.34.9.1 60292 1ttzA 87 5.04e+01 c.47.1.1 107309 1xoyA 161 5.08e+01 1u07A 90 5.10e+01 1izmA 184 5.15e+01 a.199.1.1 90725 1trlA 62 5.23e+01 1hyt j.78.1.1 18263 1b1iA 123 5.23e+01 7rsa d.5.1.1 37295 1q1lA 401 5.26e+01 d.258.1.1 95591 1vetA 124 5.28e+01 d.110.7.1 108553 1kutA 230 5.31e+01 d.143.1.1 73017 1jotA 133 5.33e+01 1jotA 1yuiA 54 5.39e+01 1yuiA g.37.1.1 45073 1vziA 126 5.47e+01 b.1.13.1,g.41.5.2 108967,108968 1l6nA 289 5.71e+01 a.61.1.1,a.73.1.1 73624,73625 1v0jA 399 5.80e+01 2cq8A 110 5.90e+01 1t3nA 388 5.97e+01 d.240.1.1,e.8.1.7 106363,106364 1hp8 68 6.05e+01 1hp8 a.17.1.1 16399 1cor 82 6.05e+01 451c a.3.1.1 15903 1b1jA 123 6.10e+01 7rsa d.5.1.1 37298 1ybiA 288 6.26e+01 1a15A 67 6.27e+01 1a15A d.9.1.1 37451 1uvqA 197 6.27e+01 b.1.1.2,d.19.1.1 100062,100063 1qgtA 149 6.29e+01 1qgtA a.62.1.1 18135 1xkiA 162 6.33e+01 1umkA 275 6.43e+01 1tyyA 339 6.58e+01 1hbg 147 6.85e+01 2hbg a.1.1.2 15015 1m07A 111 6.91e+01 d.5.1.1 78328 1z8uA 102 7.03e+01 1g8jA 825 7.10e+01 1g8jA b.52.2.2,c.81.1.1 26924,35332 1vhnA 318 7.11e+01 c.1.4.1 100693 1b72B 87 7.12e+01 1akhA a.4.1.1 16001 1fecA 490 7.27e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1dixA 208 7.31e+01 1bk7A d.124.1.1 41122 2hbg 147 7.32e+01 2hbg a.1.1.2 15014 1h3iA 293 7.34e+01 b.76.2.1,b.85.7.1 76635,76636 1iakA 199 7.45e+01 1iakA b.1.1.2,d.19.1.1 21625,38199 1vkiA 181 7.49e+01 d.116.1.1 108664 1j3bA 529 7.51e+01 c.91.1.1,c.109.1.1 77071,77072 1ihvA 52 7.61e+01 1ihvA b.34.7.1 24629 1ztcA 221 7.76e+01 3pviA 157 8.00e+01 3pviA c.52.1.6 33300 1bouA 139 8.05e+01 1bouA a.88.1.1 18521 1b4uA 139 8.13e+01 1bouA a.88.1.1 18523 1i88A 389 8.25e+01 c.95.1.2,c.95.1.2 66070,66071 1yx1A 264 8.30e+01 1zkdA 387 8.31e+01 2ciaA 102 8.40e+01 1oq9A 363 8.52e+01 a.25.1.2 87257 1hlb 158 8.56e+01 1hlb a.1.1.2 15625 1khbA 625 8.58e+01 c.91.1.1,c.109.1.1 68606,68607 1lrwA 600 8.66e+01 b.70.1.1 91111 1kyoG 126 8.81e+01 f.27.1.1 73259 1kb9G 125 8.89e+01 f.27.1.1 77322