# 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 1.46e-01 1ffyA 917 1.88e-01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1qu2A 917 1.88e-01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16925,26890,31592 1qx4A 274 7.79e-01 b.43.4.2,c.25.1.1 104624,104625 1rgeA 96 8.40e-01 1rgeA d.1.1.2 36028 1gmpA 96 8.49e-01 1rgeA d.1.1.2 36036 1i8vA 96 8.65e-01 d.1.1.2 61985 1lniA 96 9.43e-01 d.1.1.2 74046 1omrA 201 1.54e+00 a.39.1.5 93349 1rec 201 1.56e+00 1rec a.39.1.5 17326 134l 130 1.96e+00 3lzt d.2.1.2 36505 1ui0A 205 2.02e+00 c.18.1.2 99411 2c3vA 102 2.12e+00 1ebdA 455 2.63e+00 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1tkeA 224 3.35e+00 133l 130 3.54e+00 3lzt d.2.1.2 36524 1b7s 130 3.57e+00 3lzt d.2.1.2 36571 1b7rA 130 3.62e+00 3lzt d.2.1.2 36436 1lz1 130 3.74e+00 3lzt d.2.1.2 36415 1jsf 130 3.77e+00 3lzt d.2.1.2 36410 1b7pA 130 3.94e+00 3lzt d.2.1.2 36551 1b5vA 130 3.94e+00 3lzt d.2.1.2 36563 1lmt 136 3.97e+00 3lzt d.2.1.2 36416 1yksA 440 3.97e+00 1tqzA 133 4.05e+00 1b5wA 130 4.16e+00 3lzt d.2.1.2 36557 1b5uA 130 4.18e+00 3lzt d.2.1.2 36453 1b5zA 130 4.25e+00 3lzt d.2.1.2 36567 1qqyA 130 4.27e+00 3lzt d.2.1.2 36586 1b7qA 130 4.28e+00 3lzt d.2.1.2 36549 1o8uA 257 4.54e+00 c.14.1.3 81194 1b5xA 130 4.73e+00 3lzt d.2.1.2 36550 2fafA 608 4.73e+00 1i56A 130 4.81e+00 d.2.1.2 66033 1b5yA 130 4.92e+00 3lzt d.2.1.2 36570 1b7nA 130 4.98e+00 3lzt d.2.1.2 36468 1bb3A 130 5.03e+00 3lzt d.2.1.2 36544 1b7mA 130 5.05e+00 3lzt d.2.1.2 36569 1szoA 257 5.16e+00 c.14.1.3 106164 1b7lA 130 5.24e+00 3lzt d.2.1.2 36515 1wgoA 123 5.25e+00 1b7oA 130 5.83e+00 3lzt d.2.1.2 36491 1dk8A 147 6.98e+00 1agrE a.91.1.1 18548 1b24A 188 7.55e+00 1b24A d.95.2.1,d.95.2.1 40573,40574 1iscA 192 8.13e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 1isaA 192 8.28e+00 1avmA a.2.11.1,d.44.1.1 15731,38724 1bquA 215 8.35e+00 1bquA b.1.2.1,b.1.2.1 22066,22067 1tp6A 128 8.48e+00 d.17.4.12 107184 1ugjA 141 8.87e+00 b.41.1.3 107826 1l9gA 192 9.96e+00 c.18.1.2 84568 2a25A 193 1.03e+01 1e5uI 187 1.05e+01 1f00I b.1.14.1,d.169.1.3 22372,42441 1iiyA 101 1.07e+01 b.89.1.1 66152 1mgrA 99 1.16e+01 d.1.1.2 79106 1n82A 331 1.16e+01 c.1.8.3 91703 1m7xA 617 1.16e+01 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1lwdA 413 1.24e+01 c.77.1.1 78265 1jogA 146 1.25e+01 a.24.16.2 77142 1i7pA 274 1.49e+01 b.43.4.2,c.25.1.1 66048,66049 1i3dA 146 1.52e+01 a.1.1.2 61587 1h6hA 143 1.60e+01 d.189.1.1 65681 1bj8 109 1.62e+01 1bquA b.1.2.1 22070 1k2fA 190 1.69e+01 b.8.1.2 68054 1d4oA 184 1.73e+01 1d4oA c.31.1.4 31748 3lriA 83 1.73e+01 1zeiA g.1.1.1 43995 1bpv 112 1.80e+01 1bpv b.1.2.1 22071 1yaxA 153 1.81e+01 2dh4A 340 1.92e+01 1vfrA 218 2.18e+01 1vfrA d.90.1.1 40247 1g8kA 825 2.21e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1o7fA 469 2.38e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1bmlC 362 2.42e+01 1bmlC d.15.5.1,d.15.5.1,d.15.5.1 37729,37730,37731 1g5aA 628 2.51e+01 b.71.1.1,c.1.8.1 65152,65153 1t3nA 388 2.58e+01 d.240.1.1,e.8.1.7 106363,106364 1gv3A 248 2.68e+01 a.2.11.1,d.44.1.1 70585,70586 1zcxA 178 2.76e+01 1qqiA 104 2.88e+01 1opc a.4.6.1 16233 1gxqA 106 2.88e+01 a.4.6.1 70721 1w41A 101 2.90e+01 1vkiA 181 2.94e+01 d.116.1.1 108664 1pvuA 154 3.06e+01 3pviA c.52.1.6 33306 1vziA 126 3.14e+01 b.1.13.1,g.41.5.2 108967,108968 1rpyA 114 3.20e+01 d.93.1.1 97718 1o7xB 377 3.29e+01 a.103.1.1 81172 1o7xD 377 3.34e+01 a.103.1.1 81174 1xhcA 367 3.35e+01 1k59A 123 3.36e+01 d.5.1.1 72073 1hbyA 123 3.38e+01 7rsa d.5.1.1 60936 1cch 82 3.47e+01 451c a.3.1.1 15902 1vhnA 318 3.57e+01 c.1.4.1 100693 2cfuA 658 3.65e+01 1qhoA 686 3.70e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1a4yB 123 3.74e+01 7rsa d.5.1.1 37296 1o7xC 377 3.75e+01 a.103.1.1 81173 2pviA 157 3.80e+01 3pviA c.52.1.6 33302 1b1eA 123 3.85e+01 7rsa d.5.1.1 37300 1zy9A 564 3.89e+01 1bkrA 109 4.03e+01 1bkrA a.40.1.1 17394 1byrA 155 4.15e+01 1byrA d.136.1.1 41450 1un3A 123 4.26e+01 d.5.1.1 99646 1b1iA 123 4.31e+01 7rsa d.5.1.1 37295 1oz7A 131 4.39e+01 d.169.1.1 93806 1qg0A 308 4.42e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1ndh 272 4.46e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 2fa8A 105 4.54e+01 2cq8A 110 4.55e+01 1ttzA 87 4.58e+01 c.47.1.1 107309 1z7bA 358 4.61e+01 1qf6A 642 4.64e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 1xewY 172 4.65e+01 1tyyA 339 4.67e+01 1hp8 68 4.71e+01 1hp8 a.17.1.1 16399 1khbA 625 4.75e+01 c.91.1.1,c.109.1.1 68606,68607 1yqtA 538 4.75e+01 1cor 82 4.82e+01 451c a.3.1.1 15903 1zkdA 387 4.92e+01 1mhnA 59 4.94e+01 b.34.9.1 84964 1b1jA 123 4.96e+01 7rsa d.5.1.1 37298 1eyuA 157 4.98e+01 3pviA c.52.1.6 33304 1zetA 388 5.07e+01 1trlA 62 5.17e+01 1hyt j.78.1.1 18263 2nmbA 160 5.17e+01 2nmbA b.55.1.2 26994 1u07A 90 5.19e+01 1vjfA 180 5.27e+01 d.116.1.1 100809 1xkiA 162 5.36e+01 1qq2A 199 5.44e+01 1qq2A c.47.1.10 33064 1bi5A 389 5.46e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1umkA 275 5.58e+01 1g8jA 825 5.58e+01 1g8jA b.52.2.2,c.81.1.1 26924,35332 1m9sA 605 5.66e+01 b.1.18.15,b.34.11.1,b.34.11.1,b.34.11.1,c.10.2.1 78874,78875,78876,78877,78878 1ybiA 288 5.91e+01 2dbnA 461 5.99e+01 1b4uA 139 6.00e+01 1bouA a.88.1.1 18523 1bouA 139 6.01e+01 1bouA a.88.1.1 18521 1ur1A 378 6.03e+01 c.1.8.3 99804 1jotA 133 6.05e+01 1jotA 1gyxA 76 6.05e+01 d.80.1.1 76387 1dcjA 81 6.07e+01 1dcjA d.68.3.3 59115 1n1bA 549 6.08e+01 a.102.4.1,a.128.1.3 79799,79800 1vqoL 165 6.16e+01 1m07A 111 6.20e+01 d.5.1.1 78328 1jjgA 102 6.31e+01 b.40.4.5 71696 1w4xA 542 6.34e+01 c.3.1.5,c.3.1.5 109171,109172 1lktA 104 6.35e+01 1lktA b.90.1.1 28398 1ne8A 117 6.37e+01 b.34.6.2 80424 2hp8 68 6.38e+01 1hp8 a.17.1.1 16398 1z8uA 102 6.44e+01 1g5vA 88 6.46e+01 1g5vA b.34.9.1 60292 1rw2A 152 6.50e+01 a.118.19.1 97961 2bllA 345 6.54e+01 1cqyA 99 6.58e+01 1b9zA b.3.1.1 22527 2alzA 390 6.63e+01 1miwA 404 6.72e+01 a.173.1.1,d.218.1.4 79162,79163 1qmvA 197 6.75e+01 1qq2A c.47.1.10 33066 7catA 506 6.77e+01 1cf9A e.5.1.1 42781 1v0jA 399 6.83e+01 1ttwA 138 7.00e+01 d.198.1.1 107308 1lrwA 600 7.03e+01 b.70.1.1 91111 1aa2 108 7.18e+01 1bkrA a.40.1.1 17395 1uvqA 197 7.19e+01 b.1.1.2,d.19.1.1 100062,100063 1ddmA 135 7.34e+01 2nmbA b.55.1.2 26993 1pk6B 132 7.38e+01 b.22.1.1 94802 1i86A 389 7.39e+01 c.95.1.2,c.95.1.2 66068,66069 1ri9A 102 7.39e+01 b.34.2.1 97506 2ciaA 102 7.40e+01 1vr8A 142 7.40e+01 1v74A 107 7.41e+01 d.243.1.1 100442 1dvoA 152 7.59e+01 1dvoA a.136.1.1 19623 1bt3A 345 7.63e+01 1bt3A a.86.1.2 18507 1dixA 208 7.66e+01 1bk7A d.124.1.1 41122 1xt9A 212 7.81e+01 1bxwA 172 7.84e+01 1bxwA f.4.1.1 43743 1hlb 158 7.93e+01 1hlb a.1.1.2 15625 1ztcA 221 7.97e+01 1hbg 147 8.00e+01 2hbg a.1.1.2 15015 1cdq 77 8.09e+01 1cds g.7.1.3 44459 1a9wE 146 8.18e+01 1cg5B a.1.1.2 15551 1xoyA 161 8.22e+01 1xtmA 175 8.27e+01 2a0mA 316 8.54e+01 1w9aA 147 8.55e+01 1ihvA 52 8.57e+01 1ihvA b.34.7.1 24629 1p6oA 161 8.62e+01 c.97.1.2 94185 1kyoG 126 8.63e+01 f.27.1.1 73259 1ffkJ 164 8.69e+01 1ffkJ c.12.1.1 30880 1fecA 490 8.84e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1obpA 159 8.84e+01 1obpA b.60.1.1 27092