# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1cll 148 1.24e-01 1cll a.39.1.5 17263 1exrA 148 1.87e-01 1cll a.39.1.5 17299 1osa 148 2.42e-01 1cll a.39.1.5 17300 3cln 148 2.45e-01 1cll a.39.1.5 17286 1ggzA 148 3.23e-01 a.39.1.5 70176 1le4 144 5.30e-01 1nfn a.24.1.1 16528 1gs9A 165 5.40e-01 a.24.1.1 83313 1jy2O 56 8.65e-01 h.1.8.1 67441 2b20A 403 1.00e+00 1a93A 34 1.03e+00 1a93A h.1.3.1 45543 1xqaA 113 1.14e+00 1q2hA 69 1.52e+00 a.34.4.1 104498 1ahr 146 1.53e+00 1cll a.39.1.5 17287 1yirA 408 1.57e+00 1bz4A 144 1.60e+00 1nfn a.24.1.1 16521 1b68A 191 1.83e+00 1nfn a.24.1.1 59076 1xawA 140 1.91e+00 1ufiA 64 2.07e+00 a.30.4.1 99336 2ahqA 76 2.28e+00 1xzzA 246 2.35e+00 1wr2A 238 2.48e+00 1jy3O 56 2.54e+00 h.1.8.1 67447 1gd8A 118 2.98e+00 d.188.1.1 60445 1vq0A 302 3.05e+00 1o7fA 469 3.23e+00 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1g9uA 454 3.30e+00 c.10.2.6 65172 1or3A 165 3.66e+00 1nfn a.24.1.1 16522 1zbtA 371 3.71e+00 1rqlA 267 4.22e+00 c.108.1.3 97750 1uruA 244 4.25e+00 h.4.14.1 99835 1hynP 379 4.82e+00 1hynP d.112.1.2 61408 1z5yE 149 4.83e+00 2f3yA 148 4.88e+00 1rdfA 267 5.36e+00 c.108.1.3 104884 1nkpA 88 5.40e+00 a.38.1.1 80573 1lpe 144 5.46e+00 1nfn a.24.1.1 16524 1jl5A 454 5.69e+00 c.10.2.6 66830 1swvA 267 5.73e+00 1paqA 189 7.10e+00 a.118.1.14 94413 1fezA 256 7.29e+00 1fezA c.108.1.3 43343 1qghA 156 7.31e+00 1qghA a.25.1.1 16728 1w6sB 74 7.92e+00 1p9iA 31 8.43e+00 h.1.10.1 94390 2fp1A 166 9.43e+00 2f6lA 166 9.46e+00 1nknA 89 9.51e+00 h.1.26.1 85825 2ftuA 118 1.00e+01 2fi9A 128 1.01e+01 2spcA 107 1.02e+01 2spcA a.7.1.1 16311 1tn4 159 1.03e+01 1ncx a.39.1.5 17248 1j2jB 45 1.12e+01 a.7.8.1 84017 1wpaA 114 1.15e+01 2fcwA 109 1.16e+01 1zg2A 107 1.22e+01 3bdpA 580 1.23e+01 1xwl c.55.3.5,e.8.1.1 33711,43004 1nh2D 121 1.25e+01 a.32.1.1,b.56.1.1 91876,91877 1p4kA 295 1.36e+01 d.153.1.5 87772 1twuA 139 1.36e+01 d.32.1.8 107413 1m12A 84 1.38e+01 a.64.1.1 84745 1gd2I 70 1.40e+01 1gd2I h.1.3.1 45532 1g4yR 148 1.41e+01 1cll a.39.1.5 60252 1avsA 90 1.41e+01 1cll a.39.1.5 17226 1pl5A 142 1.43e+01 h.1.23.1 104186 1u4bA 580 1.44e+01 c.55.3.5,e.8.1.1 107664,107665 1pq4A 291 1.50e+01 c.92.2.2 94995 1rz2A 254 1.59e+01 b.100.1.1 105130 1zoyC 140 1.66e+01 1nk4A 580 1.67e+01 c.55.3.5,e.8.1.1 91923,91924 1l3sA 580 1.67e+01 c.55.3.5,e.8.1.1 84521,84522 2g0uA 92 1.68e+01 1ujwB 135 1.80e+01 h.4.9.1 99472 1xi7A 61 1.83e+01 2bdpA 580 1.84e+01 1xwl c.55.3.5,e.8.1.1 33709,43002 1xwl 580 1.89e+01 1xwl c.55.3.5,e.8.1.1 33708,43001 1nfn 191 1.89e+01 1nfn a.24.1.1 16523 1l8dA 112 1.95e+01 h.4.12.1 73687 1lj2A 110 2.00e+01 h.1.13.2 73926 2fjlA 150 2.07e+01 1b97A 244 2.11e+01 1rvaA c.52.1.2 33252 1ylmA 144 2.12e+01 1sep 261 2.15e+01 1oaa c.2.1.2 29830 1quuA 250 2.20e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1tjlA 151 2.30e+01 a.2.14.1,g.39.1.13 107027,107028 1a2xA 159 2.33e+01 1ncx a.39.1.5 17251 2abwA 227 2.35e+01 1ncx 162 2.36e+01 1ncx a.39.1.5 17222 1ni5A 433 2.41e+01 c.26.2.5,d.229.1.1 80533,80534 1qysA 106 2.47e+01 k.41.1.1 96603 1llmC 88 2.48e+01 g.37.1.1,g.37.1.1 91059,91060 1ak8 76 2.50e+01 1cll a.39.1.5 17281 1kq4A 232 2.54e+01 d.207.1.1 68791 1xfxO 149 2.55e+01 1p1cA 199 2.57e+01 c.66.1.16 87669 1nyhA 166 2.65e+01 h.1.23.1 86403 1q59A 172 2.67e+01 f.1.4.1 95881 1a8y 367 2.69e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1f1sA 814 2.70e+01 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 1nw8A 319 2.71e+01 c.66.1.11 86292 1vzlA 34 2.71e+01 1mjhB 162 2.75e+01 1mjhA c.26.2.4 31640 1tvlA 454 2.77e+01 c.1.16.4 107366 1or7C 90 2.85e+01 a.180.1.1 87336 1xclA 235 2.87e+01 1rypA 243 2.90e+01 1pmaA d.153.1.4 41932 1rot 149 2.92e+01 1fkj d.26.1.1 38429 1x6iA 91 2.92e+01 1kvdB 77 2.92e+01 1kveB 1b94A 244 2.95e+01 1rvaA c.52.1.2 33250 1zac 90 2.98e+01 1ncx a.39.1.5 17236 1g0uG 252 3.09e+01 d.153.1.4 41952 1rvaA 244 3.09e+01 1rvaA c.52.1.2 33240 1eg2A 319 3.18e+01 1eg2A c.66.1.11 34249 1sxjE 354 3.20e+01 a.80.1.1,c.37.1.20 106089,106090 1dd5A 185 3.28e+01 1dd5A d.67.3.1 39564 2cfaA 217 3.30e+01 1u69A 163 3.36e+01 d.32.1.7 107699 1u5uA 374 3.37e+01 1wqgA 185 3.45e+01 1xfdA 723 3.46e+01 1aew 174 3.54e+01 2fha a.25.1.1 16676 1ayyA 151 3.56e+01 1apyA d.153.1.5 42016 1mvwB 145 3.67e+01 i.15.1.1 79524 1b96A 244 3.75e+01 1rvaA c.52.1.2 33268 1uiiA 83 3.83e+01 h.1.28.1 107864 1yx1A 264 3.92e+01 1kveB 77 3.96e+01 1kveB 1ae1A 273 3.98e+01 1bdb c.2.1.2 29943 1ytfD 121 3.99e+01 1ytfD a.32.1.1,b.56.1.1 16998,27011 1t6fA 37 4.02e+01 h.1.28.1 106565 1ei7A 158 4.05e+01 1rmvA a.24.5.1 16584 1khhA 198 4.05e+01 c.66.1.16 68615 1f7tA 122 4.09e+01 1f7lA d.150.1.2 59667 1e7tA 59 4.11e+01 1ce9A 34 4.14e+01 1ce9C h.1.3.1 45483 1top 162 4.15e+01 1ncx a.39.1.5 17223 2ztaA 34 4.16e+01 2ztaA h.1.3.1 45474 1irl 133 4.19e+01 3inkC a.26.1.2 16883 1q1vA 70 4.23e+01 a.159.4.1 104479 1nkpB 83 4.26e+01 a.38.1.1 80574 1cii 602 4.28e+01 1cii f.1.1.1,h.4.3.1 43381,45787 1bmdA 327 4.42e+01 1bmdA c.2.1.5,d.162.1.1 30139,42106 1dat 174 4.44e+01 2fha a.25.1.1 16677 1f7lA 121 4.44e+01 1f7lA d.150.1.2 59666 1parA 53 4.54e+01 1bazA a.43.1.1 17437 1xg8A 111 4.54e+01 2b1fA 34 4.54e+01 1urfA 81 4.61e+01 a.2.6.1 99827 1jigA 146 4.61e+01 a.25.1.1 71685 1bdtA 53 4.62e+01 1bazA a.43.1.1 17433 1fgyA 127 4.62e+01 1faoA b.55.1.1 26976 1p6oA 161 4.67e+01 c.97.1.2 94185 1q0vA 81 4.69e+01 j.105.1.1 95514 1q5yA 85 4.70e+01 d.58.18.4 95950 1uaqA 158 4.71e+01 c.97.1.2 88386 2cwoA 197 4.81e+01 1lrzA 426 4.83e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1div 149 4.86e+01 1div d.99.1.1,d.100.1.1 40692,40693 1qorA 327 4.95e+01 1qorA b.35.1.2,c.2.1.1 24766,29782 1eonA 245 4.97e+01 1rvaA c.52.1.2 33238 1qk9A 92 5.01e+01 1qk9A d.10.1.3 37485 1a92A 50 5.04e+01 1a92A h.4.6.1 45791 2a61A 145 5.06e+01 1bssA 244 5.12e+01 1rvaA c.52.1.2 33256 1preB 470 5.15e+01 1preA d.169.1.2,f.8.1.1 42438,43825 1t6cA 315 5.18e+01 c.55.1.8,c.55.1.8 106558,106559 1oaa 259 5.19e+01 1oaa c.2.1.2 29829 1mknA 59 5.20e+01 1mknA g.5.1.1 44383 1sx5A 244 5.22e+01 c.52.1.2 99023 1kr4A 125 5.22e+01 d.58.5.2 72889 1vf6A 83 5.25e+01 a.194.1.1 100600 1a6zA 275 5.25e+01 1agdA b.1.1.2,d.19.1.1 20781,38280 1vpqA 273 5.39e+01 1ik7A 108 5.54e+01 a.77.1.2 71241 1z8uA 102 5.57e+01 1w0bA 102 5.61e+01 a.7.11.1 108985 1ce9C 34 5.69e+01 1ce9C h.1.3.1 45485 2eboA 74 5.69e+01 2eboA h.3.2.1 45754 1wp8A 89 5.70e+01 1o26A 232 5.76e+01 d.207.1.1 86566 1y0vH 146 5.83e+01 1epbA 164 5.97e+01 1epaA b.60.1.1 27126 2bm8A 236 6.06e+01 1tzpA 255 6.07e+01 d.65.1.3 107520 2bj7A 138 6.09e+01 1gqwA 283 6.11e+01 b.82.2.5 70377 1y7tA 327 6.26e+01 1lhpA 312 6.34e+01 c.72.1.5 77960 2bniA 34 6.40e+01 1ni9A 338 6.42e+01 e.7.1.2 85739 1k1fA 72 6.44e+01 a.147.1.1 68007 1q7hA 153 6.45e+01 b.122.1.1,d.17.6.2 96042,96043 1rr7A 129 6.53e+01 a.4.1.14 105075 1sesA 421 6.54e+01 1sesA a.2.7.1,d.104.1.1 15710,40710 4bcl 366 6.59e+01 4bcl b.75.1.1 27968 1g4wR 383 6.59e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1bdmB 327 6.59e+01 1bmdA c.2.1.5,d.162.1.1 30138,42105 1fxkC 133 6.67e+01 1fxkC a.2.5.1 15702 3proC 166 6.79e+01 3proC d.52.1.1,d.52.1.1 38812,38813 2bskB 90 6.81e+01 1rp0A 284 6.90e+01 1jmsA 381 6.92e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1s0yB 71 7.01e+01 d.80.1.1 98315 1kmiZ 214 7.02e+01 h.4.11.1 72752 2fmlA 273 7.05e+01 2aorA 223 7.10e+01 9gafA 295 7.12e+01 1apyA d.153.1.5 42008 1ydhA 216 7.16e+01 2c5kT 95 7.19e+01 1fseA 74 7.22e+01 1fseA a.4.6.2 60000 1kjkA 64 7.29e+01 d.10.1.4 72613 1d5yA 292 7.32e+01 1d5yA a.4.1.8,a.4.1.8,d.60.1.2 16055,16056,39532 1txqB 86 7.32e+01 1hfoA 113 7.35e+01 d.80.1.3 61006 1gcmA 34 7.38e+01 1ce0A h.1.3.1 45476 1z52A 470 7.39e+01 1ykhA 108 7.45e+01 2occE 109 7.51e+01 2occE a.118.11.1 19224 1fmhA 33 7.56e+01 1fmhB k.6.1.1 46409 1v54E 109 7.59e+01 a.118.11.1 100326 1taq 832 7.67e+01 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18082,33352,33698,42991 1fzqA 181 7.75e+01 1hurA c.37.1.8 32060 1zljA 78 7.79e+01 2fua 215 7.88e+01 2fua c.74.1.1 34977 1qqgA 264 7.88e+01 1qqgA b.55.1.2,b.55.1.2 26987,26988 2rveA 244 8.06e+01 1rvaA c.52.1.2 33283 1une 123 8.15e+01 1poa a.133.1.2 19583 1zxoA 291 8.16e+01 1qjaA 245 8.22e+01 1qjaA a.118.7.1 19204 1ni4B 341 8.27e+01 c.36.1.7,c.48.1.2 85729,85730 1aw9 216 8.28e+01 1gnwA a.45.1.1,c.47.1.5 17736,33030 1n69A 81 8.29e+01 a.64.1.3 80118 1rcd 173 8.30e+01 2fha a.25.1.1 16687 1g5gB 481 8.31e+01 f.12.1.1,h.3.2.1 65157,65158 2fa8A 105 8.32e+01 1txjA 171 8.33e+01 b.88.1.2 107424 1g4iA 123 8.34e+01 1poa a.133.1.2 60241 1nxiA 132 8.36e+01 d.58.47.1 86381 1mykA 53 8.38e+01 1bazA a.43.1.1 17425 1mku 123 8.52e+01 1poa a.133.1.2 19590 1o97C 264 8.53e+01 c.26.2.3 81232 1jdc 429 8.59e+01 1jdc b.71.1.1,c.1.8.1 27789,28776 1o7xC 377 8.73e+01 a.103.1.1 81173 1o7xB 377 8.74e+01 a.103.1.1 81172 1unkA 87 8.74e+01 1cei a.28.2.1 16935 1ixmA 192 8.75e+01 1ixmA d.123.1.1 41114 1nfa 178 8.82e+01 1a02N b.2.5.3 22442 2ba2A 85 8.84e+01 1w1nA 33 8.88e+01 1wmhA 89 8.95e+01