# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 2cpl 165 7.80e-33 2cpl b.62.1.1 27420 1cwoA 165 7.80e-33 2cpl b.62.1.1 27445 1awqA 164 1.02e-32 2cpl b.62.1.1 27461 2bitX 165 1.10e-32 1awsA 164 1.18e-32 2cpl b.62.1.1 27431 1yndA 165 1.34e-32 1dywA 173 1.34e-32 2cpl b.62.1.1 27505 2rmcA 182 2.38e-32 2cpl b.62.1.1 27491 1a58 177 2.42e-32 2cpl b.62.1.1 27495 1ihgA 370 2.96e-32 2cpl a.118.8.1,b.62.1.1 62380,62381 1qoiA 177 3.71e-32 2cpl b.62.1.1 27490 1zcxA 178 7.39e-32 1xo7A 166 1.59e-31 2cfeA 162 1.90e-31 1vdnA 162 2.47e-31 1h0pA 182 6.97e-31 b.62.1.1 76450 2a2nA 176 1.24e-29 1zkcA 197 2.45e-29 1xwnA 174 1.44e-28 2fu0A 160 1.46e-28 2b71A 196 6.24e-28 1j2aA 166 4.45e-25 b.62.1.1 90779 1v9tA 166 2.46e-24 b.62.1.1 108451 1lopA 164 3.99e-24 2cpl b.62.1.1 27510 1clh 166 7.20e-24 2cpl b.62.1.1 27512 1mxiA 160 7.74e-02 c.116.1.1 79646 1zx8A 136 6.89e-01 1ezwA 349 3.27e+00 1ezwA c.1.16.3 29558 1vr0A 247 3.74e+00 1b77A 228 5.32e+00 1b77A d.131.1.2,d.131.1.2 41362,41363 1c0eA 157 7.35e+00 1dg9A c.44.1.1 32638 1qmpA 130 7.71e+00 1dz3A c.23.1.1 31106 1wloA 136 7.82e+00 1ffk1 177 8.63e+00 1ffk1 1wriA 93 9.67e+00 1oa4A 222 9.80e+00 b.29.1.11 86731 1ciy 590 9.88e+00 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1gc1H 229 1.06e+01 1gc1H b.1.1.1,b.1.1.2 20265,21265 1lq9A 112 1.06e+01 d.58.4.3 78129 1rx0A 393 1.16e+01 a.29.3.1,e.6.1.1 98007,98008 1dz3A 130 1.26e+01 1dz3A c.23.1.1 31105 1iw2A 182 1.35e+01 b.60.1.1 71468 1ewnA 219 1.36e+01 1bnkA b.46.1.2 25762 1lf7A 182 1.36e+01 b.60.1.1 73878 1bqcA 302 1.38e+01 1bqcA c.1.8.3 28831 1wggA 96 1.50e+01 1w2xA 758 1.51e+01 c.14.1.4,c.14.1.4 109134,109135 1phr 157 1.60e+01 1dg9A c.44.1.1 32635 1barA 140 1.65e+01 1bfg b.42.1.1 25504 2atpB 115 1.97e+01 1dg9A 157 2.03e+01 1dg9A c.44.1.1 32637 1vqvA 306 2.04e+01 1gm6A 175 2.05e+01 b.60.1.1 70272 1y21A 282 2.08e+01 1m8uA 173 2.13e+01 b.11.1.1,b.11.1.1 91233,91234 1b2iA 83 2.24e+01 5hpgA g.14.1.1 44640 1s8nA 205 2.25e+01 c.23.1.1 105374 1o91A 178 2.25e+01 b.22.1.1 92656 1a45 173 2.36e+01 1amm b.11.1.1,b.11.1.1 23602,23603 2gk3A 256 2.44e+01 1jj2E 177 2.45e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1r4wA 226 2.47e+01 c.47.1.13 97050 1si6X 282 2.48e+01 1bvh 157 2.48e+01 1dg9A c.44.1.1 32640 1x9uA 116 2.51e+01 1a70 97 2.52e+01 1awd d.15.4.1 37678 1fjgE 162 2.56e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1gggA 226 2.61e+01 1lst c.94.1.1 35817 1oaoC 729 2.65e+01 e.26.1.3 86746 1j5eE 161 2.66e+01 d.14.1.1,d.50.1.2 71547,71548 1fnhA 271 2.71e+01 1fnhA b.1.2.1,b.1.2.1,b.1.2.1 21976,21977,21978 1afcA 140 2.80e+01 1bfg b.42.1.1 25506 1f6oA 219 2.84e+01 1bnkA b.46.1.2 25763 1vfjA 116 2.84e+01 1eqjA 511 2.90e+01 1ejjA c.105.1.1,c.76.1.3 59495,59496 2b8mA 117 2.91e+01 1xwwA 157 2.92e+01 1ntfA 282 2.99e+01 d.151.1.2 92104 1agx 331 3.01e+01 4pgaA c.88.1.1 35564 1kv9A 668 3.09e+01 a.3.1.6,b.70.1.1 73056,73057 1gggB 226 3.12e+01 1lst c.94.1.1 35818 1a8s 273 3.22e+01 1brt c.69.1.12 34710 1wdnA 226 3.24e+01 1lst c.94.1.1 35816 1o7iA 119 3.27e+01 b.40.4.3 86642 2gaxA 135 3.31e+01 1fxiA 96 3.33e+01 1awd d.15.4.1 37664 1yzxA 226 3.37e+01 1sglA 209 3.42e+01 d.124.1.1 105536 1ve4A 206 3.48e+01 1mdbA 539 3.55e+01 e.23.1.1 79008 1vqoE 178 3.57e+01 1f0iA 504 3.60e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1eysH 259 3.67e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 1ejjA 511 3.69e+01 1ejjA c.105.1.1,c.76.1.3 59422,59423 2fimA 276 3.74e+01 1v0wA 506 3.88e+01 d.136.1.2,d.136.1.2 108220,108221 2pii 112 4.01e+01 2pii d.58.5.1 39071 1prq 125 4.04e+01 3nul d.110.1.1 40883 1qvbA 481 4.05e+01 1qvbA c.1.8.4 28983 1befA 181 4.05e+01 1befA b.47.1.3 26419 1z7mA 344 4.15e+01 1zoxA 113 4.16e+01 1mjgM 729 4.16e+01 e.26.1.3 79204 1jzuA 157 4.24e+01 b.60.1.1 84271 1ul7A 102 4.28e+01 d.129.6.1 99540 1ystH 260 4.31e+01 6prcH b.41.1.1,f.23.10.1 25482,43511 1s72E 178 4.33e+01 d.141.1.1,d.141.1.1 105323,105324 1o04A 500 4.54e+01 c.82.1.1 86508 1a04A 215 4.58e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1fa0B 537 4.63e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39336,75839,75840 1jer 138 4.67e+01 2cbp b.6.1.1 23022 2b4wA 315 4.68e+01 2kfnA 605 4.74e+01 1xwl c.55.3.5,e.8.1.1 33682,42975 1sq2N 113 4.77e+01 b.1.1.1 105881 1pa2A 306 4.79e+01 1bgp a.93.1.1 18693 2ex4A 241 4.89e+01 1vj0A 380 4.91e+01 b.35.1.2,c.2.1.1 100786,100787 1uroA 367 5.08e+01 1uroA c.1.22.1 29675 1u0sY 118 5.09e+01 c.23.1.1 107566 1acf 125 5.10e+01 3nul d.110.1.1 40882 1gthB 1025 5.17e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70488,70489,70490,70491,70492 1gthD 1025 5.18e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70498,70499,70500,70501,70502 2bm3A 166 5.18e+01 1jj2D 176 5.19e+01 1ffkD d.77.1.1 63088 1iatA 557 5.25e+01 1dqrA c.80.1.2 62123 1kfd 605 5.31e+01 1xwl c.55.3.5,e.8.1.1 33694,42987 1tmy 120 5.37e+01 1dbwA c.23.1.1 31083 1rypK 198 5.38e+01 d.153.1.4 41879 1rom 403 5.47e+01 1rom a.104.1.1 18963 1gt8A 1025 5.55e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70418,70419,70420,70421,70422 1gt8D 1025 5.65e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70433,70434,70435,70436,70437 1sffA 426 5.67e+01 c.67.1.4 105482 1qwgA 251 5.80e+01 c.1.27.1 96473 1r3sA 367 5.84e+01 c.1.22.1 96963 1d8yA 605 5.85e+01 1xwl c.55.3.5,e.8.1.1 33684,42977 1a7fB 29 5.88e+01 g.1.1.1 43943 2gvkA 317 5.95e+01 1i69A 219 5.99e+01 c.94.1.1 61825 1gowA 489 6.05e+01 1qvbA c.1.8.4 28981 1klnA 605 6.16e+01 1xwl c.55.3.5,e.8.1.1 33693,42986 1sqkB 25 6.16e+01 j.86.1.1 105924 2c5uA 375 6.27e+01 1gthC 1025 6.39e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70493,70494,70495,70496,70497 1gt8B 1025 6.46e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70423,70424,70425,70426,70427 1xiwA 105 6.55e+01 3monB 50 6.59e+01 1molA d.17.1.1 37992 1gthA 1025 6.70e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70483,70484,70485,70486,70487 1uumA 372 6.80e+01 c.1.4.1 100010 1pn0A 665 6.87e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1q5fA 156 6.90e+01 d.24.1.1 104536 1eesA 178 6.91e+01 1eesA c.37.1.8 32073 2gclA 261 6.98e+01 3sil 379 6.99e+01 3sil b.68.1.1 27542 2bh9A 489 7.07e+01 1gt8C 1025 7.09e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70428,70429,70430,70431,70432 2fjlA 150 7.15e+01 1z02A 446 7.15e+01 1bf8 205 7.38e+01 1qpxA b.1.11.1,b.7.2.1 22332,23214 1gteA 1025 7.44e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1o98A 511 7.51e+01 c.105.1.1,c.76.1.3 86684,86685 1h7wA 1025 7.55e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1qupA 222 7.55e+01 1qupA b.1.8.1,d.58.17.1 22301,39352 1h7wD 1025 7.57e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15686,28631,30327,30612,39010 1a5dA 173 7.67e+01 1amm b.11.1.1,b.11.1.1 23614,23615 1aps 98 7.69e+01 2acy d.58.10.1 39299 1k1xA 659 7.85e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1aogA 485 7.87e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 1b1cA 181 7.95e+01 1amoA c.23.5.2 31212 1zoiA 276 7.97e+01 1hm5A 558 7.99e+01 c.80.1.2 76717 1xvxA 312 7.99e+01 2sil 381 8.01e+01 3sil b.68.1.1 27543 1bv8A 138 8.08e+01 1ayoA b.2.4.1 22430 1p63A 144 8.16e+01 b.42.1.1 94153 1amoA 615 8.32e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 25669,31210,31557 2cy7A 396 8.43e+01 1uyrA 737 8.51e+01 c.14.1.4,c.14.1.4 100188,100189 1jqzA 146 8.54e+01 b.42.1.1 67109 1t94A 459 8.65e+01 d.240.1.1,e.8.1.7 106701,106702 2napA 723 8.65e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1npdA 288 8.68e+01 c.2.1.7,c.58.1.5 80681,80682 1j71A 334 8.68e+01 1eagA b.50.1.2 62669 1dqrA 557 8.71e+01 1dqrA c.80.1.2 35305 1k87A 669 8.75e+01 a.176.1.1,c.1.23.2 77286,77287 2ar9A 278 8.75e+01 1gteD 1025 8.81e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70455,70456,70457,70458,70459 1i6aA 219 8.84e+01 c.94.1.1 61827 2aaiB 262 8.95e+01 1abrB b.42.2.1,b.42.2.1 25561,25562 1oalA 151 8.97e+01 b.1.8.1 86739 1pbyA 489 9.00e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421