# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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.soe.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 2ny1B 184 1.10e-01 b.1.1.1,b.1.1.3 138764,138765 1dlcA 584 2.07e-01 b.18.1.3,b.77.2.1,f.1.3.1 23719,27976,43391 3cbnA 151 2.20e-01 1cdy 178 6.60e-01 1cdy 2rmpA 361 3.06e+00 2rmpA b.50.1.2 26825 1um5H 217 4.36e+00 b.1.1.1,b.1.1.2 113302,113303 1d2eA 397 5.22e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 2i24N 121 6.89e+00 1uj6A 227 7.20e+00 c.124.1.4,d.58.40.1 107898,107899 1b88A 114 7.36e+00 1tcrA b.1.1.1 20608 1xtmA 175 7.41e+00 2hzqA 174 7.44e+00 1c5cH 215 8.11e+00 1igtB b.1.1.1,b.1.1.2 20475,21439 1qfjA 232 8.14e+00 1qfjA b.43.4.2,c.25.1.1 25655,31545 1iwmA 186 8.30e+00 b.125.1.2 83758 2f4wA 187 8.42e+00 d.20.1.1 132958 1yudA 170 8.73e+00 b.82.1.16 124046 2aqjA 538 8.81e+00 2ifsA 169 9.04e+00 1pzdA 322 9.33e+00 b.1.10.3,d.105.1.2 95413,95414 2e27L 119 9.81e+00 1rloA 271 1.06e+01 c.108.1.10 111864 2uxyA 341 1.10e+01 1rlmA 271 1.13e+01 c.108.1.10 111860 1ogiA 303 1.15e+01 b.43.4.2,c.25.1.1 92914,92915 1go2A 304 1.17e+01 b.43.4.2,c.25.1.1 76243,76244 2bmwA 304 1.21e+01 b.43.4.2,c.25.1.1 128815,128816 1xtlA 175 1.27e+01 2hf2A 283 1.28e+01 2obtA 327 1.34e+01 1ub9A 100 1.35e+01 a.4.5.28 99159 1dt9A 437 1.37e+01 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 1qh0A 295 1.40e+01 b.43.4.2,c.25.1.1 68891,68892 2re7A 134 1.48e+01 1kb5A 115 1.53e+01 1tvdA b.1.1.1 20611 2dyuA 334 1.56e+01 1usrA 454 1.57e+01 b.68.1.1 99881 2j5uA 255 1.59e+01 1mkeA 152 1.64e+01 b.55.1.4 79231 1namB 113 1.66e+01 b.1.1.1 85489 1y8xA 160 1.71e+01 d.20.1.1 122769 1v0aA 178 1.74e+01 b.18.1.30 119815 1w34A 304 1.74e+01 b.43.4.2,c.25.1.1 120620,120621 1x3cA 73 1.77e+01 g.37.1.1 121660 2i5fA 109 1.82e+01 2r0hA 164 1.82e+01 1w6tA 444 1.83e+01 c.1.11.1,d.54.1.1 120670,120671 2bsaA 303 1.86e+01 b.43.4.2,c.25.1.1 129078,129079 1led 243 1.95e+01 1led 3cswA 285 1.95e+01 1ledA 243 1.95e+01 b.29.1.1 24039 3cnqP 80 2.01e+01 1ifrA 121 2.03e+01 b.1.16.1 71203 1ru0A 105 2.04e+01 d.74.1.1 111937 1pj5A 830 2.07e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 2z00A 426 2.09e+01 1jj2A 239 2.12e+01 1rl2A b.34.5.3,b.40.4.5 63084,63085 1qftA 175 2.13e+01 1qftA b.60.1.1 27151 1rypH 205 2.13e+01 d.153.1.4 41876 2ntiA 249 2.16e+01 1b2rA 304 2.18e+01 1fnc b.43.4.2,c.25.1.1 25648,31538 2yzqA 282 2.24e+01 3c0fB 91 2.27e+01 1ex2A 189 2.29e+01 1ex2A c.51.4.2 33225 1lxjA 104 2.32e+01 d.58.48.1 84736 1eysH 259 2.42e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 1ft9A 222 2.45e+01 1ft9A a.4.5.4,b.82.3.1 16107,28131 2qklA 127 2.45e+01 2aukA 190 2.48e+01 1fx5A 242 2.48e+01 1led b.29.1.1 24135 1mppA 361 2.55e+01 b.50.1.2 26856 1exg 110 2.57e+01 1exg 1xf1A 926 2.62e+01 1e8tA 454 2.66e+01 1e8tA b.68.1.1 59387 2j59M 168 2.73e+01 2qh0A 138 2.81e+01 1vkyA 347 2.93e+01 e.53.1.1 108696 1mdaH 368 2.94e+01 2bbkH b.69.2.1 27637 2iw0A 254 2.95e+01 c.6.2.3 137737 2a13A 166 2.97e+01 b.60.1.8 125971 2cfxA 144 2.99e+01 a.4.5.32,d.58.4.2 130395,130396 1uzxA 169 2.99e+01 d.20.1.2 100238 1r4xA 275 3.00e+01 b.1.10.3,d.105.1.2 97054,97055 1pzsA 208 3.06e+01 b.1.8.1 104397 1u0qA 125 3.11e+01 1egxA 115 3.12e+01 1evhA b.55.1.4 27000 1ywhA 313 3.19e+01 2o8mA 200 3.20e+01 1hqlA 257 3.27e+01 b.29.1.1 65907 1fo0B 112 3.36e+01 1kb5B b.1.1.1 20631 2ix2A 249 3.41e+01 2axwA 134 3.42e+01 2cwsA 237 3.43e+01 1zvhA 134 3.45e+01 1gvhA 396 3.59e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1tf6A 190 3.67e+01 1tf6A g.37.1.1,g.37.1.1,g.37.1.1,g.37.1.1,g.37.1.1,g.37.1.1 45060,45061,45062,45063,45064,45065 1fltX 95 3.67e+01 1fltX b.1.1.4 21765 2v3mA 131 3.72e+01 2g47A 990 3.78e+01 2fymA 431 3.89e+01 c.1.11.1,d.54.1.1 134379,134380 2a8jA 420 3.91e+01 1yh2A 175 3.98e+01 d.20.1.1 123158 1kb5B 117 4.01e+01 1kb5B b.1.1.1 20632 1vjqA 79 4.02e+01 k.43.1.1 100830 1o4rA 108 4.05e+01 d.93.1.1 92469 1o75A 415 4.07e+01 b.1.20.1,b.1.20.1,b.120.1.1 81117,81118,81119 1y0yA 353 4.08e+01 b.49.3.1,c.56.5.4 122514,122515 1q2lA 939 4.13e+01 d.185.1.1,d.185.1.1,d.185.1.1,d.185.1.1 118731,118732,118733,118734 2ghsA 326 4.16e+01 b.68.6.1 135209 3c99A 432 4.17e+01 1b3cA 64 4.21e+01 1aho g.3.7.1 44121 1kgyA 181 4.21e+01 b.18.1.4 72449 1hl9A 449 4.25e+01 b.71.1.3,c.1.8.11 90650,90651 1z4vA 532 4.29e+01 1npuA 117 4.34e+01 b.1.1.1 92038 1j1xH 114 4.35e+01 b.1.1.1 77063 1shaA 104 4.38e+01 1fmk d.93.1.1 40424 1zc1A 208 4.45e+01 1xsoA 150 4.49e+01 1mfmA b.1.8.1 22273 3bxoA 239 4.57e+01 3cniA 156 4.63e+01 1ddzA 496 4.63e+01 1ddzA c.53.2.1,c.53.2.1 33372,33373 1k0hA 117 4.68e+01 b.106.1.2 71975 1oi0A 124 4.69e+01 c.97.3.1 93045 2qi2A 347 4.72e+01 1rjcA 137 4.74e+01 1noaA 113 4.78e+01 b.1.7.1 22208 3cncA 220 4.82e+01 2cg4A 152 4.84e+01 a.4.5.32,d.58.4.2 130417,130418 2b9uA 176 4.86e+01 2rkuA 294 4.90e+01 1fit 147 4.92e+01 1fit 1fitA 147 4.92e+01 d.13.1.1 37499 1vih 71 4.97e+01 1vih 1a34A 159 5.07e+01 1a34A b.121.7.1 23286 1ubdC 124 5.08e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1,g.37.1.1 45053,45054,45055,45056 3cjxA 165 5.11e+01 1fmk 452 5.11e+01 1fmk 1eagA 342 5.13e+01 1eagA b.50.1.2 26826 1z9nA 177 5.15e+01 1exmA 405 5.22e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 2pa6A 427 5.23e+01 1n0xH 230 5.24e+01 b.1.1.1,b.1.1.2 91528,91529 2owbA 335 5.27e+01 2id4A 503 5.33e+01 b.18.1.20,c.41.1.1 137265,137266 2c78A 405 5.33e+01 b.43.3.1,b.44.1.1,c.37.1.8 130037,130038,130039 2oojA 141 5.34e+01 1djxA 624 5.36e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 3c1mA 473 5.37e+01 1ic7H 114 5.39e+01 1f3rB b.1.1.1 62258 1mc0A 368 5.52e+01 d.110.2.1,d.110.2.1 78937,78938 2q4nA 166 5.53e+01 b.60.1.8 139871 1vqoA 240 5.55e+01 b.34.5.3,b.40.4.5 120361,120362 1f2fA 104 5.60e+01 1fmk d.93.1.1 40455 1shdA 107 5.61e+01 1fmk d.93.1.1 40440 1qxmA 300 5.76e+01 b.42.2.1,b.42.2.1 96533,96534 2jgnA 185 5.81e+01 1qqsA 174 5.81e+01 1nglA b.60.1.1 27143 1coaI 64 5.86e+01 2sniI d.40.1.1 38574 2g8sA 353 5.87e+01 1x89A 178 5.88e+01 b.60.1.1 121799 2gysA 419 5.90e+01 b.1.2.1,b.1.2.1,b.1.2.1,b.1.2.1 135865,135866,135867,135868 1pg6A 243 5.95e+01 b.82.5.2 94673 2yyoA 171 5.99e+01 2g1lA 104 6.01e+01 b.26.1.2 134520 1ie7C 570 6.03e+01 1ubpC b.92.1.1,c.1.9.2 62315,62316 1xneA 113 6.05e+01 b.122.1.6 115579 1rl5A 60 6.05e+01 2a8mA 420 6.08e+01 1zvyA 136 6.12e+01 2petA 231 6.14e+01 1ubpC 570 6.18e+01 1ubpC b.92.1.1,c.1.9.2 28432,29054 4ubpC 570 6.20e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1evhA 112 6.21e+01 1evhA b.55.1.4 26997 3b47A 134 6.25e+01 2b3yA 888 6.35e+01 c.8.2.1,c.83.1.1 127803,127804 1djxB 624 6.43e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1i5pA 633 6.43e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1lckA 175 6.47e+01 1lckA b.34.2.1,d.93.1.1 24552,40421 2qfeA 148 6.53e+01 2o26U 290 6.56e+01 3b42A 135 6.62e+01 3bk2A 562 6.63e+01 1gmuA 143 6.77e+01 b.107.1.1,d.58.38.1 65335,65336 1ygyA 529 6.78e+01 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 1plc 99 6.80e+01 1plc 1plcA 99 6.80e+01 b.6.1.1 22846 1qtyT 101 6.82e+01 1fltX b.1.1.4 21769 1qz8A 113 6.84e+01 b.140.1.1 96619 8fabB 224 6.90e+01 1igtB b.1.1.1,b.1.1.2 19773,20883 1tjgH 237 6.95e+01 b.1.1.1,b.1.1.2 112446,112447 1tluA 130 6.98e+01 d.156.1.2 107139 1ejxC 567 7.00e+01 b.92.1.1,c.1.9.2 83184,83185 1x74A 360 7.02e+01 c.123.1.1 121771 2ip2A 334 7.09e+01 1fwkA 296 7.13e+01 1fwkA d.14.1.5,d.58.26.1 37576,39398 2al2A 436 7.13e+01 c.1.11.1,d.54.1.1 126953,126954 1rhi3 236 7.29e+01 1aym3 1xccA 220 7.40e+01 c.47.1.10 115113 2e27H 126 7.44e+01 2hkeA 380 7.45e+01 1m9uA 241 7.48e+01 b.47.1.2 74601 2d73A 738 7.51e+01 1nqbA 256 7.53e+01 1mfa b.1.1.1,b.1.1.1 20042,20043 1wosA 364 7.67e+01 b.44.2.1,d.250.1.1 109468,109469 1hgeB 175 7.70e+01 1hgeB h.3.1.1 45680 1jqiA 388 7.72e+01 a.29.3.1,e.6.1.1 67087,67088 1vl7A 157 7.78e+01 b.45.1.1 108732 2ejwA 332 7.84e+01 1bec 238 7.91e+01 1bec 1oqkA 97 7.93e+01 b.137.1.1 93419 2j01P 150 7.93e+01 1a5lC 566 7.95e+01 1ubpC b.92.1.1,c.1.9.2 28426,29048 1z9vA 121 7.97e+01 1b9dA 163 7.97e+01 1b9dA c.55.3.2 33649 1konA 249 7.97e+01 e.39.1.1 72823