# List of top-scoring protein chains for t04-100-30-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 1tv9A 335 1.37e+00 1bpyA 335 2.28e+00 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 1v4eA 299 2.53e+00 a.128.1.1 100296 1rlyA 60 2.56e+00 g.41.3.1 104988 2fmpA 335 2.87e+00 1dl6A 58 3.01e+00 1dl6A g.41.3.1 45207 1v87A 114 3.56e+00 g.44.1.1 108422 1z6nA 167 3.59e+00 1oj4A 283 3.85e+00 d.14.1.5,d.58.26.5 93083,93084 1jigA 146 3.92e+00 a.25.1.1 71685 1f00I 282 4.90e+00 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 1ede 310 5.38e+00 1b6g c.69.1.8 34662 1mgpA 313 5.66e+00 c.119.1.1 79098 1jb0A 755 5.84e+00 1jb0A f.29.1.1 62820 1a76 326 6.33e+00 1a76 a.60.7.1,c.120.1.2 18091,33361 1nq6A 302 6.70e+00 c.1.8.3 92046 2d28C 149 6.77e+00 2aa1B 146 7.41e+00 1ay7B 89 7.41e+00 1ay7B c.9.1.1 30836 2f6mB 109 7.59e+00 1y1pA 342 8.06e+00 1uz5A 402 8.93e+00 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 2carA 196 9.23e+00 2f6lA 166 9.35e+00 1yk4A 52 9.43e+00 1b6g 310 9.46e+00 1b6g c.69.1.8 34661 1w9yA 319 9.51e+00 1b4bA 71 9.62e+00 1b4aA d.74.2.1 39718 1q5nA 454 9.73e+00 a.127.1.1 95901 1ujmA 342 9.80e+00 2fp1A 166 1.03e+01 1xreA 217 1.03e+01 1knvA 293 1.11e+01 c.52.1.7 68707 1iwmA 186 1.14e+01 b.125.1.2 83758 2axwA 134 1.15e+01 1iro 54 1.16e+01 1rb9 g.41.5.1 45223 1j7xA 302 1.20e+01 c.14.1.2 66425 2cobA 70 1.23e+01 2d27A 149 1.24e+01 1e0wA 313 1.24e+01 1taxA c.1.8.3 59150 1wozA 177 1.28e+01 1pp0A 199 1.46e+01 d.103.1.1 104211 1hdhA 536 1.49e+01 c.76.1.2 65805 1yua 122 1.51e+01 1yua g.41.3.3,g.41.3.3 45210,45211 1t77A 414 1.69e+01 1nu0A 138 1.75e+01 c.55.3.8 92165 1z90A 469 1.82e+01 1j7nA 776 1.85e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1weoA 93 1.87e+01 1i4fB 100 1.87e+01 1agdB b.1.1.2 61689 1dfuP 94 1.88e+01 1dfuP b.53.1.1 26936 1jqlB 140 1.94e+01 c.37.1.20 63234 1v0lA 313 1.95e+01 c.1.8.3 108207 1fm4A 159 2.00e+01 1bv1 d.129.3.1 76186 1yf3A 259 2.07e+01 1ub4A 110 2.11e+01 b.34.6.2 88399 1rb9 53 2.13e+01 1rb9 g.41.5.1 45214 1rdg 53 2.17e+01 1rb9 g.41.5.1 45221 1vp6A 138 2.17e+01 1v54F 98 2.23e+01 g.41.5.3 100327 2a14A 263 2.23e+01 1k4mA 213 2.25e+01 c.26.1.3 77258 1zin 217 2.27e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1vr5A 547 2.29e+01 1nm2A 317 2.38e+01 c.19.1.1,d.58.23.1 80654,80655 2occF 98 2.51e+01 2occF g.41.5.3 45256 1qhlA 227 2.54e+01 1qhlA c.37.1.12 32382 1gakA 141 2.56e+01 1gakA a.19.1.1 16415 1zip 217 2.56e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1adoA 363 2.60e+01 1fbaA c.1.10.1 29124 1wijA 140 2.67e+01 2gdm 153 2.73e+01 2gdm a.1.1.2 15212 2vsgA 358 2.77e+01 2vsgA h.4.1.1 45780 1w2iA 91 2.80e+01 d.58.10.1 109127 1gg3A 279 2.96e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16372,27007,37615 2fztA 79 3.00e+01 1lvaA 258 3.04e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 2hrvA 142 3.12e+01 2hrvA b.47.1.4 26429 1dv1A 449 3.13e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1z1zA 131 3.16e+01 2a8eA 220 3.19e+01 2gaxA 135 3.20e+01 1aszB 490 3.26e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 2pvaA 345 3.38e+01 3pvaA d.153.1.3 41850 3pvaA 335 3.40e+01 3pvaA d.153.1.3 41854 1f5mA 180 3.40e+01 1f5mB d.110.2.1 40895 1u69A 163 3.42e+01 d.32.1.7 107699 1unlD 208 3.46e+01 1v2bA 177 3.50e+01 d.107.1.2 108279 1od8A 313 3.51e+01 c.1.8.3 86838 1wy6A 172 3.52e+01 1x1rA 178 3.56e+01 1k5nB 100 3.58e+01 b.1.1.2 77268 1ukuA 102 3.67e+01 d.58.5.2 99533 2gsaA 432 3.71e+01 2gsaA c.67.1.4 34446 1q0sA 259 3.74e+01 c.66.1.28 95509 2g42A 79 3.78e+01 1u5kA 244 3.79e+01 1dfoA 417 3.92e+01 1bj4A c.67.1.4 34480 1fl1A 230 3.97e+01 1at3A b.57.1.1 27023 1nthA 458 3.99e+01 c.1.25.1 80730 1no5A 114 4.06e+01 d.218.1.5 92014 1srvA 145 4.06e+01 1derA c.8.5.1 30817 1eswA 500 4.12e+01 1cwyA c.1.8.1 59500 1dvpA 220 4.15e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 1sr2A 116 4.16e+01 1l0bA 229 4.22e+01 c.15.1.3,c.15.1.3 73391,73392 1f0lA 535 4.26e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 2g8oA 264 4.29e+01 1ho8A 480 4.31e+01 1ho8A a.118.1.9 61107 2g8mA 264 4.31e+01 1xkuA 330 4.40e+01 1v6zA 228 4.44e+01 1ly1A 181 4.45e+01 c.37.1.1 74334 1vmjA 151 4.46e+01 1j8rA 196 4.47e+01 1j8rA b.2.3.3 62745 1zlqA 502 4.48e+01 2cyjA 118 4.53e+01 1szoA 257 4.53e+01 c.14.1.3 106164 1bq9A 54 4.56e+01 1rb9 g.41.5.1 45238 2his 312 4.63e+01 1taxA c.1.8.3 28918 2aorA 223 4.67e+01 2bjdA 101 4.70e+01 1reqA 727 4.77e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 2cvbA 188 4.78e+01 1kzfA 230 4.89e+01 d.108.1.3 73354 1j8bA 112 4.90e+01 d.222.1.1 77101 1rw1A 114 4.94e+01 1jb0E 75 5.03e+01 1pse b.34.4.2 62824 1n2sA 299 5.08e+01 c.2.1.2 79857 1wtaA 275 5.14e+01 1ornA 226 5.15e+01 a.96.1.1 87342 1mo0A 275 5.17e+01 c.1.1.1 79329 1aisA 182 5.17e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1brfA 53 5.24e+01 1rb9 g.41.5.1 45236 2as0A 396 5.31e+01 4fgf 146 5.34e+01 1bfg b.42.1.1 25486 1qo3C 137 5.34e+01 1qo3C d.169.1.1 42350 1jgsA 138 5.37e+01 a.4.5.28 66683 5reqA 727 5.41e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 2d7vA 162 5.43e+01 1ws0A 156 5.47e+01 1uhkA 191 5.50e+01 1uiuA 502 5.60e+01 c.94.1.1 99434 1evfA 264 5.63e+01 1bkpA d.117.1.1 40932 2g8yA 385 5.67e+01 1fh9A 312 5.70e+01 1taxA c.1.8.3 28913 1cdy 178 5.78e+01 1cdy b.1.1.1,b.1.1.3 19719,21658 1s96A 219 5.89e+01 c.37.1.1 98740 1zsyA 357 5.93e+01 1s48A 609 5.94e+01 e.8.1.4 98475 1rmd 116 5.99e+01 1rmd g.37.1.1,g.44.1.1 45025,45322 1sv0C 82 6.05e+01 a.60.1.1 106037 1erxA 184 6.10e+01 1np1A b.60.1.1 27164 1w33A 181 6.17e+01 1zl0A 311 6.20e+01 1n9dA 199 6.22e+01 a.26.1.1 85464 1zy4A 303 6.24e+01 1km4A 247 6.24e+01 c.1.2.3 72740 1o8uA 257 6.25e+01 c.14.1.3 81194 1aa6 715 6.27e+01 2napA b.52.2.2,c.81.1.1 26916,35324 1s12A 94 6.32e+01 1ra6A 461 6.40e+01 e.8.1.4 104879 1wggA 96 6.44e+01 1rocA 155 6.50e+01 b.1.22.1 97673 1xd3A 230 6.52e+01 1sqsA 242 6.55e+01 c.23.5.5 98968 2afgA 140 6.57e+01 1bfg b.42.1.1 25514 1wyuA 438 6.61e+01 1n0nA 199 6.67e+01 a.2.11.1,d.44.1.1 79750,79751 1g9gA 629 6.67e+01 a.102.1.2 83279 1wosA 364 6.73e+01 b.44.2.1,d.250.1.1 109468,109469 1dvjA 246 6.75e+01 1dvjA c.1.2.3 28546 1x8qA 184 7.06e+01 1umdA 367 7.07e+01 c.36.1.11 99599 1tqjA 230 7.12e+01 c.1.2.2 107228 1q7lB 88 7.12e+01 1ulrA 88 7.21e+01 1koiA 184 7.30e+01 b.60.1.1 68725 1s5lU 134 7.32e+01 1acc 735 7.48e+01 1acc f.11.1.1 43828 1zu4A 320 7.49e+01 1d8bA 81 7.51e+01 1d8bA a.60.8.1 18094 1aua 296 7.54e+01 1aua a.5.3.1,c.13.1.1 16290,30882 1dg6A 191 7.56e+01 1d4vB b.22.1.1 23883 2cc0A 195 7.56e+01 1sy3A 184 7.66e+01 b.60.1.1 106110 1p3wA 404 7.71e+01 c.67.1.3 87752 1qc7A 101 7.71e+01 1qc7A a.118.14.1 18456 1vmfA 145 7.72e+01 2aw2B 108 7.73e+01 1kjvB 100 7.85e+01 b.1.1.2 77423 1yukB 120 7.86e+01 1pl4A 198 7.93e+01 a.2.11.1,d.44.1.1 94854,94855 2av5A 120 8.05e+01 1faeA 629 8.11e+01 1fce a.102.1.2 18837 1zyiA 171 8.13e+01 1kwgA 645 8.14e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1rv3A 483 8.14e+01 c.67.1.4 105101 1qs0A 407 8.23e+01 1qs0A c.36.1.11 31829 1zaiA 363 8.23e+01 1e8rA 50 8.24e+01 1e8rA g.29.1.1 44960 1b43A 340 8.25e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1bi5A 389 8.25e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1is2A 661 8.28e+01 a.29.3.2,a.29.3.2,e.6.1.2 71382,71383,71384 1p63A 144 8.30e+01 b.42.1.1 94153 1kxu 333 8.36e+01 1jkw a.74.1.1,a.74.1.1 18358,18359 1x1zA 252 8.38e+01 1u04A 771 8.40e+01 b.34.14.1,c.55.3.10 107539,107540 1zx8A 136 8.44e+01 1xocA 520 8.59e+01 1bfg 146 8.60e+01 1bfg b.42.1.1 25485 1gjwA 637 8.71e+01 b.71.1.1,c.1.8.1 60582,60583 1y0eA 223 8.74e+01 1wh5A 80 8.78e+01 1g2fC 90 8.86e+01 k.12.1.1 60222 1ctf 74 8.86e+01 1ctf d.45.1.1 38759 1ucpA 91 8.98e+01 a.77.1.5 99186