# 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.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 7.17e-02 b.1.1.1,b.1.1.3 138764,138765 3cbnA 151 7.40e-02 1dlcA 584 4.17e-01 b.18.1.3,b.77.2.1,f.1.3.1 23719,27976,43391 1cdy 178 9.21e-01 1cdy 1qfjA 232 9.57e-01 1qfjA b.43.4.2,c.25.1.1 25655,31545 2hf2A 283 1.15e+00 1rlmA 271 1.35e+00 c.108.1.10 111860 1rloA 271 1.71e+00 c.108.1.10 111864 1y8xA 160 1.90e+00 d.20.1.1 122769 1z4vA 532 2.26e+00 2hzqA 174 2.64e+00 1iwmA 186 2.83e+00 b.125.1.2 83758 1d2eA 397 2.85e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 2qklA 127 3.16e+00 2obtA 327 3.46e+00 1x3cA 73 3.77e+00 g.37.1.1 121660 1xf1A 926 4.51e+00 1ex2A 189 5.00e+00 1ex2A c.51.4.2 33225 1gmuA 143 5.02e+00 b.107.1.1,d.58.38.1 65335,65336 1qh0A 295 5.35e+00 b.43.4.2,c.25.1.1 68891,68892 2axwA 134 5.45e+00 2re7A 134 7.33e+00 2ix2A 249 7.74e+00 2bsaA 303 8.19e+00 b.43.4.2,c.25.1.1 129078,129079 1w34A 304 8.22e+00 b.43.4.2,c.25.1.1 120620,120621 3cswA 285 8.38e+00 3cnqP 80 8.46e+00 2rmpA 361 8.60e+00 2rmpA b.50.1.2 26825 2bmwA 304 8.64e+00 b.43.4.2,c.25.1.1 128815,128816 1dt9A 437 9.08e+00 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 1ogiA 303 9.43e+00 b.43.4.2,c.25.1.1 92914,92915 1uj6A 227 9.71e+00 c.124.1.4,d.58.40.1 107898,107899 2cg4A 152 1.02e+01 a.4.5.32,d.58.4.2 130417,130418 1ub9A 100 1.06e+01 a.4.5.28 99159 1ru0A 105 1.07e+01 d.74.1.1 111937 2qh0A 138 1.07e+01 2cwsA 237 1.14e+01 1b2rA 304 1.20e+01 1fnc b.43.4.2,c.25.1.1 25648,31538 1kw3B 292 1.23e+01 d.32.1.3,d.32.1.3 77549,77550 3cjxA 165 1.23e+01 1um5H 217 1.26e+01 b.1.1.1,b.1.1.2 113302,113303 2uxyA 341 1.29e+01 2z00A 426 1.30e+01 1gvhA 396 1.31e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 3c1mA 473 1.34e+01 1go2A 304 1.34e+01 b.43.4.2,c.25.1.1 76243,76244 1xccA 220 1.36e+01 c.47.1.10 115113 2agyA 361 1.39e+01 2oizA 361 1.39e+01 1qftA 175 1.43e+01 1qftA b.60.1.1 27151 2dyuA 334 1.43e+01 1u7iA 136 1.45e+01 d.32.1.7 107724 2yyoA 171 1.47e+01 2ghsA 326 1.48e+01 b.68.6.1 135209 2q4nA 166 1.57e+01 b.60.1.8 139871 1xtlA 175 1.64e+01 2c78A 405 1.74e+01 b.43.3.1,b.44.1.1,c.37.1.8 130037,130038,130039 1z9nA 177 1.82e+01 1aipA 405 1.82e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1rl5A 60 1.85e+01 3c0fB 91 1.86e+01 1exmA 405 1.86e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1jj2A 239 1.87e+01 1rl2A b.34.5.3,b.40.4.5 63084,63085 1xtmA 175 1.92e+01 2a13A 166 1.93e+01 b.60.1.8 125971 3cniA 156 1.99e+01 1ikpA 613 2.03e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1pzsA 208 2.03e+01 b.1.8.1 104397 2co7B 221 2.09e+01 2dg1A 333 2.16e+01 b.68.6.1 131493 1eagA 342 2.21e+01 1eagA b.50.1.2 26826 1hl9A 449 2.29e+01 b.71.1.3,c.1.8.11 90650,90651 1xaoA 121 2.36e+01 1ywhA 313 2.39e+01 1usrA 454 2.39e+01 b.68.1.1 99881 2z4tA 514 2.42e+01 2hft 218 2.44e+01 1boy 2hftA 218 2.44e+01 b.1.2.1,b.1.2.1 21951,21952 1konA 249 2.45e+01 e.39.1.1 72823 1o4rA 108 2.46e+01 d.93.1.1 92469 1ddzA 496 2.49e+01 1ddzA c.53.2.1,c.53.2.1 33372,33373 2i24N 121 2.49e+01 1c5cH 215 2.54e+01 1igtB b.1.1.1,b.1.1.2 20475,21439 1b3cA 64 2.58e+01 1aho g.3.7.1 44121 1shaA 104 2.61e+01 1fmk d.93.1.1 40424 1tf6A 190 2.63e+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 1ypcI 64 2.64e+01 2sniI d.40.1.1 38570 1o12A 376 2.66e+01 b.92.1.5,c.1.9.10 80758,80759 2ntiA 249 2.74e+01 1coaI 64 2.75e+01 2sniI d.40.1.1 38574 2z0tA 109 2.81e+01 2iw0A 254 2.82e+01 c.6.2.3 137737 1fltX 95 2.83e+01 1fltX b.1.1.4 21765 2ifsA 169 2.86e+01 1pzdA 322 2.87e+01 b.1.10.3,d.105.1.2 95413,95414 1plc 99 2.88e+01 1plc 1plcA 99 2.88e+01 b.6.1.1 22846 2cfxA 144 2.89e+01 a.4.5.32,d.58.4.2 130395,130396 1qg0A 308 2.90e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1u0qA 125 2.92e+01 1iz6A 138 2.93e+01 b.34.5.2,b.40.4.5 76976,76977 2eklA 313 2.94e+01 1ifrA 121 2.95e+01 b.1.16.1 71203 2r0hA 164 2.98e+01 1fx5A 242 3.00e+01 1led b.29.1.1 24135 1shdA 107 3.08e+01 1fmk d.93.1.1 40440 2petA 231 3.12e+01 2d7nA 93 3.13e+01 b.1.18.10 131322 1ft9A 222 3.17e+01 1ft9A a.4.5.4,b.82.3.1 16107,28131 2oojA 141 3.25e+01 2pa6A 427 3.42e+01 2e27L 119 3.43e+01 2apsA 162 3.49e+01 1yaiA b.1.8.1 22298 1ej6D 418 3.49e+01 i.7.1.1 45970 2fliA 220 3.50e+01 c.1.2.2 133714 1o20A 427 3.51e+01 c.82.1.1 86556 2id4A 503 3.63e+01 b.18.1.20,c.41.1.1 137265,137266 1bx1A 314 3.65e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 2fn9A 290 3.68e+01 1w6tA 444 3.69e+01 c.1.11.1,d.54.1.1 120670,120671 1fmk 452 3.69e+01 1fmk 1yudA 170 3.70e+01 b.82.1.16 124046 1vqoA 240 3.83e+01 b.34.5.3,b.40.4.5 120361,120362 1ylhA 560 3.83e+01 2g1lA 104 3.87e+01 b.26.1.2 134520 1qz8A 113 3.89e+01 b.140.1.1 96619 1oi0A 124 3.89e+01 c.97.3.1 93045 1dppA 507 3.90e+01 1dpe c.94.1.1 35800 1r64A 481 3.90e+01 b.18.1.20,c.41.1.1 97140,97141 3cncA 220 3.91e+01 3bxoA 239 3.91e+01 1r4xA 275 3.94e+01 b.1.10.3,d.105.1.2 97054,97055 1ctn 540 3.95e+01 1ctn 1namB 113 3.96e+01 b.1.1.1 85489 1fo0B 112 3.97e+01 1kb5B b.1.1.1 20631 1zc1A 208 3.98e+01 3czbA 351 4.00e+01 1viwB 198 4.00e+01 1led b.29.1.1 24170 2b9uA 176 4.02e+01 1ikoP 178 4.13e+01 b.6.1.5 71243 1f2fA 104 4.18e+01 1fmk d.93.1.1 40455 1edqA 540 4.18e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1to2I 64 4.20e+01 d.40.1.1 112596 1efuA 385 4.27e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 1whi 122 4.28e+01 1whi 1whiA 122 4.28e+01 b.39.1.1 24810 1k9tA 540 4.29e+01 b.1.18.2,c.1.8.5,d.26.3.1 77298,77299,77300 1lw6I 64 4.34e+01 d.40.1.1 74294 2aukA 190 4.41e+01 2ag9A 164 4.42e+01 1qtyT 101 4.47e+01 1fltX b.1.1.4 21769 1ygyA 529 4.48e+01 c.2.1.4,c.23.12.1,d.58.18.1,d.81.2.2 123150,123151,123152,123153 2g76A 335 4.50e+01 1lxjA 104 4.50e+01 d.58.48.1 84736 2eixA 243 4.54e+01 1hgeB 175 4.58e+01 1hgeB h.3.1.1 45680 2viuB 175 4.65e+01 1hgeB h.3.1.1 45676 1ot5A 477 4.69e+01 b.18.1.20,c.41.1.1 87409,87410 2a8jA 420 4.75e+01 2a8mA 420 4.78e+01 2q2gA 180 4.91e+01 1cqxA 403 4.93e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1lkdA 297 4.98e+01 d.32.1.3,d.32.1.3 78059,78060 1wexA 104 5.01e+01 d.58.7.1 114568 1mc0A 368 5.02e+01 d.110.2.1,d.110.2.1 78937,78938 1thjA 214 5.06e+01 1qreA b.81.1.5 28072 1ush 550 5.11e+01 1ush 2hmaA 376 5.19e+01 2ehzA 302 5.19e+01 1e8tA 454 5.20e+01 1e8tA b.68.1.1 59387 1efcA 393 5.22e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1pgl1 185 5.23e+01 1yhfA 115 5.24e+01 b.82.1.9 123176 1u5kA 244 5.26e+01 b.40.4.13,g.45.1.2 113038,113039 1yh2A 175 5.29e+01 d.20.1.1 123158 1h0jA 60 5.34e+01 g.7.1.1 83432 2o6fA 189 5.36e+01 1lkkA 105 5.40e+01 1lckA d.93.1.1 40412 2r61A 208 5.42e+01 1bypA 99 5.42e+01 1plc b.6.1.1 22858 3b47A 134 5.43e+01 3bk2A 562 5.44e+01 1k0hA 117 5.44e+01 b.106.1.2 71975 2hr0A 645 5.52e+01 1tf3A 92 5.54e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45057,45058,45059 1tgxA 60 5.55e+01 1tgxA g.7.1.1 44398 1h6rA 236 5.63e+01 d.22.1.1 65683 2ip2A 334 5.64e+01 1m1hA 248 5.67e+01 b.114.1.1,d.58.42.1 78415,78416 2oynA 146 5.69e+01 2fymA 431 5.74e+01 c.1.11.1,d.54.1.1 134379,134380 1v6fA 151 5.80e+01 d.109.1.2 108395 1v0aA 178 5.83e+01 b.18.1.30 119815 1dmhA 311 5.91e+01 1dmhA b.3.6.1 22633 2aqmA 154 5.91e+01 1oaqH 121 5.93e+01 b.1.1.1 92707 2oziA 98 5.94e+01 1sppB 116 5.97e+01 1sfp b.23.1.1 23897 2nttA 217 5.99e+01 1bec 238 6.03e+01 1bec 1fndA 314 6.07e+01 b.43.4.2,c.25.1.1 25626,31516 1ixmA 192 6.07e+01 1ixmA d.123.1.1 41114 2a8lA 420 6.07e+01 1k4iA 233 6.07e+01 d.115.1.2 72056 1mdaH 368 6.27e+01 2bbkH b.69.2.1 27637 1kcxA 518 6.33e+01 b.92.1.3,c.1.9.6 90953,90954 2uubL 135 6.35e+01 b.40.4.5 139943 1m7sA 484 6.39e+01 e.5.1.1 74574 2atzA 180 6.44e+01 d.264.1.3 127317 1jxgA 100 6.46e+01 b.6.1.1 67413 1ao7D 204 6.50e+01 1tcrA b.1.1.1 20623 1boy 219 6.53e+01 1boy 1kgyA 181 6.53e+01 b.18.1.4 72449 1danT 80 6.55e+01 1boy b.1.2.1 21953 2vl7A 540 6.56e+01 2v3mA 131 6.56e+01 2b8mA 117 6.65e+01 b.82.1.18 128092 1xsoA 150 6.71e+01 1mfmA b.1.8.1 22273 1b88A 114 6.71e+01 1tcrA b.1.1.1 20608 2yvwA 425 6.74e+01 2e1bA 216 6.76e+01 1fnc 314 6.79e+01 1fnc 2fn0A 437 6.79e+01 d.161.1.1 133799 2bvcA 486 6.81e+01 d.15.9.1,d.128.1.1 129243,129244 1rxxA 421 6.82e+01 d.126.1.4 98061 1rd5A 262 6.92e+01 c.1.2.4 111772 1z9pA 155 6.93e+01 1o7dC 159 7.04e+01 b.30.5.6 86640 2aqqA 164 7.04e+01 1z6jT 211 7.08e+01 b.1.2.1,b.1.2.1 124527,124528 1mkeA 152 7.12e+01 b.55.1.4 79231 2e27H 126 7.13e+01 1scjB 71 7.18e+01 1scjB d.58.3.2 39069 1wj2A 78 7.20e+01 g.79.1.1 114689 1uzxA 169 7.30e+01 d.20.1.2 100238 2gysA 419 7.32e+01 b.1.2.1,b.1.2.1,b.1.2.1,b.1.2.1 135865,135866,135867,135868 3c0tA 207 7.35e+01 1bw3A 125 7.36e+01 b.52.1.2 26899 1utcA 363 7.42e+01 a.118.1.4,b.69.6.1 99914,99915 1h91A 180 7.46e+01 b.60.1.1 60805 2r78A 117 7.48e+01 1bpoA 494 7.50e+01 1bpoA a.118.1.4,b.69.6.1 19143,27670 1nqbA 256 7.54e+01 1mfa b.1.1.1,b.1.1.1 20042,20043 1shwB 181 7.57e+01 b.18.1.4 105563 2vigA 391 7.59e+01 3by7A 100 7.67e+01 1vkyA 347 7.69e+01 e.53.1.1 108696 1rypH 205 7.76e+01 d.153.1.4 41876 1kb5B 117 7.76e+01 1kb5B b.1.1.1 20632 1han 297 7.81e+01 1han 1kgdA 180 7.81e+01 c.37.1.1 68582 1vih 71 7.82e+01 1vih 1n3gA 113 7.84e+01 d.204.1.1 79962 2ix2B 245 7.87e+01 1s4iA 175 7.89e+01 1ncwL 219 7.91e+01 b.1.1.1,b.1.1.2 85557,85558 1vkkA 154 7.93e+01 d.109.1.2 108669 1vclA 432 7.95e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 2fqpA 97 7.96e+01 1ug4A 60 7.97e+01 1h5bA 113 7.97e+01 1tvdA b.1.1.1 60638