# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1mo9A 523 3.15e-01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1t7pA 698 4.16e-01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1qspA 165 6.24e-01 1qspA a.24.10.2 16639 1c02A 166 7.48e-01 1qspA a.24.10.2 16633 1k6wA 426 1.28e+00 b.92.1.2 68236 c.1.9.5 68237 1cr1A 296 1.31e+00 1cr1A c.37.1.11 32286 1cr0A 296 1.71e+00 1cr1A c.37.1.11 32287 1pmi 440 1.77e+00 1pmi b.82.1.3 28114 1gv4A 528 1.89e+00 c.3.1.5 70589 c.3.1.5 70590 d.87.1.1 70591 1aa8A 347 1.89e+00 1an9A 1gp1A 198 2.32e+00 1gp1A c.47.1.10 33059 1jc4A 148 2.60e+00 1jc4A d.32.1.4 62863 1m6iA 493 2.90e+00 c.3.1.5 74533 c.3.1.5 74534 d.87.1.1 74535 1mdoA 393 3.09e+00 c.67.1.4 79013 1gseA 221 3.14e+00 1pgtA a.45.1.1 17667 c.47.1.5 32961 1ht6A 405 3.18e+00 b.71.1.1 83629 c.1.8.1 83630 1k3lA 221 3.48e+00 a.45.1.1 77229 c.47.1.5 77230 1k3yA 221 3.48e+00 a.45.1.1 77245 c.47.1.5 77246 1hleA 345 3.59e+00 1ovaA e.1.1.1 42618 1oz9A 150 4.08e+00 unknown_sccs -10588 1ntvA 152 4.20e+00 b.55.1.2 86168 1nzjA 298 4.24e+00 c.26.1.1 -6600 1qumA 285 4.39e+00 1qumA c.1.15.1 29393 1a4mA 349 4.43e+00 1a4mA c.1.9.1 29014 1dmaA 214 5.31e+00 1aerA d.166.1.1 42251 1jflA 228 5.37e+00 c.78.2.1 71656 c.78.2.1 71657 1i1gA 141 5.75e+00 a.4.5.32 65982 d.58.4.2 65983 1qhlA 227 6.14e+00 1qhlA c.37.1.12 32382 1vjqA 79 6.95e+00 unknown_sccs -13478 1add 349 7.40e+00 1a4mA c.1.9.1 29020 1an9A 340 7.63e+00 1an9A c.4.1.2 30617 d.16.1.3 37904 1q9uA 130 7.69e+00 unknown_sccs -11025 1hdmA 201 7.90e+00 1iakA b.1.1.2 21583 d.19.1.1 38157 1ve9A 347 8.19e+00 c.4.1.2 -6056 d.16.1.3 -9214 1sv0C 82 8.23e+00 1qtwA 285 8.69e+00 1qumA c.1.15.1 29392 1q4mA 221 8.85e+00 unknown_sccs -1910 1ea5A 537 9.50e+00 2bce c.69.1.1 34592 1qidA 537 9.50e+00 2bce c.69.1.1 34593 1vxrA 537 9.67e+00 2bce c.69.1.1 34595 1e66A 543 9.88e+00 c.69.1.1 59291 1f3aA 222 1.02e+01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1r3nA 462 1.12e+01 c.56.5.4 -7872 d.58.19.1 -10096 1gox 370 1.18e+01 1gox c.1.4.1 28607 1ju2A 536 1.26e+01 c.3.1.2 77169 d.16.1.1 77170 1di0A 158 1.35e+01 1di0A c.16.1.1 30957 8abp 306 1.36e+01 8abp c.93.1.1 35647 1bli 483 1.37e+01 1bli b.71.1.1 27715 c.1.8.1 28702 1d0iA 156 1.37e+01 2dhqA c.23.13.1 31383 1jj2W 91 1.37e+01 1ffkU d.29.1.1 63108 1gl4B 98 1.40e+01 b.1.1.4 65288 1vdwA 254 1.42e+01 e.7.1.1 -11868 1s72X 92 1.42e+01 2scuA 288 1.43e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1dykA 394 1.44e+01 1dykA b.29.1.4 24223 b.29.1.4 24224 1jfrA 262 1.44e+01 1jfrA c.69.1.16 34724 1vjs 483 1.47e+01 1bli b.71.1.1 27714 c.1.8.1 28701 1asyA 490 1.52e+01 1b8aA b.40.4.1 25242 d.104.1.1 40763 3ebx 62 1.56e+01 3ebx g.7.1.1 44389 1nxb 62 1.59e+01 3ebx g.7.1.1 44395 1tqnA 486 1.66e+01 1r26A 125 1.82e+01 c.47.1.1 -7389 1ohuA 175 1.83e+01 f.1.4.1 -12058 1c7gA 456 1.86e+01 c.67.1.2 -8153 1ki1B 352 1.93e+01 a.87.1.1 72497 b.55.1.1 72498 1sek 378 1.93e+01 1sek e.1.1.1 42675 1fkx 349 1.94e+01 1a4mA c.1.9.1 29018 1chl 36 2.02e+01 1sis g.3.7.2 44157 1thg 544 2.03e+01 1thg c.69.1.17 34763 1aw0 72 2.06e+01 1aw0 d.58.17.1 39342 1ukfA 188 2.10e+01 unknown_sccs -8886 1ukcA 522 2.14e+01 1h0cA 392 2.17e+01 c.67.1.3 83424 1mo2A 294 2.18e+01 c.69.1.22 79331 1gumA 222 2.23e+01 1pgtA a.45.1.1 17683 c.47.1.5 32977 1gulA 222 2.23e+01 1pgtA a.45.1.1 17675 c.47.1.5 32969 1gtzA 156 2.33e+01 c.23.13.1 70539 1avaA 403 2.51e+01 1jdc b.71.1.1 27797 c.1.8.1 28784 1j0sA 157 2.54e+01 b.42.1.2 -4016 1csmA 256 2.62e+01 5csmA a.130.1.2 19495 1aszB 490 2.68e+01 1b8aA b.40.4.1 25241 d.104.1.1 40762 3tgl 269 2.68e+01 3tgl c.69.1.17 34733 1efdN 266 2.69e+01 1efdN c.92.2.1 35597 1i4wA 353 2.73e+01 c.66.1.24 66028 1gal 583 2.76e+01 1gpeA c.3.1.2 30386 d.16.1.1 37950 1nwbA 124 2.80e+01 b.124.1.1 86296 1qe3A 489 2.82e+01 2bce c.69.1.1 34630 1u4cA 349 2.85e+01 1dy2A 180 3.07e+01 1koe d.169.1.5 42451 1mvoA 136 3.11e+01 c.23.1.1 79513 1jfuA 186 3.14e+01 c.47.1.10 62940 1et1A 34 3.44e+01 1hpy j.15.1.1 46152 1tplA 426 3.44e+01 1ax4A c.67.1.2 34387 1j2mA 99 3.44e+01 a.165.1.1 84018 1nr3A 122 3.51e+01 d.236.1.1 86092 1kbvA 327 3.58e+01 b.6.1.3 68395 b.6.1.3 68396 1ux6A 350 3.58e+01 unknown_sccs -3451 unknown_sccs -12886 1vjnA 220 3.63e+01 unknown_sccs -11458 1nmeA 146 3.63e+01 c.17.1.1 85874 1scuA 288 3.67e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 16pk 415 3.70e+01 16pk c.86.1.1 35454 1lrzA 426 3.75e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1g5qA 181 3.81e+01 1g5qA c.34.1.1 60288 1pzsA 208 3.84e+01 1xvaA 292 3.87e+01 1xvaA c.66.1.5 34183 1bsjA 168 3.90e+01 1bs4A d.167.1.1 42302