# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1gdgA 293 8.85e-04 1kw3B 292 1.01e-03 d.32.1.3 77549 d.32.1.3 77550 1dhy 292 2.19e-03 1han d.32.1.3 38504 d.32.1.3 38505 1lgtA 297 5.82e-03 d.32.1.3 77956 d.32.1.3 77957 1han 297 6.51e-03 1han d.32.1.3 38506 d.32.1.3 38507 1lkdA 297 7.78e-03 d.32.1.3 78059 d.32.1.3 78060 1kllA 130 3.02e-01 d.32.1.2 72720 1qqgA 264 1.27e+00 1qqgA b.55.1.2 26987 b.55.1.2 26988 1jc4A 148 1.59e+00 1jc4A d.32.1.4 62863 1f9zA 135 1.97e+00 1qipA d.32.1.1 38484 1fa8A 135 2.85e+00 1qipA d.32.1.1 38486 1oywA 523 3.14e+00 unknown_sccs -270 c.37.1.19 -7209 c.37.1.19 -7210 1pj5A 830 3.16e+00 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1pn0A 665 3.27e+00 c.3.1.2 -5992 c.47.1.10 -7513 d.16.1.2 -9210 1h12A 405 3.45e+00 a.102.1.2 83447 1dynA 125 4.09e+00 1dynA b.55.1.1 26955 1p1lA 102 4.59e+00 d.58.5.2 87695 1jqeA 292 4.63e+00 c.66.1.19 71789 1dl5A 317 4.85e+00 1dl5A c.66.1.7 64720 d.197.1.1 64721 1em8A 147 5.43e+00 unknown_sccs -7272 1na3A 91 6.17e+00 k.38.1.1 85481 1heiA 451 6.83e+00 1heiA c.37.1.14 32463 c.37.1.14 32464 1f6bA 198 6.92e+00 c.37.1.8 64986 2dynA 122 7.09e+00 1dynA b.55.1.1 26957 1fohA 664 7.42e+00 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 8ohm 435 7.51e+00 1heiA c.37.1.14 32469 c.37.1.14 32470 1e8aA 91 7.64e+00 1b4cA a.39.1.2 17188 1hvd 319 8.00e+00 1avc a.65.1.1 18154 1fg7A 356 8.23e+00 1gewA c.67.1.1 59819 1eazA 125 8.26e+00 b.55.1.1 70113 1mpyA 307 8.30e+00 1mpyA d.32.1.3 38508 d.32.1.3 38509 1q7bA 244 8.37e+00 c.2.1.2 -5826 1gewA 356 8.49e+00 1gewA c.67.1.1 60470 1b4bA 71 8.51e+00 1b4aA d.74.2.1 39718 1jkeA 145 8.88e+00 c.110.1.1 66791 7aatA 401 9.13e+00 1ajsA c.67.1.1 34250 1bo9A 73 9.60e+00 1bo9A a.65.1.1 18146 1t6uA 117 9.70e+00 3fruA 269 1.03e+01 1agdA b.1.1.2 20657 d.19.1.1 38150 1ogiA 303 1.18e+01 b.43.4.2 -4042 c.25.1.1 -6587 1fr9A 194 1.20e+01 1fr9A c.68.1.8 34579 2ran 316 1.23e+01 1avc a.65.1.1 18170 1anxA 319 1.23e+01 1avc a.65.1.1 18161 1h6oA 204 1.25e+01 a.146.1.1 60689 1brmA 367 1.28e+01 1brmA c.2.1.3 30030 d.81.1.1 39945 1fukA 165 1.33e+01 1fukA c.37.1.19 32409 1que 303 1.36e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 1a8a 318 1.39e+01 1avc a.65.1.1 18169 1ja1A 622 1.43e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1amoA 615 1.49e+01 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1gs5A 258 1.57e+01 c.73.1.2 70395 1kqzA 273 1.58e+01 c.1.8.5 68844 1kqyA 273 1.60e+01 c.1.8.5 68843 1t4bA 367 1.61e+01 2hvm 273 1.72e+01 1cnv c.1.8.5 28985 1ucrA 78 1.77e+01 unknown_sccs -308 1o54A 277 1.77e+01 c.66.1.13 -8095 1s7oA 113 1.77e+01 1lrzA 426 1.80e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1vhcA 224 1.81e+01 c.1.10.1 -5488 1q1gA 276 1.85e+01 c.56.2.1 -7846 1q0gA 117 1.93e+01 1n6zA 105 1.95e+01 unknown_sccs 85369 1r5rA 119 2.00e+01 a.39.2.1 -893 1udmA 149 2.01e+01 1dxeA 256 2.02e+01 1dxeA c.1.12.5 29310 1qh0A 295 2.08e+01 b.43.4.2 68891 c.25.1.1 68892 1d5rA 324 2.17e+01 1d5rA b.7.1.1 23181 c.45.1.1 32697 1btn 106 2.21e+01 1btn b.55.1.1 26952 1ftrA 296 2.50e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1qsaA 618 2.50e+01 1qsaA a.118.5.1 19182 d.2.1.6 36988 1mho 88 2.53e+01 1b4cA a.39.1.2 17171 1j77A 209 2.58e+01 1j77A a.132.1.2 62674 1a8b 318 2.67e+01 1avc a.65.1.1 18171 2cmd 312 2.71e+01 2cmd c.2.1.5 30135 d.162.1.1 42102 1f3yA 165 2.77e+01 d.113.1.1 59635 1q08A 99 2.82e+01 a.6.1.3 -381 1bykA 255 2.90e+01 1bykA c.93.1.1 35706 1tvlA 454 2.93e+01 1bak 119 2.98e+01 1bak b.55.1.1 26973 1cjxA 357 3.10e+01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1dkuA 317 3.10e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1ewkA 490 3.17e+01 1ewkA c.93.1.1 35712 1sly 618 3.17e+01 1qsaA a.118.5.1 19184 d.2.1.6 36990 1go2A 304 3.20e+01 b.43.4.2 76243 c.25.1.1 76244 1f1xA 322 3.21e+01 d.32.1.3 83208 d.32.1.3 83209 1fa0A 537 3.24e+01 1fa0B a.160.1.1 75837 d.218.1.3 75838 d.58.16.1 39335 1i9gA 280 3.35e+01 c.66.1.13 62090 1s96A 219 3.42e+01 c.37.1.1 -6972 1f1uA 323 3.49e+01 d.32.1.3 83200 d.32.1.3 83201 1e5kA 201 3.49e+01 1fr9A c.68.1.8 34578 1qr6A 584 3.58e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 1ncx 162 3.59e+01 1ncx a.39.1.5 17222 1akz 223 3.71e+01 3eugA c.18.1.1 31007 1qg6A 261 3.72e+01 1eny c.2.1.2 29919 1brlA 355 3.75e+01 1lucA c.1.16.1 29553 1rhcA 330 3.87e+01 c.1.16.3 -5606 1jajA 174 3.96e+01 d.218.1.2 66471