# List of top-scoring protein chains for t04-100-30-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 1kllA 130 9.31e-08 d.32.1.2 72720 1fa8A 135 1.65e-05 1qipA d.32.1.1 38486 1f9zA 135 1.79e-05 1qipA d.32.1.1 38484 1kw3B 292 1.03e-04 d.32.1.3 77549 d.32.1.3 77550 1han 297 1.72e-04 1han d.32.1.3 38506 d.32.1.3 38507 1lkdA 297 2.09e-04 d.32.1.3 78059 d.32.1.3 78060 1ecsA 126 4.58e-04 1ecsA d.32.1.2 59407 1nkiA 135 8.84e-04 d.32.1.2 -9544 1lqpA 135 1.24e-03 d.32.1.2 78151 1qipA 183 4.06e-03 1qipA d.32.1.1 38470 1f1uA 323 5.43e-03 d.32.1.3 83200 d.32.1.3 83201 1f1xA 322 4.15e-02 d.32.1.3 83208 d.32.1.3 83209 1jc4A 148 6.26e-02 1jc4A d.32.1.4 62863 1oywA 523 2.08e-01 unknown_sccs -270 c.37.1.19 -7209 c.37.1.19 -7210 1r9cA 139 2.90e-01 d.32.1.2 -9557 1cjxA 357 3.22e-01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1na3A 91 3.98e-01 k.38.1.1 85481 1dynA 125 4.63e-01 1dynA b.55.1.1 26955 1bylA 125 6.21e-01 1bylA d.32.1.2 38495 1p1lA 102 7.09e-01 d.58.5.2 87695 1fukA 165 1.13e+00 1fukA c.37.1.19 32409 1qtoA 122 1.87e+00 1bylA d.32.1.2 38494 1heiA 451 2.73e+00 1heiA c.37.1.14 32463 c.37.1.14 32464 1uedA 406 2.92e+00 a.104.1.1 -1459 1fg7A 356 3.83e+00 1gewA c.67.1.1 59819 1kid 203 4.02e+00 1derA c.8.5.1 30771 1gewA 356 4.58e+00 1gewA c.67.1.1 60470 1g0oA 283 4.61e+00 1ybvA c.2.1.2 60181 1o54A 277 4.76e+00 c.66.1.13 -8095 1mi1A 414 5.34e+00 a.169.1.1 79137 b.55.1.6 79138 1eokA 290 5.40e+00 1eokA c.1.8.5 28991 1g5aA 628 5.44e+00 b.71.1.1 65152 c.1.8.1 65153 1ub3A 220 5.48e+00 c.1.10.1 88395 2cblA 305 5.55e+00 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1k20A 310 7.38e+00 c.107.1.1 68027 1dxeA 256 7.79e+00 1dxeA c.1.12.5 29310 1eazA 125 7.93e+00 b.55.1.1 70113 1tl2A 236 7.96e+00 1tl2A b.67.1.1 27541 2fcr 173 7.99e+00 1rcf c.23.5.1 31151 1d9tA 289 8.06e+00 1deaA 1ne7A 289 8.35e+00 unknown_sccs -6858 1qqgA 264 8.57e+00 1qqgA b.55.1.2 26987 b.55.1.2 26988 1rhcA 330 8.70e+00 c.1.16.3 -5606 1b4bA 71 8.95e+00 1b4aA d.74.2.1 39718 1mngA 203 9.14e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 1h12A 405 9.31e+00 a.102.1.2 83447 1s72H 171 9.67e+00 1pj5A 830 1.03e+01 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 7aatA 401 1.04e+01 1ajsA c.67.1.1 34250 1bykA 255 1.11e+01 1bykA c.93.1.1 35706 1em8A 147 1.12e+01 unknown_sccs -7272 1tvlA 454 1.15e+01 1uz5A 402 1.16e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 2ran 316 1.20e+01 1avc a.65.1.1 18170 1q7bA 244 1.22e+01 c.2.1.2 -5826 1klxA 138 1.32e+01 a.118.18.1 77440 1j77A 209 1.34e+01 1j77A a.132.1.2 62674 1hskA 326 1.34e+01 2mbr d.145.1.2 61241 d.146.1.1 61242 1lwjA 441 1.35e+01 b.71.1.1 74303 c.1.8.1 74304 1avaA 403 1.36e+01 1jdc b.71.1.1 27797 c.1.8.1 28784 2fmr 65 1.40e+01 2fmr d.51.1.1 38808 1aisA 182 1.41e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1j7gA 144 1.42e+01 c.110.1.1 84130 1spxA 278 1.44e+01 c.2.1.2 -5870 1go3F 107 1.46e+01 a.60.8.2 65407 1vhnA 318 1.53e+01 c.1.4.1 -5209 1nzaA 103 1.56e+01 d.58.5.2 86444 1jkeA 145 1.58e+01 c.110.1.1 66791 1ftrA 296 1.59e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1qsgA 265 1.65e+01 1eny c.2.1.2 29935 1mho 88 1.65e+01 1b4cA a.39.1.2 17171 1mxgA 435 1.66e+01 b.71.1.1 85193 c.1.8.1 85194 1ckv 141 1.68e+01 1ckv d.137.1.1 41452 1gkpA 458 1.74e+01 b.92.1.3 70231 c.1.9.6 70232 1qlpA 394 1.74e+01 1ovaA e.1.1.1 42628 1qwgA 251 1.85e+01 unknown_sccs -5678 1nqkA 381 1.87e+01 c.1.16.4 -5607 1j5pA 253 1.90e+01 c.2.1.3 83092 d.81.1.3 71577 1i9gA 280 1.92e+01 c.66.1.13 62090 1tph1 247 1.95e+01 1amk 1o3yA 166 2.10e+01 c.37.1.8 86618 1g8pA 350 2.14e+01 1g8pA c.37.1.20 60376 1mkeA 152 2.14e+01 b.55.1.4 79231 1f6bA 198 2.16e+01 c.37.1.8 64986 1oy3D 282 2.17e+01 d.211.1.1 87554 1jqeA 292 2.18e+01 c.66.1.19 71789 1ht6A 405 2.27e+01 b.71.1.1 83629 c.1.8.1 83630 1amy 403 2.28e+01 1jdc b.71.1.1 27799 c.1.8.1 28786 1v7wA 807 2.29e+01 1sbp 310 2.29e+01 1sbp c.94.1.1 35760 1bs0A 384 2.29e+01 1bs0A c.67.1.4 34490 1top 162 2.35e+01 1ncx a.39.1.5 17223 1r72A 211 2.43e+01 unknown_sccs -215 unknown_sccs -5981 1qyiA 384 2.45e+01 unknown_sccs -6836 1jj2Q 154 2.53e+01 1ffkO d.55.1.1 63102 1dp4A 435 2.58e+01 1dp4A c.93.1.1 35710 1o1zA 234 2.63e+01 c.1.18.3 86555 1edt 271 2.80e+01 2ebn c.1.8.5 28993 1riqA 465 2.86e+01 unknown_sccs -1295 d.104.1.1 -10769 1lvaA 258 2.89e+01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1s72R 155 2.94e+01 1jksA 294 2.99e+01 d.144.1.7 71710 1qxoA 388 3.01e+01 unknown_sccs -11161 1ja1A 622 3.09e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1reqA 727 3.11e+01 1reqA c.1.19.1 29620 c.23.6.1 31247 1k1aA 241 3.12e+01 d.211.1.1 67992 1chuA 540 3.17e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1h8eD 482 3.18e+01 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1udmA 149 3.20e+01 1fviA 297 3.23e+01 1fviA b.40.4.6 25364 d.142.2.1 41578 1pa4A 116 3.24e+01 d.52.7.1 -9780 1lla 628 3.24e+01 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.18.3 21861 1evlA 401 3.27e+01 1qf6A c.51.1.1 33202 d.104.1.1 40751 1srvA 145 3.27e+01 1derA c.8.5.1 30817 3fruA 269 3.28e+01 1agdA b.1.1.2 20657 d.19.1.1 38150 1dceB 331 3.31e+01 1dceB a.102.4.3 18872 2liv 344 3.31e+01 2liv c.93.1.1 35708 1mqvA 125 3.39e+01 a.24.3.2 79415 1sw6A 327 3.42e+01 1sw6A d.211.1.1 19176 2apr 325 3.55e+01 2er7E b.50.1.2 26819 1j5yA 187 3.55e+01 a.4.5.1 71592 d.94.2.1 71593 1a17 166 3.57e+01 1a17 a.118.8.1 19206 1jq5A 370 3.60e+01 e.22.1.2 67084 1h32A 261 3.70e+01 a.3.1.8 76618 a.3.1.8 76619 1a8b 318 3.71e+01 1avc a.65.1.1 18171 1dlyA 164 3.73e+01 1dlyA a.1.1.1 14983 1v88A 130 3.76e+01 1tml 286 3.82e+01 1tml c.6.1.1 30656 1cem 363 3.83e+01 1cem a.102.1.2 18826 1jykA 254 3.85e+01 c.68.1.13 67458 1tiqA 180 3.89e+01 1r5rA 119 3.93e+01 a.39.2.1 -893 1o0uA 429 3.98e+01 c.118.1.1 80743