# List of top-scoring protein chains for t2k-100-30-str2 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 1hxpA 348 1.50e-76 1guqA d.13.1.2 37530 d.13.1.2 37531 1gupA 348 3.44e-76 1guqA d.13.1.2 37534 d.13.1.2 37535 1guqA 348 4.18e-76 1guqA d.13.1.2 37522 d.13.1.2 37523 1emsA 440 4.92e-18 1emsA d.13.1.1 37520 d.160.1.1 42086 1kpeA 126 1.14e-17 1kpf d.13.1.1 37508 1kpf 126 3.48e-17 1kpf d.13.1.1 37507 1fit 147 4.28e-17 1fit d.13.1.1 37499 2fhi 147 4.41e-16 1fit d.13.1.1 37505 1st0A 337 9.44e-03 1iuqA 367 8.65e-02 1uyrA 737 1.30e-01 1k30A 368 1.47e-01 c.112.1.1 68067 1cjtA 217 1.56e-01 1azsA d.58.29.1 39419 1phk 298 1.63e-01 1cdkA d.144.1.7 41635 5gcnA 166 2.16e-01 1yghA d.108.1.1 40807 2polA 366 2.64e-01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1s4nA 348 3.19e-01 1od2A 805 4.17e-01 c.14.1.4 86821 c.14.1.4 86822 1rewC 135 4.85e-01 1m15A 357 6.61e-01 a.83.1.1 78368 d.128.1.2 78369 1m55A 197 6.83e-01 d.89.1.3 74469 1qstA 160 7.45e-01 1yghA d.108.1.1 40804 1nz0A 118 7.46e-01 d.14.1.2 86433 2cmd 312 8.59e-01 2cmd c.2.1.5 30135 d.162.1.1 42102 1mmiA 366 8.62e-01 1azsB 212 9.42e-01 1azsA d.58.29.1 39423 1nstA 325 9.45e-01 1nstA c.37.1.5 31951 1duvG 333 1.02e+00 1othA c.78.1.1 35228 c.78.1.1 35229 1bg0 356 1.04e+00 1qh4A a.83.1.1 18476 d.128.1.2 41211 1hrkA 359 1.28e+00 1hrkA c.92.1.1 61228 1o6zA 303 1.34e+00 c.2.1.5 81107 d.162.1.1 81108 1ge9A 184 1.46e+00 1dd5A d.67.3.1 60463 1culA 217 1.48e+00 1azsA d.58.29.1 39417 1g0sA 209 1.55e+00 1g0sA d.113.1.1 60187 1fohA 664 1.94e+00 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1nd4A 264 2.10e+00 1vh5A 148 2.31e+00 1hw5A 210 2.53e+00 2cgpA a.4.5.4 16098 b.82.3.2 28137 1ab8A 220 2.54e+00 1azsA d.58.29.1 39414 1ptmA 329 2.92e+00 1dfeA 37 3.07e+00 1dfeA g.42.1.1 45318 1ef8A 261 3.17e+00 1ef8A c.14.1.3 30921 1rypH 205 3.21e+00 d.153.1.4 41876 1gwmA 153 3.26e+00 b.18.1.19 83348 1pinA 163 3.27e+00 1pinA b.72.1.1 27802 d.26.1.1 38431 1h8mA 140 3.34e+00 1h8mA d.110.4.1 60782 1ml4A 308 3.35e+00 c.78.1.1 79255 c.78.1.1 79256 1rpl 251 3.66e+00 1bpyA a.60.12.1 75933 d.218.1.2 75934 1dgzA 37 3.75e+00 1dfeA g.42.1.1 45319 1f8aB 167 3.76e+00 1pinA b.72.1.1 27803 d.26.1.1 38432 1jksA 294 3.83e+00 d.144.1.7 71710 1c0pA 363 4.15e+00 1an9A c.4.1.2 30647 d.16.1.3 37934 1pn0A 665 4.40e+00 1jyoA 130 4.63e+00 d.198.1.1 67483 1odmA 331 4.83e+00 b.82.2.1 86875 1azsA 220 4.85e+00 1azsA d.58.29.1 39416 1cmiA 85 5.05e+00 1cmiA d.39.1.1 38551 1oe4A 247 5.33e+00 c.18.1.3 86895 1nv8A 284 5.33e+00 c.66.1.30 86224 1d7bA 186 5.77e+00 1d7bA b.1.9.1 22307 1d7cA 190 5.80e+00 1d7bA b.1.9.1 22309 1lqtA 456 5.86e+00 c.3.1.1 74198 c.4.1.1 74199 1c52 131 5.96e+00 1c52 a.3.1.1 15810 1ng2A 193 6.00e+00 b.34.2.1 85660 b.34.2.1 85661 2cgpA 210 6.46e+00 2cgpA a.4.5.4 16102 b.82.3.2 28141 1bo1A 416 6.80e+00 1bo1A d.143.1.2 41591 1fg7A 356 6.98e+00 1gewA c.67.1.1 59819 1xel 338 7.02e+00 1xel c.2.1.2 29786 1nlbL 220 7.40e+00 b.1.1.1 80623 b.1.1.2 80624 1bk0 331 7.51e+00 1bk0 b.82.2.1 28118 1qgxA 357 7.69e+00 1qgxA e.7.1.1 42973 1ka1A 357 7.75e+00 e.7.1.1 68369 2gn5 87 7.89e+00 1gvp b.40.4.7 25386 1gr8A 412 7.91e+00 1ockA 412 7.91e+00 c.117.1.1 86802 1j6wA 175 8.06e+00 1j98A d.185.1.2 62663 1kvs 338 8.47e+00 1xel c.2.1.2 29799 1jyhA 157 8.69e+00 d.60.1.3 71956 1d5yA 292 8.70e+00 1d5yA a.4.1.8 16055 a.4.1.8 16056 d.60.1.2 39532 1sesA 421 8.91e+00 1sesA a.2.7.1 15710 d.104.1.1 40710 1qmeA 702 9.03e+00 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1udb 338 9.22e+00 1xel c.2.1.2 29787 1othA 321 9.28e+00 1othA c.78.1.1 35260 c.78.1.1 35261 1g61A 228 9.34e+00 1g61A d.126.1.1 41126 1byfA 125 9.59e+00 1byfA d.169.1.1 42419 1bpb 248 9.61e+00 1bpyA a.60.12.1 75811 d.218.1.2 75812 1es7B 89 9.91e+00 1es7B g.7.1.3 44465 1f2tB 148 9.97e+00 1f2tB 1mz4A 137 1.01e+01 1vhmA 195 1.03e+01 1rr9A 200 1.04e+01 1oihA 301 1.08e+01 1hizA 379 1.09e+01 c.1.8.3 65841 2udpA 338 1.10e+01 1xel c.2.1.2 29791 1ffyA 917 1.10e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 1.10e+01 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 1o5zA 442 1.12e+01 1ukkA 142 1.13e+01 1nom 248 1.14e+01 1bpyA a.60.12.1 75929 d.218.1.2 75930 1udc 338 1.16e+01 1xel c.2.1.2 29785 1uebA 184 1.17e+01 1oniA 137 1.26e+01 d.79.1.1 87144 1mbxC 106 1.31e+01 d.45.1.2 78929 1fo4A 1332 1.31e+01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1a0cA 438 1.35e+01 1a0cA c.1.15.3 29529 1cz1A 394 1.35e+01 1cz1A c.1.8.3 28839 1tlgA 125 1.37e+01 1byfA d.169.1.1 42421 1hcxA 127 1.38e+01 b.109.1.1 65800 1pl3A 186 1.39e+01 b.1.9.1 88158 1bxeA 113 1.43e+01 1bxeA d.55.1.1 38898 1b35C 282 1.48e+01 1b35C 1eqcA 394 1.49e+01 1cz1A c.1.8.3 28811 1s9pA 227 1.50e+01 1jtvA 327 1.53e+01 c.2.1.2 84230 1s98A 107 1.53e+01 1g71A 347 1.58e+01 1g71A e.16.1.1 43268 1ji8A 111 1.59e+01 d.203.1.1 66733 1f2hA 169 1.59e+01 1f3vA d.58.22.1 59612 1fpzA 212 1.59e+01 1fpzA c.45.1.1 59976 1gal 583 1.59e+01 1gpeA c.3.1.2 30386 d.16.1.1 37950 1bawA 105 1.61e+01 1plc b.6.1.1 22868 1pvvA 315 1.62e+01 1rreA 200 1.64e+01 1bpyA 335 1.67e+01 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1o5iA 249 1.68e+01 1psuA 140 1.69e+01 d.38.1.5 88285 1o7nA 449 1.75e+01 b.33.1.2 81162 d.129.3.3 81163 1b2pA 119 1.76e+01 1b2pA b.78.1.1 27998 1fds 327 1.81e+01 1fds c.2.1.2 29838 1ktbA 405 1.82e+01 b.71.1.1 72960 c.1.8.1 72961 1h4xA 117 1.84e+01 1auz c.13.2.1 60626 1hp4A 512 1.86e+01 1hp4A c.1.8.6 61111 d.92.2.1 61112 1hp5A 512 1.86e+01 1hp4A c.1.8.6 61113 d.92.2.1 61114 2fbjL 213 1.91e+01 8fabA b.1.1.1 19850 b.1.1.2 20954 1jakA 512 1.92e+01 c.1.8.6 66472 d.92.2.1 66473 1ihmA 530 1.94e+01 1ihmA b.121.4.3 62385 1ur1A 378 1.94e+01 1jmsA 381 1.95e+01 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 1h0hA 977 1.98e+01 b.52.2.2 76435 c.81.1.1 76436 1fyhA 258 1.99e+01 1d9cA a.26.1.3 16907 a.26.1.3 16908 1mldA 314 2.02e+01 2cmd c.2.1.5 30122 d.162.1.1 42089 1a27 289 2.03e+01 1fds c.2.1.2 29839 1a1s 314 2.04e+01 1othA c.78.1.1 35258 c.78.1.1 35259 1gpeA 587 2.05e+01 1gpeA c.3.1.2 30387 d.16.1.1 37951 1ipwA 175 2.08e+01 2prd b.40.5.1 25427 1i1gA 141 2.10e+01 a.4.5.32 65982 d.58.4.2 65983 1eg9A 449 2.14e+01 1ndoA b.33.1.2 24443 d.129.3.3 41322 1eluB 390 2.15e+01 1elqA c.67.1.3 34435 1elqA 390 2.18e+01 1elqA c.67.1.3 34436 1jvwA 167 2.18e+01 d.26.1.1 71907 1eluA 390 2.19e+01 1elqA c.67.1.3 34434 1aua 296 2.19e+01 1aua a.5.3.1 16290 c.13.1.1 30882 1eikA 77 2.20e+01 1eikA d.78.1.1 39751 1ndoA 449 2.20e+01 1ndoA b.33.1.2 24444 d.129.3.3 41323 2at2A 300 2.20e+01 3csuA c.78.1.1 35196 c.78.1.1 35197 1i40A 175 2.22e+01 b.40.5.1 66024 1aocA 175 2.22e+01 1aocA g.17.1.5 44817 1fdt 327 2.26e+01 1fds c.2.1.2 29841 1px5A 349 2.29e+01 1bmv1 198 2.32e+01 1bmv1 1obwA 175 2.33e+01 2prd b.40.5.1 25416 1eg7A 557 2.40e+01 1eg7A c.37.1.10 32241 1j93A 353 2.45e+01 c.1.22.1 66454 1fo3A 460 2.45e+01 1dl2A a.102.2.1 18845 1ldg 316 2.48e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1nzyA 269 2.51e+01 1nzyA c.14.1.3 30903 1ee8A 266 2.51e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1o8uA 257 2.52e+01 c.14.1.3 81194 1q8iA 783 2.54e+01 1b3eA 330 2.60e+01 1nnt c.94.1.2 35897 1pgl1 185 2.63e+01 1n13B 113 2.63e+01 1iwgA 1053 2.66e+01 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1ffkN 95 2.73e+01 1ffkN b.34.5.1 24606 1ceqA 316 2.75e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 1p3wA 404 2.76e+01 c.67.1.3 87752 1hrnA 337 2.84e+01 1smrA b.50.1.2 26869 1squA 155 2.92e+01 1iq4A 179 2.99e+01 1iq4A d.77.1.1 62641 1bo4B 168 3.08e+01 1bo4A d.108.1.1 40799 1ul7A 102 3.09e+01 1jpyA 137 3.18e+01 g.17.1.6 67065 1cf3A 583 3.18e+01 1gpeA c.3.1.2 30385 d.16.1.1 37949 1br0A 120 3.20e+01 a.47.2.1 17772 1i7oA 429 3.22e+01 1i7oA d.177.1.1 61893 d.177.1.1 61894 1gyxA 76 3.24e+01 d.80.1.1 76387 1huuA 90 3.24e+01 1huuA a.55.1.1 17897 1t2dA 322 3.31e+01 1lfaA 187 3.33e+01 1ido c.62.1.1 34122 1kyqA 274 3.33e+01 c.2.1.11 73281 e.37.1.1 73282 1unkA 87 3.36e+01 1cei a.28.2.1 16935 1pvc1 301 3.38e+01 1pov1 1i5rA 327 3.42e+01 c.2.1.2 83668 1gvnA 90 3.52e+01 a.8.2.1 76353 1lr7A 74 3.55e+01 g.3.11.3 84679 g.15.1.1 84680 3dni 260 3.57e+01 3dni d.151.1.1 41791 1ng4A 390 3.65e+01 c.3.1.2 85666 d.16.1.3 85667 1uolA 219 3.65e+01 1ndh 272 3.66e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 1o0iA 138 3.68e+01 d.38.1.5 86532 1f5aA 513 3.72e+01 1fa0B a.160.1.1 75835 d.218.1.3 75836 d.58.16.1 39337 1pv9A 348 3.84e+01 1hrzA 76 3.84e+01 1hryA a.21.1.1 16430 1mngA 203 3.93e+01 1avmA a.2.11.1 15776 d.44.1.1 38701