# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 7.89e-60 1guqA d.13.1.2 37530 d.13.1.2 37531 1gupA 348 1.25e-59 1guqA d.13.1.2 37534 d.13.1.2 37535 1guqA 348 1.70e-59 1guqA d.13.1.2 37522 d.13.1.2 37523 1emsA 440 2.31e-14 1emsA d.13.1.1 37520 d.160.1.1 42086 1kpeA 126 1.80e-13 1kpf d.13.1.1 37508 1fit 147 2.61e-13 1fit d.13.1.1 37499 1kpf 126 3.42e-13 1kpf d.13.1.1 37507 2fhi 147 7.70e-13 1fit d.13.1.1 37505 1st0A 337 7.98e-02 2cmd 312 2.24e-01 2cmd c.2.1.5 30135 d.162.1.1 42102 1iuqA 367 5.40e-01 1s4nA 348 5.65e-01 1ptmA 329 6.01e-01 1uyrA 737 8.72e-01 1cjtA 217 9.73e-01 1azsA d.58.29.1 39419 1fg7A 356 1.21e+00 1gewA c.67.1.1 59819 1ml4A 308 1.27e+00 c.78.1.1 79255 c.78.1.1 79256 1o6zA 303 1.31e+00 c.2.1.5 81107 d.162.1.1 81108 1k30A 368 1.37e+00 c.112.1.1 68067 1od2A 805 1.40e+00 c.14.1.4 86821 c.14.1.4 86822 1hrkA 359 1.44e+00 1hrkA c.92.1.1 61228 1jyoA 130 1.78e+00 d.198.1.1 67483 1phk 298 2.12e+00 1cdkA d.144.1.7 41635 2polA 366 2.35e+00 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1g0sA 209 2.41e+00 1g0sA d.113.1.1 60187 1rr9A 200 2.50e+00 1jtvA 327 2.71e+00 c.2.1.2 84230 1bg0 356 2.77e+00 1qh4A a.83.1.1 18476 d.128.1.2 41211 1ldg 316 2.79e+00 1ceqA c.2.1.5 30165 d.162.1.1 42132 1m41A 380 2.92e+00 c.1.16.4 78595 1fds 327 2.92e+00 1fds c.2.1.2 29838 1g61A 228 2.99e+00 1g61A d.126.1.1 41126 1g0oA 283 3.26e+00 1ybvA c.2.1.2 60181 1ybvA 283 3.51e+00 1ybvA c.2.1.2 29948 1nstA 325 3.65e+00 1nstA c.37.1.5 31951 1rpl 251 3.73e+00 1bpyA a.60.12.1 75933 d.218.1.2 75934 1rreA 200 3.81e+00 1m15A 357 3.99e+00 a.83.1.1 78368 d.128.1.2 78369 1m55A 197 4.19e+00 d.89.1.3 74469 1nz0A 118 4.25e+00 d.14.1.2 86433 1j8bA 112 4.28e+00 d.222.1.1 77101 1fdt 327 4.32e+00 1fds c.2.1.2 29841 1lqtA 456 4.73e+00 c.3.1.1 74198 c.4.1.1 74199 1q0sA 259 4.75e+00 1t2dA 322 4.92e+00 1a27 289 4.97e+00 1fds c.2.1.2 29839 1rypH 205 5.04e+00 d.153.1.4 41876 1culA 217 5.09e+00 1azsA d.58.29.1 39417 1duvG 333 5.17e+00 1othA c.78.1.1 35228 c.78.1.1 35229 1i5rA 327 5.50e+00 c.2.1.2 83668 1bpb 248 5.81e+00 1bpyA a.60.12.1 75811 d.218.1.2 75812 1azsA 220 5.84e+00 1azsA d.58.29.1 39416 1nnwA 252 6.24e+00 d.159.1.5 80674 1mmiA 366 6.60e+00 1nqkA 381 6.62e+00 1othA 321 6.78e+00 1othA c.78.1.1 35260 c.78.1.1 35261 1cec 343 7.20e+00 1ceo c.1.8.3 28809 1j9jA 247 7.36e+00 c.106.1.1 62758 1dfeA 37 7.38e+00 1dfeA g.42.1.1 45318 1mz4A 137 7.63e+00 1mldA 314 7.69e+00 2cmd c.2.1.5 30122 d.162.1.1 42089 1dgzA 37 7.72e+00 1dfeA g.42.1.1 45319 1oe4A 247 8.16e+00 c.18.1.3 86895 1ceo 343 8.25e+00 1ceo c.1.8.3 28808 1uvqA 197 8.41e+00 1pinA 163 8.43e+00 1pinA b.72.1.1 27802 d.26.1.1 38431 1j9lA 247 8.46e+00 c.106.1.1 62762 1o5oA 221 8.61e+00 1vhmA 195 8.65e+00 1a0cA 438 8.72e+00 1a0cA c.1.15.3 29529 1gwmA 153 8.82e+00 b.18.1.19 83348 1ng2A 193 8.90e+00 b.34.2.1 85660 b.34.2.1 85661 1oi7A 288 8.95e+00 c.2.1.8 87049 c.23.4.1 87050 1eg7A 557 9.16e+00 1eg7A c.37.1.10 32241 1gr8A 412 9.22e+00 1ockA 412 9.22e+00 c.117.1.1 86802 1cmiA 85 9.29e+00 1cmiA d.39.1.1 38551 1b3eA 330 9.32e+00 1nnt c.94.1.2 35897 1nom 248 1.00e+01 1bpyA a.60.12.1 75929 d.218.1.2 75930 1rj9A 304 1.02e+01 1jmsA 381 1.08e+01 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 1f5aA 513 1.09e+01 1fa0B a.160.1.1 75835 d.218.1.3 75836 d.58.16.1 39337 1c52 131 1.11e+01 1c52 a.3.1.1 15810 1ceqA 316 1.13e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 1gz6A 319 1.16e+01 c.2.1.2 76410 1ge9A 184 1.17e+01 1dd5A d.67.3.1 60463 5gcnA 166 1.20e+01 1yghA d.108.1.1 40807 1ffkN 95 1.21e+01 1ffkN b.34.5.1 24606 1f76A 336 1.22e+01 c.1.4.1 76160 1hizA 379 1.22e+01 c.1.8.3 65841 2gn5 87 1.25e+01 1gvp b.40.4.7 25386 1fo3A 460 1.29e+01 1dl2A a.102.2.1 18845 1p3wA 404 1.30e+01 c.67.1.3 87752 1m7sA 484 1.30e+01 e.5.1.1 74574 1qgxA 357 1.33e+01 1qgxA e.7.1.1 42973 1ka1A 357 1.37e+01 e.7.1.1 68369 1i7oA 429 1.41e+01 1i7oA d.177.1.1 61893 d.177.1.1 61894 1qmeA 702 1.46e+01 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1j6wA 175 1.50e+01 1j98A d.185.1.2 62663 1qstA 160 1.50e+01 1yghA d.108.1.1 40804 1lr7A 74 1.50e+01 g.3.11.3 84679 g.15.1.1 84680 1sesA 421 1.52e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1ukkA 142 1.55e+01 1eg9A 449 1.63e+01 1ndoA b.33.1.2 24443 d.129.3.3 41322 1ffyA 917 1.64e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 1.64e+01 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 1o7nA 449 1.65e+01 b.33.1.2 81162 d.129.3.3 81163 1gttA 429 1.66e+01 d.177.1.1 70529 d.177.1.1 70530 1bzyA 217 1.69e+01 1qk3A c.61.1.1 34071 1mxgA 435 1.71e+01 b.71.1.1 85193 c.1.8.1 85194 3pfk 319 1.71e+01 3pfk c.89.1.1 35581 4pfk 319 1.71e+01 3pfk c.89.1.1 35582 1mbxC 106 1.72e+01 d.45.1.2 78929 1bo1A 416 1.72e+01 1bo1A d.143.1.2 41591 1gtmA 419 1.74e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1f3cA 89 1.78e+01 1cmiA d.39.1.1 38557 1ng4A 390 1.84e+01 c.3.1.2 85666 d.16.1.3 85667 1dhpA 292 1.85e+01 1dhpA c.1.10.1 29097 1ndoA 449 1.85e+01 1ndoA b.33.1.2 24444 d.129.3.3 41323 1cz1A 394 1.86e+01 1cz1A c.1.8.3 28839 1jyhA 157 1.87e+01 d.60.1.3 71956 1smd 496 1.88e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1jj2P 95 1.90e+01 1ffkN b.34.5.1 63101 1eqcA 394 1.91e+01 1cz1A c.1.8.3 28811 1qrkA 731 1.92e+01 1f13A b.1.18.9 21889 b.1.5.1 22187 b.1.5.1 22188 d.3.1.4 37119 1mkmA 249 1.92e+01 a.4.5.33 79242 d.110.2.2 79243 1vybA 238 1.94e+01 1f8aB 167 1.97e+01 1pinA b.72.1.1 27803 d.26.1.1 38432 1b35C 282 2.01e+01 1b35C 1h8mA 140 2.04e+01 1h8mA d.110.4.1 60782 1qrzA 246 2.04e+01 5ptp b.47.1.2 26366 1bpyA 335 2.04e+01 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1dtgA 334 2.05e+01 1nnt c.94.1.2 35896 1icxA 155 2.06e+01 d.129.3.1 71191 1ryoA 327 2.11e+01 1h0hA 977 2.14e+01 b.52.2.2 76435 c.81.1.1 76436 1o5iA 249 2.19e+01 1bix 287 2.20e+01 1bix d.151.1.1 41781 1o59A 355 2.23e+01 1xel 338 2.25e+01 1xel c.2.1.2 29786 1jq5A 370 2.26e+01 e.22.1.2 67084 1qg6A 261 2.31e+01 1eny c.2.1.2 29919 1nlbL 220 2.31e+01 b.1.1.1 80623 b.1.1.2 80624 1dyr 206 2.36e+01 1aoeA c.71.1.1 34916 1kngA 156 2.39e+01 c.47.1.10 72777 1pv9A 348 2.42e+01 1xgsA 295 2.45e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1eucA 311 2.61e+01 2scuA c.2.1.8 30311 c.23.4.1 31139 1bzsA 165 2.66e+01 1hfc d.92.1.11 40348 1hyeA 313 2.69e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1azsB 212 2.76e+01 1azsA d.58.29.1 39423 1o0xA 262 2.78e+01 d.127.1.1 80755 1add 349 2.78e+01 1a4mA c.1.9.1 29020 1o8uA 257 2.78e+01 c.14.1.3 81194 1scuA 288 2.79e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1kvs 338 2.80e+01 1xel c.2.1.2 29799 1fneA 192 2.82e+01 1iakA b.1.1.2 59896 d.19.1.1 59897 1fngA 192 2.82e+01 1iakA b.1.1.2 59904 d.19.1.1 59905 1b2pA 119 2.83e+01 1b2pA b.78.1.1 27998 1udb 338 2.90e+01 1xel c.2.1.2 29787 1gajA 257 2.90e+01 1gajA c.37.1.12 60416 1eudA 311 2.91e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1i76A 163 2.95e+01 1hfc d.92.1.11 61877 1dv2A 452 2.98e+01 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 1dqtA 117 3.00e+01 1ah1 b.1.1.1 20653 1hrnA 337 3.02e+01 1smrA b.50.1.2 26869 1hmpA 217 3.04e+01 1qk3A c.61.1.1 34075 1hx0A 496 3.04e+01 b.71.1.1 61346 c.1.8.1 61347 1byfA 125 3.06e+01 1byfA d.169.1.1 42419 1tlgA 125 3.06e+01 1byfA d.169.1.1 42421 1d3kA 329 3.08e+01 1nnt c.94.1.2 35889 1d7bA 186 3.10e+01 1d7bA b.1.9.1 22307 1d7cA 190 3.12e+01 1d7bA b.1.9.1 22309 2scuA 288 3.16e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1s9pA 227 3.16e+01 1ktbA 405 3.19e+01 b.71.1.1 72960 c.1.8.1 72961 1r3nA 462 3.23e+01 1cne 270 3.25e+01 1ndh b.43.4.2 25661 c.25.1.1 31551 1jhnA 424 3.26e+01 b.29.1.12 70060 b.104.1.1 66722 1i40A 175 3.27e+01 b.40.5.1 66024 1o5xA 248 3.31e+01 1korA 400 3.39e+01 c.26.2.1 72824 d.210.1.1 72825 1nv8A 284 3.42e+01 c.66.1.30 86224 1fkx 349 3.42e+01 1a4mA c.1.9.1 29018 2udpA 338 3.42e+01 1xel c.2.1.2 29791 1a4mA 349 3.46e+01 1a4mA c.1.9.1 29014 1nzyA 269 3.48e+01 1nzyA c.14.1.3 30903 1g6hA 257 3.48e+01 1gajA c.37.1.12 60318 1ipwA 175 3.48e+01 2prd b.40.5.1 25427 1ny1A 240 3.52e+01 c.6.2.3 86395 1ris 101 3.52e+01 1ris d.58.14.1 39314 1ul7A 102 3.53e+01 1udc 338 3.55e+01 1xel c.2.1.2 29785 1n9lA 109 3.55e+01 d.110.3.6 85468 3csuA 310 3.57e+01 3csuA c.78.1.1 35094 c.78.1.1 35095 1gewA 356 3.62e+01 1gewA c.67.1.1 60470 1pvvA 315 3.67e+01 1jj2B 337 3.67e+01 1ffkB b.43.3.2 63086 1c0pA 363 3.67e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1iqpA 327 3.67e+01 a.80.1.1 62649 c.37.1.20 62650 1bawA 105 3.69e+01 1plc b.6.1.1 22868 1hw5A 210 3.75e+01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1fo4A 1332 3.81e+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 1bob 320 3.82e+01 1bob d.108.1.1 40816 1pgl1 185 3.95e+01 1ee8A 266 3.96e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1a8e 329 3.98e+01 1cb6A c.94.1.2 35888 1uebA 184 3.99e+01