# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-scores 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.soe.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 2plsA 86 1.18e-16 2oaiA 94 4.21e-16 2p13A 90 8.25e-16 2nqwA 93 6.39e-15 2o1rA 81 1.01e-14 2p4pA 86 1.17e-14 2pliA 91 1.39e-14 2rk5A 87 1.78e-11 2p3hA 101 3.32e-10 2pp6A 102 4.04e-01 1z06A 189 1.15e+00 c.37.1.8 124301 1ifc 132 1.25e+00 1ifcA 132 1.25e+00 b.60.1.2 27173 1icmA 131 1.31e+00 b.60.1.2 27174 2hy1A 280 1.60e+00 1wh2A 78 1.61e+00 d.76.1.1 114630 1jb7B 260 1.61e+00 1otcB b.40.4.3 62839 1sq5A 308 1.72e+00 c.37.1.6 105882 1c0pA 363 1.84e+00 1an9A c.4.1.2,d.16.1.3 30647,37934 2amwA 83 2.19e+00 2g2kA 170 2.28e+00 1i8dA 213 2.34e+00 b.43.4.3,b.43.4.3 61953,61954 1b8aA 438 2.99e+00 1b8aA b.40.4.1,d.104.1.1 25244,40765 2b49A 287 3.19e+00 1c3oB 382 3.27e+00 1c3oB c.8.3.1,c.23.16.1 30744,31421 2nrlA 147 3.48e+00 2gcuA 245 3.57e+00 1urjA 1136 4.17e+00 e.58.1.1 113410 2anrA 178 4.18e+00 2ehsA 77 4.45e+00 1a9xB 379 4.58e+00 1c3oB c.8.3.1,c.23.16.1 30732,31409 1c30B 382 4.61e+00 c.8.3.1,c.23.16.1 30736,31413 1jztA 246 4.89e+00 c.104.1.1 63319 1vr9A 213 5.04e+00 d.37.1.1,d.37.1.1 120446,120447 2i6gA 199 5.09e+00 c.66.1.44 137096 1cnuA 137 5.32e+00 1cof d.109.1.2 40862 1p6pA 125 5.67e+00 b.60.1.2 87839 1l1nA 183 5.80e+00 b.47.1.4 73476 1hk8A 605 6.24e+00 c.7.1.3 83540 1kzlA 208 7.20e+00 b.43.4.3,b.43.4.3 77635,77636 1uptA 171 7.27e+00 c.37.1.8 99767 1cs0B 382 7.39e+00 1c3oB c.8.3.1,c.23.16.1 30740,31417 1g3qA 237 7.45e+00 1hyqA c.37.1.10 60237 1ywsA 82 7.75e+00 g.41.17.1 124163 2aorA 223 7.91e+00 1smlA 269 8.75e+00 1smlA d.157.1.1 42053 2aioA 269 8.75e+00 d.157.1.1 126829 1o3yA 166 8.92e+00 c.37.1.8 86618 3cfuA 159 9.16e+00 1gycA 499 9.20e+00 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 2a5dA 175 9.46e+00 c.37.1.8 126172 1eyqA 222 1.05e+01 1eypA d.36.1.1 38534 1aisA 182 1.07e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1nofA 383 1.17e+01 b.71.1.2,c.1.8.3 92020,92021 2z14A 133 1.19e+01 1azo 232 1.21e+01 1azo 1azoA 232 1.21e+01 c.52.1.14 33329 1r4aA 165 1.24e+01 c.37.1.8 96986 1hlgA 371 1.27e+01 1hlgA c.69.1.6 34656 1sjiA 350 1.27e+01 1zfjA 491 1.32e+01 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1tw4A 125 1.32e+01 b.60.1.2 112690 2cx6A 90 1.35e+01 c.9.1.1 130981 1vmeA 410 1.40e+01 c.23.5.1,d.157.1.3 108893,108894 1ionA 243 1.42e+01 c.37.1.10 62633 1b66A 140 1.45e+01 1b66A d.96.1.2 40657 1hskA 326 1.49e+01 2mbr d.145.1.2,d.146.1.1 61241,61242 1tmxA 293 1.51e+01 2btiA 63 1.56e+01 1b5pA 385 1.58e+01 c.67.1.1 90403 1pczA 191 1.58e+01 1ytbA d.129.1.1,d.129.1.1 41292,41293 1wv2A 265 1.62e+01 c.1.31.1 114910 1ve1A 304 1.66e+01 c.79.1.1 120007 1vpzA 73 1.66e+01 b.151.1.1 113998 2fztA 79 1.68e+01 a.46.3.1 134476 1fxiA 96 1.72e+01 1awd d.15.4.1 37664 2pjmA 226 1.73e+01 2p18A 311 1.75e+01 1yvcA 70 1.75e+01 b.40.4.12 124094 1udxA 416 1.76e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 2ehjA 208 1.77e+01 1zcbA 362 1.80e+01 a.66.1.1,c.37.1.8 124901,124902 1yb2A 275 1.80e+01 c.66.1.13 122868 1tvgA 153 1.83e+01 b.18.1.9 112683 1nsf 273 1.83e+01 1d2nA 1d3uA 181 1.84e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 1r8sA 164 1.86e+01 c.37.1.8 97247 2vdxA 373 1.90e+01 1a8y 367 1.95e+01 1a8y 1a8yA 367 1.95e+01 c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1hs6A 611 2.01e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 2bv5A 282 2.04e+01 2vj8A 611 2.04e+01 2qo4A 126 2.04e+01 2qt6A 498 2.09e+01 1st9A 143 2.11e+01 c.47.1.10 98987 1d2nA 272 2.14e+01 1d2nA c.37.1.20 32428 2f9sA 151 2.16e+01 c.47.1.10 133168 1cfyA 143 2.16e+01 1cof d.109.1.2 40858 1qhoA 686 2.22e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1h2aS 317 2.29e+01 2frvA e.19.1.1 43311 3choA 610 2.38e+01 2e6mA 208 2.46e+01 2uuuA 584 2.50e+01 2f7vA 369 2.52e+01 2g7bA 137 2.56e+01 1rewC 135 2.57e+01 g.7.1.3 97336 1kq8A 100 2.64e+01 a.4.5.14 68797 1a6dB 543 2.69e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19489,30820,38937 2r0yA 311 2.71e+01 2f40A 96 2.71e+01 i.11.1.1 132903 2rb7A 364 2.72e+01 1lybB 241 2.77e+01 1smrA 2oauA 306 2.84e+01 b.38.1.3,d.58.43.1,f.34.1.1 138978,138979,138980 1mp9A 198 2.86e+01 d.129.1.1,d.129.1.1 91385,91386 2h62C 129 2.87e+01 g.7.1.3 136179 1v5tA 90 2.87e+01 d.15.1.1 108385 2r6gG 296 2.88e+01 2dxeA 160 2.94e+01 d.58.6.1 131870 2cwkA 160 2.94e+01 d.58.6.1 130925 1fggA 261 2.98e+01 1fggA c.68.1.7 34576 1kwsA 261 2.98e+01 c.68.1.7 73083 1nh8A 304 2.99e+01 c.94.1.1,d.58.5.3 80507,80508 3cu0A 281 2.99e+01 2qcoA 210 2.99e+01 2i71A 400 3.03e+01 1yopA 83 3.12e+01 g.41.17.1 123782 1xm8A 254 3.14e+01 d.157.1.2 115475 2g6bA 180 3.20e+01 c.37.1.8 134701 1ucdA 190 3.22e+01 d.124.1.1 107767 2eq8C 40 3.26e+01 1mwsA 646 3.29e+01 d.17.4.5,d.175.1.1,e.3.1.1 79592,79593,79594 2fmlA 273 3.33e+01 a.4.5.68,d.113.1.6 133778,133779 2uv4A 152 3.35e+01 2fr7A 412 3.39e+01 2h57A 190 3.40e+01 2b1xA 470 3.40e+01 b.33.1.2,d.129.3.3 127675,127676 2pia 321 3.47e+01 2pia 2piaA 321 3.47e+01 b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 2bijA 305 3.53e+01 1uliA 460 3.53e+01 b.33.1.2,d.129.3.3 107921,107922 2yxbA 161 3.55e+01 1jqgA 433 3.56e+01 c.56.5.1,d.58.3.1 71791,71792 2j0fA 482 3.57e+01 3bwvA 180 3.66e+01 1f37A 110 3.70e+01 1f37A c.47.1.11 33088 2dg5B 190 3.72e+01 1hjxA 362 3.74e+01 c.1.8.5,d.26.3.1 83512,83513 1hfuA 503 3.74e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 2ctdA 96 3.77e+01 g.37.1.1,g.37.1.1 130792,130793 1zzoA 136 3.77e+01 c.47.1.10 125913 1svsA 353 3.81e+01 c.37.1.8 106051 1a65A 504 3.84e+01 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 2vg9A 217 3.84e+01 2c1fA 234 3.84e+01 1uocA 289 3.90e+01 c.55.3.9 99686 1t3bA 211 3.91e+01 c.47.1.9,d.17.3.1 106341,106342 1zc0A 309 3.92e+01 1efpB 252 3.92e+01 1efvB c.26.2.3 31636 1dpeA 507 3.99e+01 c.94.1.1 35799 2om6A 235 4.13e+01 2hrgA 496 4.17e+01 1xcbA 211 4.18e+01 a.4.5.38,c.2.1.12 109552,109553 1ybyA 215 4.22e+01 2i75A 320 4.23e+01 1frrA 95 4.40e+01 1awd d.15.4.1 37674 2ohdA 151 4.42e+01 2rkuA 294 4.42e+01 1hkqA 132 4.50e+01 a.4.5.10 83555 1ctaA 36 4.55e+01 1ctdA a.39.1.5 17232 1r12A 258 4.57e+01 c.23.14.3 96780 2zivB 351 4.58e+01 1b0xA 94 4.59e+01 1b4fA a.60.1.2 17933 1jkw 323 4.61e+01 1jkw 2eifA 136 4.70e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1ve0A 134 4.75e+01 1ok7A 366 4.76e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 2ftbA 125 4.77e+01 b.60.1.2 134057 1pytC 253 4.77e+01 5ptp b.47.1.2 26233 2bbhA 269 4.78e+01 d.328.1.1 128266 2f9hA 129 4.81e+01 b.161.1.1 133162 1kxu 333 4.92e+01 1jkw 1kxuA 333 4.92e+01 a.74.1.1,a.74.1.1 18358,18359 2oa8A 233 4.93e+01 1i19A 561 4.95e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 2g95A 491 4.97e+01 2yvyA 278 5.00e+01 1j9lA 247 5.00e+01 c.106.1.1 62762 2z1uA 343 5.01e+01 2vafA 378 5.02e+01 1umgA 362 5.07e+01 d.280.1.1 107956 2f02A 323 5.19e+01 c.72.1.1 132649 1zg2A 107 5.20e+01 1tueA 212 5.22e+01 c.37.1.20 107323 1hi0P 664 5.26e+01 1hi0P e.8.1.6 61051 1zirA 173 5.28e+01 b.11.1.1,b.11.1.1 125126,125127 3bs2A 148 5.29e+01 1t8kA 77 5.29e+01 a.28.1.1 106666 2b6hA 192 5.29e+01 c.37.1.8 127994 1esmA 316 5.36e+01 1esmA c.37.1.6 31953 1r4wA 226 5.38e+01 c.47.1.13 97050 2hzlA 365 5.38e+01 2i6cA 160 5.42e+01 d.108.1.1 137095 1qw2A 102 5.44e+01 d.249.1.1 96456 1vlwA 217 5.48e+01 c.1.10.1 108868 2c1cA 312 5.53e+01 c.56.5.1 129630 1ncx 162 5.53e+01 1ncx 1bjwA 382 5.54e+01 1bjwA c.67.1.1 34349 2pqvA 154 5.62e+01 1xruA 282 5.64e+01 b.82.1.13 122262 1ny72 369 5.70e+01 3bfmA 235 5.71e+01 3ce7A 107 5.72e+01 1kyhA 276 5.73e+01 c.72.1.4 73222 2d13A 227 5.74e+01 c.26.2.1 131121 1v8dA 235 5.76e+01 c.140.1.1 108425 1lfoA 127 5.83e+01 b.60.1.2 27223 1vqqA 646 5.83e+01 d.17.4.5,d.175.1.1,e.3.1.1 114009,114010,114011 1wcv1 257 5.89e+01 1s6cA 183 5.89e+01 a.39.1.5 98594 1iq0A 592 5.90e+01 a.27.1.1,c.26.1.1,d.67.2.1 66257,66258,66259 1b2sD 90 5.90e+01 1ay7B c.9.1.1 30837 2p6hA 134 5.93e+01 2qv2A 342 5.95e+01 1uvjA 664 6.08e+01 e.8.1.6 100045 2owbA 335 6.14e+01 1vqzA 341 6.16e+01 d.224.1.3,d.104.1.3 120426,120427 1nt4A 391 6.21e+01 c.60.1.2 92102 2brfA 110 6.25e+01 b.26.1.2 128996 2z0dB 125 6.32e+01 d.15.1.3 140096 1xfxO 149 6.40e+01 a.39.1.5 121955 1gu7A 364 6.48e+01 b.35.1.2,c.2.1.1 83321,83322 1owfB 94 6.50e+01 a.55.1.1 87488 2guzB 65 6.51e+01 1lucB 324 6.52e+01 1lucA c.1.16.1 29548 1w1oA 534 6.58e+01 d.58.32.4,d.145.1.1 109071,109072 2gcoA 201 6.59e+01 2h3bA 494 6.61e+01 2fo3A 125 6.67e+01 d.20.1.1 133868 1jb0A 755 6.70e+01 1jb0A f.29.1.1 62820 1zmoA 244 6.71e+01 1pbwA 216 6.84e+01 1pbwA a.116.1.1 19103 2v40A 459 6.84e+01 1topA 162 6.87e+01 a.39.1.5 17223 1jyoA 130 6.92e+01 d.198.1.1 67483 1j3wA 163 6.96e+01 d.110.7.1 90833 2phjA 251 7.02e+01 1f6bA 198 7.15e+01 c.37.1.8 64986 2raaA 204 7.17e+01 1v10A 521 7.29e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 2cwoA 197 7.30e+01 1tk1A 260 7.35e+01 d.248.1.1 107066 1cnt3 187 7.36e+01 1cnt3 1gnuA 117 7.38e+01 d.15.1.3 65403 2cu6A 103 7.38e+01 d.52.8.2 130803 2gj8A 172 7.53e+01 c.37.1.8 135270 1cqqA 180 7.56e+01 1cqqA b.47.1.4 26422 2i3oA 516 7.58e+01 d.153.1.6 137027 1mspA 126 7.72e+01 1mspA b.1.11.2 22333 1rx0A 393 7.80e+01 a.29.3.1,e.6.1.1 98007,98008 1mr3F 181 7.81e+01 c.37.1.8 79422 1jjoC 261 7.86e+01 1lk5A 229 7.91e+01 c.124.1.4,d.58.40.1 73960,73961 1b3sD 90 7.93e+01 1ay7B c.9.1.1 30846 1ea0A 1479 7.93e+01 b.80.4.1,c.1.4.1,d.153.1.1 64854,64855,64856 1ay7B 89 7.97e+01 1ay7B c.9.1.1 30836 1kshA 186 7.99e+01 c.37.1.8 72914 1cnt1 187 7.99e+01 1cnt3