# 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.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 1dnlA 199 8.41e-40 1ci0A b.45.1.1 25753 1g79A 218 9.51e-40 1ci0A b.45.1.1 25752 1nrgA 261 4.95e-33 b.45.1.1 80694 1t9mA 214 5.90e-29 1ty9A 222 9.25e-28 1ci0A 228 6.62e-27 1ci0A b.45.1.1 25750 1rfeA 162 1.79e-15 2fhqA 141 1.88e-15 1vl7A 157 1.32e-10 b.45.1.1 108732 2fg9A 178 3.50e-10 2asfA 137 1.96e-09 2aq6A 147 7.22e-09 1w9aA 147 5.06e-08 1xxoA 147 7.85e-08 2furA 209 4.99e-07 2arzA 247 2.32e-06 1xhnA 184 1.74e-05 1axj 122 1.09e-04 1axj b.45.1.1 25749 1flmA 122 1.43e-04 1axj b.45.1.1 25747 1w3oA 216 4.29e-04 1ejeA 192 2.18e-02 1ejeA b.45.1.2 25757 1m1hA 248 1.29e-01 b.114.1.1,d.58.42.1 78415,78416 1y1pA 342 7.87e-01 1ujmA 342 8.63e-01 1nar 290 8.81e-01 1nar c.1.8.5 28988 1pysA 350 1.42e+00 1pysA d.104.1.1 40775 1cauB 184 1.65e+00 1caxB b.82.1.2 28103 2bgiA 272 1.78e+00 1b7yA 350 2.09e+00 1pysA d.104.1.1 40776 2fp8A 322 2.14e+00 1g0uE 234 2.53e+00 d.153.1.4 41950 2bgzA 299 2.91e+00 1wlgA 299 2.96e+00 1k68A 140 3.21e+00 c.23.1.1 90943 1j5yA 187 3.93e+00 a.4.5.1,d.94.2.1 71592,71593 1pyaB 228 4.04e+00 1pyaB 1ibvB 229 5.21e+00 1a7j 290 5.64e+00 1a7j c.37.1.6 31952 1a0rB 340 6.47e+00 1tbgA b.69.4.1 27658 1ywxA 102 6.60e+00 1cawB 184 6.65e+00 1caxB b.82.1.2 28113 1fmk 452 7.18e+00 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24511,40436,41690 1sacA 204 7.68e+00 1sacA b.29.1.5 24237 1caxB 184 7.69e+00 1caxB b.82.1.2 28105 1eut 605 7.84e+00 1eut b.1.18.2,b.18.1.1,b.68.1.1 21891,23712,27609 1bc8C 93 8.06e+00 1awcA a.4.5.21 16168 1wj9A 211 8.07e+00 1rypF 233 8.68e+00 1rypF d.153.1.4 41937 1a1aA 107 8.72e+00 1fmk d.93.1.1 40449 1zceA 155 9.02e+00 1fqgA 263 9.27e+00 1btl e.3.1.1 42699 1aotF 106 9.34e+00 1lckA d.93.1.1 40458 1m40A 263 9.48e+00 e.3.1.1 74437 1btl 263 1.01e+01 1btl e.3.1.1 42691 1si6X 282 1.10e+01 1y21A 282 1.10e+01 1ntfA 282 1.10e+01 d.151.1.2 92104 1ivd 388 1.14e+01 2qwc b.68.1.1 27568 1d8iA 311 1.16e+01 1d8iA d.63.1.1 39541 1d02A 202 1.20e+01 1d02A c.52.1.8 33313 1gotB 340 1.24e+01 1tbgA b.69.4.1 27648 2c60A 111 1.29e+01 2ebn 289 1.38e+01 2ebn c.1.8.5 28990 1ermA 263 1.43e+01 1btl e.3.1.1 42690 1td5A 202 1.61e+01 d.110.2.2 106767 1n87A 56 1.66e+01 g.44.1.2 85390 1shbA 104 1.67e+01 1fmk d.93.1.1 40425 1tbgA 340 1.80e+01 1tbgA b.69.4.1 27649 1mjc 69 1.83e+01 1mjc b.40.4.5 25319 1lrv 244 1.86e+01 1lrv a.118.1.5 19146 1wsrA 375 1.89e+01 2ddrA 306 2.00e+01 1eur 365 2.09e+01 1eut b.68.1.1 27607 1ye8A 178 2.14e+01 1euu 605 2.14e+01 1eut b.1.18.2,b.18.1.1,b.68.1.1 21892,23713,27610 1e3uA 246 2.17e+01 1fofA e.3.1.1 42755 1d8hA 311 2.21e+01 1d8iA d.63.1.1 39544 1k8vA 40 2.22e+01 j.6.1.1 72182 1rocA 155 2.26e+01 b.1.22.1 97673 2a6sA 84 2.34e+01 2ag5A 246 2.37e+01 1ygtA 111 2.40e+01 1wcdJ 441 2.42e+01 1fofA 246 2.44e+01 1fofA e.3.1.1 42763 2eifA 136 2.45e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 3mefA 69 2.48e+01 1mjc b.40.4.5 25320 1di2A 69 2.50e+01 1di2A d.50.1.1 38780 1t77A 414 2.51e+01 1h4rA 314 2.58e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1wocA 103 2.65e+01 1j5kA 89 2.66e+01 d.51.1.1 71565 1gm6A 175 2.70e+01 b.60.1.1 70272 2f15A 96 2.72e+01 1txyA 104 2.77e+01 1wcqA 601 2.83e+01 2bayA 61 2.93e+01 1bax 94 2.99e+01 1bax a.61.1.3 18133 2ghrA 302 3.02e+01 1tr8A 102 3.08e+01 1eo9A 209 3.08e+01 3pchA b.3.6.1 22731 1w8oA 601 3.14e+01 1ae3 86 3.14e+01 1gvp b.40.4.7 25381 2cqsA 842 3.22e+01 1vc1A 110 3.22e+01 c.13.2.1 108493 1am2 199 3.23e+01 1am2 b.86.1.2 28381 1feuA 206 3.27e+01 1feuA b.53.1.1 59801 1wi6A 88 3.29e+01 1d2fA 390 3.46e+01 1d2fA c.67.1.3 34411 1ollA 188 3.46e+01 b.1.1.4,b.1.1.4 93313,93314 1wrmA 165 3.53e+01 1gvp 87 3.59e+01 1gvp b.40.4.7 25369 1vkkA 154 3.59e+01 d.109.1.2 108669 1r1bA 59 3.60e+01 1r1bA a.16.1.3 16396 1vqb 87 3.62e+01 1gvp b.40.4.7 25370 1aazA 87 3.77e+01 1aba c.47.1.1 32761 1xhfA 123 3.80e+01 1i3cA 149 3.84e+01 c.23.1.1 71112 2bitX 165 3.94e+01 1o4rA 108 3.94e+01 d.93.1.1 92469 2asbA 251 3.96e+01 1dzrA 183 4.02e+01 1dzrA b.82.1.1 28076 1hyhA 309 4.04e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1gceA 364 4.18e+01 1gceA e.3.1.1 42738 1ga0A 364 4.18e+01 1gceA e.3.1.1 60410 1npsA 88 4.22e+01 1prs b.11.1.1 23622 1z7lA 276 4.29e+01 1rgzA 363 4.29e+01 e.3.1.1 97457 1onhA 364 4.31e+01 e.3.1.1 93357 1jjuA 489 4.35e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66774,66775,66776,66777,66778 2bltA 361 4.37e+01 1gceA e.3.1.1 42739 1ewqA 765 4.39e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1ei1A 391 4.48e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1c7sA 858 4.50e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1p9bA 442 4.51e+01 c.37.1.10 94385 1qba 858 4.60e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21810,22406,29009,40408 1f0iA 504 4.65e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1v0wA 506 4.80e+01 d.136.1.2,d.136.1.2 108220,108221 1gxuA 91 4.83e+01 d.58.10.1 76378 1aba 87 4.84e+01 1aba c.47.1.1 32760 1f2fA 104 4.90e+01 1fmk d.93.1.1 40455 1zt3A 80 4.92e+01 1mkmA 249 4.94e+01 a.4.5.33,d.110.2.2 79242,79243 1b04A 318 4.98e+01 1b04A d.142.2.2 41579 2fe7A 166 4.98e+01 1aquA 297 4.99e+01 1aquA c.37.1.5 31942 2anpA 291 5.19e+01 2axoA 270 5.26e+01 1ylnA 252 5.28e+01 2fauA 341 5.29e+01 1y89A 238 5.31e+01 1v1qA 134 5.34e+01 1b8aA 438 5.42e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1f2tB 148 5.46e+01 1f2tB 1amp 291 5.55e+01 1amp c.56.5.4 33837 1lokA 291 5.55e+01 c.56.5.4 78122 1z4rA 168 5.56e+01 1kqwA 134 5.64e+01 b.60.1.2 72887 1h7zA 194 5.74e+01 1qhvA b.21.1.1 60733 1ox8A 107 5.78e+01 b.136.1.1 93671 1dseA 292 5.82e+01 1ryc a.93.1.1 59130 1w3fA 315 5.84e+01 1shaA 104 5.94e+01 1fmk d.93.1.1 40424 1hdmA 201 5.99e+01 1iakA b.1.1.2,d.19.1.1 21583,38157 1h5yA 253 6.03e+01 c.1.2.1 65638 1arzC 273 6.14e+01 1drw c.2.1.3,d.81.1.3 30061,39976 1oz2A 331 6.15e+01 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 1yopA 83 6.17e+01 1ywyA 74 6.28e+01 2d2mB 142 6.35e+01 1d2dA 59 6.37e+01 1r1bA a.16.1.3 16397 1r0wA 286 6.45e+01 c.37.1.12 96754 1gnwA 211 6.49e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1yfnA 118 6.56e+01 2cavA 445 6.59e+01 1dgwA b.82.1.2,b.82.1.2 28094,28095 1dih 273 6.63e+01 1drw c.2.1.3,d.81.1.3 30056,39971 2fy6A 143 6.64e+01 1bypA 99 6.74e+01 1plc b.6.1.1 22858 2bcjB 340 6.78e+01 1n2aA 201 6.79e+01 a.45.1.1,c.47.1.5 91553,91554 1vjs 483 6.93e+01 1bli b.71.1.1,c.1.8.1 27714,28701 1rz3A 201 7.03e+01 c.37.1.6 98132 1a4uA 254 7.05e+01 1b16A c.2.1.2 29878 1sx5A 244 7.17e+01 c.52.1.2 99023 1duzA 275 7.20e+01 1agdA b.1.1.2,d.19.1.1 20670,38224 1sbyA 254 7.20e+01 1vhtA 218 7.20e+01 c.37.1.1 100700 2aa4A 289 7.21e+01 1tidB 119 7.35e+01 c.13.2.1 107000 2a1kA 233 7.52e+01 1b16A 254 7.64e+01 1b16A c.2.1.2 29875 1z0pA 84 7.66e+01 1zkpA 268 7.72e+01 2fnjA 226 7.73e+01 1vdnA 162 7.74e+01 1rtqA 299 7.89e+01 c.56.5.4 97819 2coqA 108 7.91e+01 1ywsA 82 7.94e+01 1yemA 179 7.95e+01 1drw 273 7.98e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1i35A 95 8.05e+01 d.15.1.5 66017 1qwnA 1045 8.13e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1hxkA 1015 8.27e+01 a.8.3.1,b.30.5.6,c.6.2.1 83070,83071,83072 1htyA 1015 8.29e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 1hwwA 1015 8.30e+01 a.8.3.1,b.30.5.6,c.6.2.1 83067,83068,83069 1fxxA 482 8.33e+01 1fxxA c.55.3.5 33726 2bbsA 290 8.34e+01 1fvaA 217 8.34e+01 1fvaA d.58.28.1 39409 1a0fA 201 8.37e+01 1a0fA a.45.1.1,c.47.1.5 17737,33031 1gk8I 140 8.39e+01 d.73.1.1 65242 1pauA 147 8.40e+01 1pauA c.17.1.1 30994 1k55A 246 8.44e+01 e.3.1.1 68156 1wmuB 146 8.46e+01 a.1.1.2 109417 1ysjA 404 8.49e+01 2bh8A 101 8.54e+01 1b8dA 164 8.56e+01 1cpcA a.1.1.3 15665 2fvgA 340 8.57e+01 1sdjA 310 8.64e+01 d.21.1.2,d.21.1.2 98807,98808 4bcl 366 8.80e+01 4bcl b.75.1.1 27968 1fvgA 199 8.88e+01 1fvaA d.58.28.1 39408 1m2vB 926 8.89e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78497,78498,78499,78500,78501 1jfmA 174 9.00e+01 d.19.1.1 66640