# List of top-scoring protein chains for t04-100-30-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 2f4qA 346 1.06e-01 1lktA 104 3.42e-01 1lktA b.90.1.1 28398 2a2pA 129 1.14e+00 2c3vA 102 1.34e+00 1tp6A 128 2.08e+00 d.17.4.12 107184 1cqyA 99 2.50e+00 1b9zA b.3.1.1 22527 1yx1A 264 2.78e+00 1yaxA 153 2.97e+00 1dcjA 81 3.09e+00 1dcjA d.68.3.3 59115 1m93C 41 3.18e+00 2fh5A 185 3.28e+00 1zkdA 387 3.85e+00 1u0tA 307 3.96e+00 e.52.1.1 107567 1vq2A 193 4.22e+00 1ui0A 205 4.57e+00 c.18.1.2 99411 2fhxA 246 4.78e+00 1vr9A 213 5.17e+00 1kllA 130 5.75e+00 d.32.1.2 72720 1ijqA 316 5.80e+00 1ijqA b.68.5.1,g.3.11.1 62506,62507 1qhoA 686 5.89e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1vjfA 180 6.04e+00 d.116.1.1 100809 2b59B 172 6.20e+00 1m7xA 617 6.37e+00 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1bywA 110 6.50e+00 1bywA d.110.3.6 40912 1qmvA 197 6.66e+00 1qq2A c.47.1.10 33066 1cdq 77 6.83e+00 1cds g.7.1.3 44459 1vqoS 85 6.90e+00 1uh6A 100 7.44e+00 d.15.1.1 99394 1e39A 571 8.19e+00 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1h4rA 314 8.54e+00 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1wrvA 308 8.58e+00 1yb3A 175 8.71e+00 1kssA 571 8.75e+00 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1tqzA 133 8.82e+00 2gcc 70 9.08e+00 2gcc d.10.1.2 37484 1p2hA 571 9.23e+00 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1q9iA 571 9.32e+00 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1y0pA 571 9.34e+00 1itcA 516 9.50e+00 b.3.1.1,c.1.8.1 83705,83706 3ezmA 101 9.53e+00 3ezmA b.89.1.1 28395 3nul 130 9.72e+00 3nul d.110.1.1 40891 1vemA 516 9.94e+00 1e19A 314 1.02e+01 1b7bA c.73.1.1 34967 1jj2R 84 1.04e+01 1ffkP d.12.1.1 63103 1s72S 85 1.04e+01 d.12.1.1 105338 1r1qA 100 1.28e+01 d.93.1.1 104763 1a8q 274 1.30e+01 1brt c.69.1.12 34702 1p6oA 161 1.31e+01 c.97.1.2 94185 2cvzA 289 1.38e+01 1z0wA 207 1.41e+01 1xfsA 178 1.41e+01 d.129.3.5 109589 1v74A 107 1.45e+01 d.243.1.1 100442 1xxqA 161 1.52e+01 1mkeA 152 1.58e+01 b.55.1.4 79231 1hw7A 255 1.64e+01 1i7fA d.193.1.1 61297 2cu3A 64 1.73e+01 1wgoA 123 1.74e+01 1qauA 112 1.77e+01 1qauA b.36.1.1 24779 1txkA 498 1.81e+01 b.1.18.2,b.30.5.9 107425,107426 1vggA 161 1.83e+01 1vetA 124 1.84e+01 d.110.7.1 108553 2cr5A 109 1.84e+01 1vcdA 126 1.87e+01 1pufB 73 1.88e+01 a.4.1.1 95132 1obr 326 1.89e+01 1aye c.56.5.2 33828 1xqaA 113 1.92e+01 1huxA 270 1.96e+01 1huxA c.55.1.5 61278 1vkiA 181 1.98e+01 d.116.1.1 108664 2go8A 122 1.98e+01 1nrlA 316 1.99e+01 a.123.1.1 92091 1zq7A 207 2.02e+01 1te7A 103 2.05e+01 1w4tA 299 2.07e+01 1ryaA 160 2.08e+01 d.113.1.5 105122 2pil 159 2.10e+01 2pil d.24.1.1 38376 1cv8 174 2.15e+01 1cv8 d.3.1.1 37089 1u14A 172 2.20e+01 c.51.4.3 107579 1ffyA 917 2.35e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1tiiD 99 2.37e+01 1tiiD b.40.2.1 24965 1jtkA 136 2.38e+01 c.97.1.1 71862 1y88A 199 2.38e+01 1lwdA 413 2.45e+01 c.77.1.1 78265 1zu0A 529 2.45e+01 1qb5D 99 2.47e+01 b.40.2.1 88357 1p57A 114 2.55e+01 d.170.1.2 94125 1msc 129 2.61e+01 1msc d.85.1.1 40039 2aobA 99 2.62e+01 1b72B 87 2.69e+01 1akhA a.4.1.1 16001 1wdvA 152 2.70e+01 1sqeA 109 2.79e+01 d.58.4.5 105908 1zyeA 220 2.82e+01 1uwzA 136 2.82e+01 c.97.1.1 108081 1voqa 90 2.93e+01 1xrkA 124 3.02e+01 1skoA 143 3.09e+01 d.110.7.1 105676 1kb0A 677 3.10e+01 a.3.1.6,b.70.1.1 68378,68379 1jbbA 153 3.13e+01 1u9aA d.20.1.1 62842 1lgpA 116 3.13e+01 b.26.1.2 73890 1wm3A 72 3.15e+01 2c6cA 707 3.23e+01 1w9hA 427 3.40e+01 1wba 175 3.45e+01 1wba b.42.4.1 25591 1l6rA 227 3.45e+01 c.108.1.10 77768 2bfgA 503 3.47e+01 1onqA 283 3.53e+01 b.1.1.2,d.19.1.1 93365,93366 1a79A 171 3.59e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 1c44A 123 3.65e+01 1qndA d.106.1.1 40795 1q18A 332 3.65e+01 c.55.1.7,c.55.1.7 104470,104471 2evrA 246 3.70e+01 1n3gA 113 3.71e+01 d.204.1.1 79962 1ndh 272 3.71e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1j5pA 253 3.73e+01 d.81.1.3,c.2.1.3 71577,83092 1mtpB 43 3.79e+01 1wftA 123 3.80e+01 2bs9A 503 3.82e+01 1ne9A 335 3.84e+01 d.108.1.4,d.108.1.4 91839,91840 16pk 415 3.88e+01 16pk c.86.1.1 35454 1o8uA 257 3.88e+01 c.14.1.3 81194 1ttzA 87 3.94e+01 c.47.1.1 107309 1yp2A 451 3.99e+01 1qhdA 398 4.02e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1n9lA 109 4.05e+01 d.110.3.6 85468 1itbB 315 4.06e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21720,21721,21722 1pvmA 184 4.19e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1ss9A 311 4.21e+01 c.68.1.4 105978 2fikA 287 4.23e+01 1xc3A 302 4.32e+01 1g5aA 628 4.32e+01 b.71.1.1,c.1.8.1 65152,65153 1vbvA 105 4.34e+01 2cx5A 158 4.43e+01 2ghpA 292 4.45e+01 2ap1A 327 4.58e+01 1w6sA 599 4.65e+01 2a2lA 145 4.71e+01 2ghrA 302 4.71e+01 1vecA 206 4.73e+01 c.37.1.19 100575 1pjxA 314 4.78e+01 b.68.6.1 104167 2he7A 283 4.80e+01 1iwdA 215 4.85e+01 d.3.1.1 83756 2crvA 120 4.91e+01 1tzaA 134 4.99e+01 b.1.23.1 107468 1hn2A 159 4.99e+01 b.60.1.1 65890 1gt1A 159 5.01e+01 b.60.1.1 90515 2basA 431 5.03e+01 2c4xA 260 5.05e+01 1ry9A 145 5.05e+01 d.198.1.1 98094 1obpA 159 5.05e+01 1obpA b.60.1.1 27092 1xvqA 175 5.09e+01 1y9wA 140 5.20e+01 1gsa 316 5.23e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1h7mA 102 5.24e+01 d.79.3.1 83485 1ln1A 214 5.25e+01 d.129.3.2 74038 2dg5B 190 5.26e+01 1qx4A 274 5.26e+01 b.43.4.2,c.25.1.1 104624,104625 1yqtA 538 5.29e+01 1sz2A 332 5.35e+01 1lrwA 600 5.36e+01 b.70.1.1 91111 1x6oA 174 5.36e+01 b.34.5.2,b.40.4.5 109493,109494 1fjgP 88 5.37e+01 1emwA d.27.1.1 38444 1pm1X 180 5.43e+01 b.60.1.1 104189 2dchX 216 5.43e+01 1i7pA 274 5.47e+01 b.43.4.2,c.25.1.1 66048,66049 2aa4A 289 5.52e+01 1byrA 155 5.53e+01 1byrA d.136.1.1 41450 1iscA 192 5.53e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1m9sA 605 5.53e+01 b.1.18.15,b.34.11.1,b.34.11.1,b.34.11.1,c.10.2.1 78874,78875,78876,78877,78878 1htrB 329 5.58e+01 1smrA 1h6hA 143 5.59e+01 d.189.1.1 65681 1mdwA 328 5.59e+01 d.3.1.3 84934 2cfuA 658 5.62e+01 2akrA 285 5.62e+01 2fv7A 331 5.72e+01 2c26A 260 5.76e+01 1nqcA 217 5.78e+01 d.3.1.1 86024 2gjdA 157 5.85e+01 1xksA 450 5.90e+01 2fa8A 105 5.92e+01 1sr8A 298 5.98e+01 e.54.1.1 105959 1sqhA 312 6.04e+01 d.108.1.5 98966 1z5lA 285 6.05e+01 1uasA 362 6.05e+01 b.71.1.1,c.1.8.1 88388,88389 2fq9A 225 6.09e+01 1w41A 101 6.16e+01 1f2tB 148 6.19e+01 1f2tB 1s4nA 348 6.20e+01 c.68.1.16 98501 1rewC 135 6.23e+01 g.7.1.3 97336 1cz6A 25 6.24e+01 j.3.1.3 46072 1f00I 282 6.31e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 1ako 268 6.31e+01 1ako d.151.1.1 41779 1i0cA 60 6.32e+01 1aojA b.34.2.1 61485 1xkiA 162 6.33e+01 1kq1A 77 6.35e+01 b.38.1.2 72848 1b8aA 438 6.57e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1z2mA 155 6.57e+01 1hw6A 278 6.65e+01 1frb c.1.7.1 61296 1oz7A 131 6.71e+01 d.169.1.1 93806 1dpjA 329 6.78e+01 1smrA b.50.1.2 26828 1omiA 248 6.81e+01 b.82.3.3,a.4.5.4 87079,87080 2cl1A 279 6.86e+01 1jtdB 273 6.86e+01 b.69.5.2 67265 1gpeA 587 7.18e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1umkA 275 7.19e+01 1qjpA 171 7.19e+01 1bxwA f.4.1.1 43742 1l6sA 323 7.22e+01 c.1.10.3 73627 1v30A 124 7.23e+01 1kaeA 434 7.26e+01 c.82.1.2 72247 1rypH 205 7.33e+01 d.153.1.4 41876 1fa8A 135 7.44e+01 1qipA d.32.1.1 38486 1i8jA 323 7.46e+01 1b4kA c.1.10.3 61968 1jofA 365 7.51e+01 b.69.10.1 71775 1qg7A 67 7.51e+01 1a15A d.9.1.1 37449 1r77A 103 7.55e+01 1ru3A 732 7.57e+01 e.26.1.3 97835 1o50A 157 7.58e+01 d.37.1.1,d.37.1.1 92478,92479 1k38A 254 7.64e+01 e.3.1.1 84303 1ifqA 138 7.65e+01 1ifqA d.110.4.1 62350 2fbmA 291 7.65e+01 2ciaA 102 7.69e+01 1uhvA 500 7.72e+01 b.71.1.2,c.1.8.3 99402,99403 1nofA 383 7.79e+01 b.71.1.2,c.1.8.3 92020,92021 1jyrA 96 7.86e+01 d.93.1.1 71969 1ri9A 102 7.89e+01 b.34.2.1 97506 1x0rA 249 7.90e+01 1jidA 128 8.00e+01 d.201.1.1 66735 1t3bA 211 8.01e+01 c.47.1.9,d.17.3.1 106341,106342 1bco 327 8.15e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1h0hA 977 8.22e+01 b.52.2.2,c.81.1.1 76435,76436 1vjvA 415 8.24e+01 d.3.1.9 108632 1iow 306 8.33e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1eg9A 449 8.36e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1xhcA 367 8.38e+01 1yadA 221 8.39e+01 1mdbA 539 8.43e+01 e.23.1.1 79008 1r9fA 136 8.43e+01 d.255.1.1 97257 1dmhA 311 8.45e+01 1dmhA b.3.6.1 22633 1zfpE 98 8.46e+01 1griA d.93.1.1 40465 1l2tA 235 8.47e+01 c.37.1.12 73514 1o7nA 449 8.48e+01 b.33.1.2,d.129.3.3 81162,81163 1am2 199 8.53e+01 1am2 b.86.1.2 28381 1qipA 183 8.55e+01 1qipA d.32.1.1 38470 1tqxA 227 8.55e+01 1lq9A 112 8.58e+01 d.58.4.3 78129 1k55A 246 8.62e+01 e.3.1.1 68156 1f9zA 135 8.71e+01 1qipA d.32.1.1 38484 2a8eA 220 8.75e+01 1ugiA 84 8.92e+01 1ugiA d.17.5.1 38125 1c96A 753 8.93e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1jyeA 349 8.95e+01 c.93.1.1 67455 2gaiA 633 8.96e+01 1bhe 376 9.00e+01 1bhe b.80.1.3 28030