# List of top-scoring protein chains for t06-100-30-o_sep-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 1vjkA 98 4.73e-05 d.15.3.1 108631 1xlqA 106 1.43e-03 1oqqA 106 1.64e-03 d.15.4.1 93422 1frrA 95 4.99e-03 1awd d.15.4.1 37674 1frd 98 5.87e-03 1awd d.15.4.1 37648 1jl0A 334 3.12e-02 1jenA d.156.1.1 63155 1fm0D 81 4.10e-02 1fmaD d.15.3.1 37642 1czpA 98 4.27e-02 1awd d.15.4.1 37645 1uwmA 106 4.54e-02 2bb6A 414 4.97e-02 1rfkA 98 6.45e-02 1f1uA 323 6.76e-02 d.32.1.3,d.32.1.3 83200,83201 1vybA 238 9.18e-02 d.151.1.1 108897 1awd 94 9.98e-02 1awd d.15.4.1 37673 1f1xA 322 1.16e-01 d.32.1.3,d.32.1.3 83208,83209 1l2hA 153 1.55e-01 b.42.1.2 77655 2fcr 173 1.57e-01 1rcf c.23.5.1 31151 1a70 97 1.88e-01 1awd d.15.4.1 37678 2bpsA 81 1.92e-01 2cfeA 162 3.15e-01 1l5pA 93 3.33e-01 d.15.4.1 73598 1offA 97 4.23e-01 d.15.4.1 86947 2cu3A 64 4.71e-01 1doi 128 4.87e-01 1awd d.15.4.1 37676 1zud2 66 5.00e-01 1dg6A 191 7.66e-01 1d4vB b.22.1.1 23883 1xc3A 302 7.93e-01 1dmhA 311 1.18e+00 1dmhA b.3.6.1 22633 1ad2 228 1.22e+00 1ad2 e.24.1.1 43353 1i7hA 111 1.27e+00 d.15.4.1 71122 2bwfA 77 1.29e+00 1siqA 392 1.41e+00 a.29.3.1,e.6.1.1 105585,105586 1zvtA 256 1.60e+00 1p99A 295 1.79e+00 c.94.1.1 94384 1f06A 320 1.79e+00 1dapA c.2.1.3,d.81.1.3 59556,59557 2gptA 523 1.85e+00 1pl8A 356 2.28e+00 b.35.1.2,c.2.1.1 94878,94879 1r5lA 262 2.32e+00 a.5.3.1,c.13.1.1 97099,97100 1yb5A 351 2.46e+00 1pcxA 810 2.49e+00 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1vns 609 2.90e+00 1vns a.111.1.3 19061 1rypI 222 2.99e+00 d.153.1.4 41877 2fcfA 103 3.36e+00 1wmzA 140 3.36e+00 d.169.1.1 109422 2f69A 261 3.76e+00 2g1lA 104 3.89e+00 1ey4A 149 3.90e+00 1snc b.40.1.1 24815 1yqtA 538 4.14e+00 1n6aA 259 4.18e+00 b.76.2.1,b.85.7.1 80121,80122 2fi1A 190 4.24e+00 2bt6A 108 4.25e+00 1tmxA 293 4.40e+00 1bbhA 131 4.73e+00 1bbhA a.24.3.2 16546 1rkqA 282 4.77e+00 c.108.1.10 97621 2a7bA 120 5.07e+00 1lfdA 87 5.08e+00 1lfdA d.15.1.5 37622 1knmA 130 5.09e+00 b.42.2.1 72781 1wwkA 307 5.35e+00 1uwwA 191 5.55e+00 b.18.1.23 108079 1h4xA 117 5.69e+00 1auz c.13.2.1 60626 1k8kC 372 5.76e+00 b.69.4.1 68308 1kqfC 217 5.94e+00 f.21.1.1 72874 1qz9A 416 6.40e+00 c.67.1.3 96621 2bkdN 134 6.59e+00 2f4pA 147 7.01e+00 1m93B 245 7.18e+00 1xe1A 116 7.32e+00 b.43.3.1 109571 2azwA 148 7.43e+00 1oboA 169 7.46e+00 c.23.5.1 86776 1cbf 285 7.53e+00 1cbf c.90.1.1 35587 1oeyJ 107 7.94e+00 d.15.2.2 92804 1i0rA 169 7.96e+00 1i0rA b.45.1.2 61489 1ra6A 461 8.27e+00 e.8.1.4 104879 1uhgA 385 8.29e+00 e.1.1.1 88491 2bwnA 401 8.58e+00 1nytA 271 8.69e+00 c.2.1.7,c.58.1.5 86417,86418 1krhA 338 8.98e+00 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1ycdA 243 9.09e+00 1snzA 344 9.53e+00 b.30.5.4 98930 1zu4A 320 9.66e+00 2a4vA 159 9.67e+00 1t5hX 504 9.93e+00 e.23.1.1 106449 1fe0A 68 9.94e+00 1cc8A d.58.17.1 39345 1wywA 230 1.02e+01 1l7yA 94 1.02e+01 d.15.1.6 73676 1agjA 242 1.04e+01 1agjA b.47.1.1 25827 2a4hA 126 1.09e+01 2bkfA 87 1.11e+01 1t0qC 86 1.15e+01 d.15.12.1 106222 1gpjA 404 1.16e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1yqbA 100 1.17e+01 1vq2A 193 1.20e+01 1exqA 154 1.22e+01 1b9dA c.55.3.2 33646 2ex2A 458 1.23e+01 1msk 331 1.23e+01 1msk d.173.1.1 42495 1yj1A 76 1.24e+01 2tpsA 227 1.25e+01 2tpsA c.1.3.1 28591 1ryaA 160 1.25e+01 d.113.1.5 105122 2ew8A 249 1.29e+01 1dljA 402 1.29e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1wb4A 297 1.33e+01 1b9mA 265 1.36e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1nhs 447 1.36e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1ag9A 175 1.37e+01 1rcf c.23.5.1 31178 1wkaA 147 1.38e+01 1kgsA 225 1.41e+01 a.4.6.1,c.23.1.1 68596,68597 1k94A 165 1.46e+01 a.39.1.8 68333 1iueA 98 1.48e+01 d.15.4.1 90697 1l1qA 186 1.48e+01 c.61.1.1 77653 1hd7A 318 1.51e+01 1bix d.151.1.1 41780 1ysjA 404 1.53e+01 2a38A 194 1.53e+01 1l7aA 318 1.57e+01 c.69.1.25 77772 1q8rA 120 1.58e+01 d.79.6.1 96225 2gupA 292 1.59e+01 1vf7A 369 1.64e+01 f.46.1.1 108557 1c1yB 77 1.64e+01 1c1yB d.15.1.5 37618 1vckA 115 1.65e+01 1qfxA 460 1.65e+01 1qfxA c.60.1.2 33994 1o57A 291 1.66e+01 a.4.5.40,c.61.1.1 92483,92484 4tsvA 150 1.66e+01 2tnfA b.22.1.1 23860 2fm8A 135 1.71e+01 1gxuA 91 1.72e+01 d.58.10.1 76378 1yqfA 203 1.77e+01 1ypyA 184 1.77e+01 1k07A 263 1.78e+01 d.157.1.1 77218 1gpr 162 1.79e+01 1gpr b.84.3.1 28267 2go7A 207 1.79e+01 1whvA 100 1.79e+01 1pvmA 184 1.81e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1yqzA 438 1.81e+01 2gaxA 135 1.84e+01 1o54A 277 1.85e+01 c.66.1.13 92482 1cxyA 90 1.86e+01 1cyo d.120.1.1 41085 1zn8A 180 1.86e+01 1uuqA 440 1.89e+01 c.1.8.3 100015 2et1A 201 1.89e+01 1jb3A 131 1.89e+01 1jc7A b.40.3.2 62833 2h2bA 107 1.90e+01 1yb2A 275 1.91e+01 1p5tA 127 1.91e+01 b.55.1.2 94148 1ykdA 398 1.96e+01 1sfe 180 1.97e+01 1sfe a.4.2.1,c.55.7.1 16073,33748 1ejbA 168 1.98e+01 1rvv1 c.16.1.1 59417 1xi1A 575 1.99e+01 1y1nA 291 2.01e+01 1ktbA 405 2.01e+01 b.71.1.1,c.1.8.1 72960,72961 1zbsA 291 2.02e+01 1gdhA 320 2.04e+01 1gdhA c.2.1.4,c.23.12.1 30095,31355 1mr3F 181 2.06e+01 c.37.1.8 79422 1o08A 221 2.07e+01 c.108.1.6 86525 1wyzA 242 2.07e+01 2as0A 396 2.09e+01 1qahA 136 2.10e+01 d.79.1.1 96338 1mkiA 330 2.12e+01 e.3.1.2 84994 1npsA 88 2.13e+01 1prs b.11.1.1 23622 1v72A 356 2.14e+01 1fmtA 314 2.17e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1euwA 152 2.19e+01 1dupA b.85.4.1 28349 2fr2A 172 2.19e+01 1j3mA 129 2.20e+01 d.129.7.1 103836 2ah5A 210 2.21e+01 2a84A 300 2.23e+01 1so9A 164 2.23e+01 b.146.1.1 105842 1gsmA 210 2.23e+01 b.1.1.4,b.1.1.4 65535,65536 1xgsA 295 2.24e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1fi2A 201 2.28e+01 1fi2A b.82.1.2 59845 1gyvA 120 2.28e+01 b.1.10.2 70790 1rypC 244 2.28e+01 1rypC d.153.1.4 41934 2fmpA 335 2.32e+01 1xdyA 298 2.35e+01 2fomB 185 2.35e+01 2a5zA 262 2.37e+01 1f9zA 135 2.47e+01 1qipA d.32.1.1 38484 1o17A 345 2.48e+01 a.46.2.1,c.27.1.1 80765,80766 1wwtA 88 2.49e+01 2d83A 363 2.49e+01 1u2mA 143 2.50e+01 f.48.1.1 107612 2fnjB 118 2.52e+01 2f51A 118 2.56e+01 2amdA 311 2.59e+01 1ja1A 622 2.61e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1jz8A 1023 2.64e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1w78A 422 2.64e+01 2bokA 241 2.64e+01 1tk9A 188 2.65e+01 c.80.1.3 107082 2fhzB 108 2.66e+01 1cznA 169 2.66e+01 1rcf c.23.5.1 31181 1t3qA 168 2.68e+01 a.56.1.1,d.15.4.2 106367,106368 1wgrA 100 2.68e+01 1cex 214 2.70e+01 1cex c.69.1.30 31285 2bh1A 250 2.71e+01 1zy4A 303 2.72e+01 2a6zA 222 2.72e+01 1x8qA 184 2.72e+01 2b4wA 315 2.75e+01 1ty0A 211 2.81e+01 b.40.2.2,d.15.6.1 107440,107441 3prn 289 2.82e+01 3prn f.4.3.1 43761 1f1eA 154 2.84e+01 a.22.1.2 64927 1sznA 417 2.89e+01 b.71.1.1,c.1.8.1 106162,106163 1zupA 315 2.90e+01 1he7A 126 2.90e+01 1wwcA b.1.1.4 60970 2btzA 394 2.92e+01 1wspA 84 2.94e+01 1n7hA 381 2.97e+01 c.2.1.2 80250 1ws8A 109 3.00e+01 1udkA 51 3.01e+01 g.3.14.1 99211 2b5wA 357 3.03e+01 1avbA 226 3.04e+01 1led b.29.1.1 24158 1k0eA 453 3.09e+01 d.161.1.1 67938 1z06A 189 3.11e+01 1rp0A 284 3.12e+01 1pm1X 180 3.14e+01 b.60.1.1 104189 1jixA 351 3.16e+01 1c3jA c.87.1.1 63081 2d37A 176 3.25e+01 2gw8A 114 3.27e+01 2gu3A 136 3.28e+01 2gimA 106 3.30e+01 1yx1A 264 3.31e+01 1bqsA 209 3.31e+01 1bqsA b.1.1.4,b.1.1.4 21704,21705 1nf3A 195 3.31e+01 c.37.1.8 85594 1n2eA 300 3.35e+01 c.26.1.4 85268 2ae5B 528 3.42e+01 1ztdA 133 3.42e+01 1r8sA 164 3.43e+01 c.37.1.8 97247 1wzlA 585 3.48e+01 1r0uA 148 3.49e+01 b.60.1.5 96741 1oc2A 348 3.49e+01 c.2.1.2 92765 1cnzA 363 3.49e+01 1cnzA c.77.1.1 35061 1pg4A 652 3.50e+01 e.23.1.1 88067 1oi2A 366 3.53e+01 c.119.1.2 103802 1uxy 340 3.56e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 1uj8A 77 3.56e+01 1drw 273 3.57e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1ogwA 76 3.61e+01 d.15.1.1 87001 1mdaH 368 3.61e+01 2bbkH b.69.2.1 27637 1gzcA 239 3.62e+01 b.29.1.1 70803 2d42A 249 3.63e+01 2cyjA 118 3.63e+01 1m2oA 768 3.67e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1oa8A 133 3.68e+01 b.145.1.1 92698 1w99A 558 3.72e+01 1v9kA 228 3.72e+01 d.265.1.3 108449 1vqoT 120 3.73e+01 1iyjB 817 3.74e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 76948,76949,76950,76951,76952 1rkuA 206 3.76e+01 c.108.1.11 97627 1yoeA 322 3.78e+01 1vhoA 346 3.79e+01 b.49.3.1,c.56.5.4 100694,100695 1pzwA 80 3.80e+01 g.39.1.10 95483 1v9sA 208 3.80e+01 1z15A 344 3.81e+01 1iqcA 308 3.82e+01 a.3.1.5,a.3.1.5 66266,66267 1ry9A 145 3.82e+01 d.198.1.1 98094 1gv9A 260 3.85e+01 b.29.1.13 70596 2fp7B 172 3.92e+01 1lj8A 493 3.95e+01 a.100.1.9,c.2.1.6 90392,90393 1dywA 173 3.98e+01 2cpl b.62.1.1 27505 1m7yA 435 3.98e+01 c.67.1.4 78761 2c36A 285 4.02e+01 1dqaA 467 4.02e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1uzpA 162 4.07e+01 g.3.11.1,g.3.11.1,g.23.1.1 100232,100233,100234 1ri6A 343 4.09e+01 b.69.11.1 97503 2bz6H 254 4.11e+01 1xuvA 178 4.13e+01 2ffsA 157 4.15e+01 1sczA 233 4.16e+01 c.43.1.1 98802 1onrA 316 4.21e+01 1onrA c.1.10.1 29169 1xdzA 240 4.23e+01 2c1vA 338 4.23e+01 1uasA 362 4.23e+01 b.71.1.1,c.1.8.1 88388,88389 1seiA 130 4.23e+01 1seiA d.140.1.1 41463 1wcwA 261 4.24e+01 1m6yA 301 4.30e+01 a.60.13.1,c.66.1.23 78716,78717 1q6zA 528 4.32e+01 1aohA 147 4.36e+01 1aohA b.2.2.2 22401 2ckiA 262 4.37e+01 2fhqA 141 4.37e+01 1fxlA 167 4.40e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1w9hA 427 4.45e+01 1pgs 314 4.46e+01 1pgs b.121.1.1,b.121.1.1 23653,23654 1aqzA 149 4.49e+01 1aqzA d.1.1.3 36238 2bjqA 345 4.50e+01 1wteA 272 4.61e+01 2bf6A 449 4.61e+01 1vrmA 325 4.63e+01 1u7bA 261 4.68e+01 1u7zA 226 4.73e+01 1x9dA 538 4.74e+01 2b3yA 888 4.75e+01 2fexA 188 4.76e+01 1cewI 108 4.77e+01 1cewI d.17.1.2 37999 2dafA 118 4.77e+01 2cbzA 237 4.78e+01 1usgA 346 4.80e+01 c.93.1.1 99864 1xizA 159 4.81e+01 1qqp2 218 4.84e+01 1qqp2 1lc0A 294 4.86e+01 c.2.1.3,d.81.1.4 73823,73824 1vraB 215 4.87e+01 1s55A 156 4.88e+01 1cliA 345 4.89e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1np6A 174 4.89e+01 c.37.1.10 85954 1yndA 165 4.93e+01 1iv8A 720 4.95e+01 b.71.1.1,c.1.8.1 76842,76843 1w61A 414 4.97e+01 1vr9A 213 5.02e+01 1uptA 171 5.03e+01 c.37.1.8 99767 1sv6A 269 5.04e+01 d.177.1.1 106043 2dcnA 311 5.05e+01 2b0vA 153 5.05e+01 1qysA 106 5.08e+01 k.41.1.1 96603 1o5xA 248 5.08e+01 c.1.1.1 92528 2fclA 169 5.09e+01 1k5nB 100 5.10e+01 b.1.1.2 77268 1xt8A 292 5.15e+01 1wd7A 261 5.16e+01 1zrn 232 5.18e+01 1qq5A c.108.1.1 43323 1ihjA 98 5.19e+01 1pdr b.36.1.1 62382 1sjdA 368 5.20e+01 c.1.11.2,d.54.1.1 105632,105633 1tygB 87 5.22e+01 d.15.3.2 107455 1qxyA 252 5.26e+01 d.127.1.1 96565 1zx8A 136 5.26e+01 1twuA 139 5.28e+01 d.32.1.8 107413 1dy9A 187 5.30e+01 1jxpA b.47.1.3 26400 1vjjA 692 5.32e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1dkzA 219 5.32e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1f2tA 149 5.36e+01 1f2tA c.37.1.12 32373 1by2 119 5.42e+01 1by2 d.170.1.1 42452 1wriA 93 5.42e+01 1zybA 232 5.43e+01 1xs0A 136 5.44e+01 1lmq 129 5.47e+01 3lzt d.2.1.2 36588 2aj6A 159 5.47e+01 1a8y 367 5.50e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1fl2A 310 5.56e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1crzA 403 5.60e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1ixmA 192 5.60e+01 1ixmA d.123.1.1 41114 1euvB 86 5.61e+01 1a5r d.15.1.1 37598 1yarA 233 5.62e+01 1r3eA 309 5.64e+01 b.122.1.1,d.265.1.2 96907,96908 1ip9A 85 5.64e+01 1ip9A d.15.2.2 62638 1u0sY 118 5.69e+01 c.23.1.1 107566 1k47A 337 5.69e+01 d.14.1.5,d.58.26.4 72040,72041 1ooyA 481 5.74e+01 c.124.1.3,c.124.1.2 93388,93389 2evaA 307 5.74e+01 1mhqA 148 5.74e+01 a.118.9.2 84973 1ycc 108 5.80e+01 1ycc a.3.1.1 15834 1wg8A 285 5.82e+01 1y9aA 360 5.84e+01 1y93A 159 5.86e+01 2cx5A 158 5.87e+01 1reqA 727 5.93e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1tmy 120 5.94e+01 1dbwA c.23.1.1 31083 1ng2A 193 5.96e+01 b.34.2.1,b.34.2.1 85660,85661 1gtkA 313 6.08e+01 c.94.1.1,d.50.2.1 76346,76347 1q2lA 939 6.09e+01 1g5cA 170 6.12e+01 1g5cA c.53.2.1 60264 1ofuX 119 6.13e+01 c.37.1.22 86976 1yymG 313 6.18e+01 2bywA 418 6.18e+01 1kjlA 146 6.18e+01 2act 220 6.23e+01 1cs8A d.3.1.1 37002 1v74A 107 6.23e+01 d.243.1.1 100442 1ekeA 230 6.25e+01 1ekeA c.55.3.1 33572 1mh1 186 6.31e+01 1eesA c.37.1.8 32002 1uctA 218 6.34e+01 b.1.1.4,b.1.1.4 88467,88468 3grs 478 6.36e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 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