# List of top-scoring protein chains for t04-100-30-alpha 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 1jx7A 117 1.42e-05 c.114.1.1 77195 1l1sA 113 7.30e-03 c.114.1.1 73484 1m32A 366 2.07e-02 c.67.1.3 78508 1bia 321 1.70e-01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1bftA 101 2.88e-01 1a3qA b.1.18.1 21934 1hdfA 102 3.21e-01 1ag4 b.11.1.1 23627 1my7A 114 3.43e-01 b.1.18.1 79675 1d7yA 408 4.03e-01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1jsmA 325 4.09e-01 b.19.1.2 63264 1npk 154 5.41e-01 1npk d.58.6.1 39099 1r6xA 395 5.54e-01 1plq 258 5.72e-01 1plq d.131.1.2 41388 d.131.1.2 41389 1s98A 107 5.76e-01 1zpdA 568 6.02e-01 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1g38A 393 6.80e-01 2admA c.66.1.27 60235 1vj1A 363 1.11e+00 1c0pA 363 1.58e+00 1an9A c.4.1.2 30647 d.16.1.3 37934 1ep3B 262 1.61e+00 1ep2B b.43.4.2 25664 c.25.1.3 31554 2viuA 328 1.67e+00 1hgeA b.19.1.2 23797 1hm6A 346 1.93e+00 1avc a.65.1.1 18147 1pkhA 204 2.19e+00 1epxA 370 2.27e+00 1fbaA c.1.10.1 29150 1jb9A 316 2.52e+00 1fnc b.43.4.2 62840 c.25.1.1 62841 1g6oA 330 2.59e+00 1g6oA c.37.1.11 32430 1a2vA 655 2.60e+00 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1bcpB 199 2.63e+00 1bcpB b.40.2.1 25120 d.169.1.2 42429 1k3sA 113 2.82e+00 d.198.1.1 68120 1mplA 349 2.94e+00 e.3.1.1 79387 1fukA 165 3.55e+00 1fukA c.37.1.19 32409 1k07A 263 3.66e+00 d.157.1.1 77218 1r94A 118 3.75e+00 1qvcA 145 4.02e+00 3ullA b.40.4.3 25284 1b2pA 119 4.45e+00 1b2pA b.78.1.1 27998 1pqhA 143 4.76e+00 1np6A 174 4.78e+00 c.37.1.10 85954 1miwA 404 4.96e+00 a.173.1.1 79162 d.218.1.4 79163 1cbf 285 5.01e+00 1cbf c.90.1.1 35587 3pte 349 5.09e+00 3pte e.3.1.1 42687 1hh1A 143 5.47e+00 1gefA c.52.1.18 61036 1hvbA 349 5.53e+00 3pte e.3.1.1 42686 1qzzA 374 5.93e+00 1f20A 435 6.06e+00 b.43.4.1 64932 c.25.1.4 64933 1fdr 248 6.25e+00 1fdr b.43.4.2 25653 c.25.1.1 31543 1mj4A 82 6.36e+00 d.120.1.1 79189 1du9A 28 6.47e+00 g.3.7.2 44148 1aw8B 91 6.64e+00 1aw8B 1ufkA 254 6.77e+00 1ri5A 298 7.05e+00 1m5q1 130 7.21e+00 1g4yR 148 7.31e+00 1cll a.39.1.5 60252 1nhp 447 7.36e+00 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 2pspA 106 7.41e+00 2pspA g.16.1.1 44730 g.16.1.1 44731 1fjgB 256 7.42e+00 1fjfB c.23.15.1 31400 1iz5A 249 7.43e+00 d.131.1.2 83834 d.131.1.2 83835 8dfr 189 7.47e+00 1aoeA c.71.1.1 34895 1p1cA 199 7.57e+00 c.66.1.16 87669 1utcA 363 7.76e+00 1o66A 275 8.02e+00 1eu1A 780 8.26e+00 1dmr b.52.2.2 26903 c.81.1.1 35311 1am2 199 8.27e+00 1am2 b.86.1.2 28381 1vmoA 163 8.29e+00 1vmoA b.77.1.1 27974 1pvdA 537 8.33e+00 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1jj2X 240 8.38e+00 1ffkV c.9.2.1 63109 1q3eA 207 8.41e+00 1l1qA 186 8.42e+00 c.61.1.1 77653 1gc0A 398 8.43e+00 c.67.1.3 70168 1h05A 146 8.65e+00 c.23.13.1 76433 1kutA 230 8.65e+00 d.143.1.1 73017 1ass 159 8.74e+00 1a6dA c.8.5.2 30818 1ypcI 64 8.80e+00 2sniI d.40.1.1 38570 1ogdA 131 9.26e+00 1oi2A 366 9.36e+00 c.32.1.2 87039 d.79.2.2 87040 1b0pA 1231 9.61e+00 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1o7fA 469 1.07e+01 a.4.5.31 81131 b.82.3.2 81132 b.82.3.2 81133 1rwzA 245 1.09e+01 1a8y 367 1.10e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1n5dA 288 1.11e+01 c.2.1.2 80030 1l3iA 192 1.11e+01 c.66.1.22 77676 1hu4A 288 1.12e+01 1hu4A 1yasA 257 1.17e+01 1qj4A c.69.1.20 34801 1i3cA 149 1.20e+01 c.23.1.1 71112 1dgwA 178 1.23e+01 1dgwA b.82.1.2 28090 1l8rA 101 1.30e+01 a.6.1.4 73700 1bw0A 416 1.30e+01 1bw0A c.67.1.1 34385 1a8rA 221 1.30e+01 1a8rA d.96.1.1 40587 1hnnA 282 1.32e+01 c.66.1.15 65895 1qr0A 228 1.33e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1chuA 540 1.34e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1paz 123 1.38e+01 1bqk b.6.1.1 22878 1qycA 308 1.42e+01 1dqwA 267 1.44e+01 1dqwA c.1.2.3 28551 1g8fA 511 1.46e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1cxyA 90 1.46e+01 1cyo d.120.1.1 41085 1mbmA 198 1.50e+01 b.47.1.3 78916 1on3A 523 1.51e+01 c.14.1.4 87107 c.14.1.4 87108 1sat 471 1.51e+01 1sat b.79.1.1 28014 d.92.1.6 40300 2dhqA 146 1.52e+01 2dhqA c.23.13.1 31382 1lw6I 64 1.53e+01 d.40.1.1 74294 1jg1A 235 1.55e+01 c.66.1.7 66661 1qb7A 236 1.55e+01 1qb7A c.61.1.1 34087 3ullA 132 1.60e+01 3ullA b.40.4.3 25282 1r64A 481 1.60e+01 1apxA 249 1.62e+01 1ryc a.93.1.1 18669 1vhtA 218 1.63e+01 1ayaA 101 1.66e+01 1qadA d.93.1.1 40460 1a79A 171 1.66e+01 1a79A c.52.2.1 33340 d.75.1.1 39739 1qj4A 257 1.71e+01 1qj4A c.69.1.20 34796 1tf4A 605 1.75e+01 1tf4A a.102.1.2 18827 b.2.2.2 22393 1fjrA 195 1.77e+01 1fjrA b.102.1.1 59855 1k7cA 233 1.79e+01 c.23.10.4 68267 2sicI 107 1.81e+01 3ssi d.84.1.1 40031 1jysA 242 1.81e+01 c.56.2.1 77216 1aquA 297 1.85e+01 1aquA c.37.1.5 31942 1knwA 425 1.88e+01 1jm1A 204 1.88e+01 b.33.1.1 71745 1n3bA 216 1.89e+01 c.37.1.1 79959 1deoA 233 1.89e+01 1deoA c.23.10.4 31345 1ne7A 289 1.97e+01 3psg 370 1.97e+01 1smrA b.50.1.2 26841 1bqk 124 1.99e+01 1bqk b.6.1.1 22889 1ej1A 190 2.01e+01 1ejhA d.86.1.1 40144 1bhe 376 2.02e+01 1bhe b.80.1.3 28030 1b5pA 385 2.03e+01 1o4sA 389 2.09e+01 c.67.1.1 86620 4pep 326 2.13e+01 1smrA b.50.1.2 26843 1mb4A 370 2.14e+01 c.2.1.3 78908 d.81.1.1 78909 1o6dA 163 2.15e+01 1s3zA 165 2.21e+01 1qydA 313 2.23e+01 1ed8A 449 2.25e+01 1b8jA c.76.1.1 34988 1lkkA 105 2.25e+01 1lckA d.93.1.1 40412 1o54A 277 2.25e+01 1dqsA 393 2.25e+01 1dqsA e.22.1.1 43347 1gdoA 240 2.27e+01 1gdoA d.153.1.1 41804 1d9tA 289 2.28e+01 1deaA 1lxiA 139 2.29e+01 g.17.1.2 84735 1uroA 367 2.34e+01 1uroA c.1.22.1 29675 1omiA 248 2.39e+01 a.4.5.4 87079 b.82.3.3 87080 1gydB 315 2.40e+01 b.67.2.1 70751 1bjwA 382 2.40e+01 1bjwA c.67.1.1 34349 1rz3A 201 2.42e+01 1kekA 1231 2.48e+01 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1hq0A 295 2.53e+01 1hzgA d.194.1.1 61122 1bouB 302 2.54e+01 1bouB c.56.6.1 33859 1fgkA 310 2.57e+01 1fgkA d.144.1.7 41693 1o1xA 155 2.59e+01 c.121.1.1 86553 1v3eA 431 2.62e+01 1wdcC 156 2.63e+01 1wdcC a.39.1.5 17317 1dcfA 136 2.67e+01 1dcfA c.23.1.2 31124 1qwgA 251 2.70e+01 1h80A 464 2.72e+01 b.80.1.8 65714 1nhs 447 2.75e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1rypG 244 2.78e+01 d.153.1.4 41938 1fqtA 112 2.83e+01 1fqtA b.33.1.1 24441 1itvA 195 2.83e+01 b.66.1.1 76791 1fmb 104 2.84e+01 1fmb b.50.1.1 26777 1nvpD 108 2.90e+01 2reb 352 2.93e+01 2reb c.37.1.11 32282 d.48.1.1 38767 1ga3A 113 2.97e+01 1ga3A a.26.1.2 60411 1led 243 3.02e+01 1led b.29.1.1 24039 1t9kA 347 3.05e+01 1jsdA 319 3.16e+01 b.19.1.2 63258 1spvA 184 3.19e+01 2sas 185 3.36e+01 2sas a.39.1.5 17258 1pv0A 46 3.43e+01 1uxxX 133 3.44e+01 1exrA 148 3.45e+01 1cll a.39.1.5 17299 1gq8A 319 3.45e+01 b.80.1.5 70350 1b0uA 262 3.46e+01 1b0uA c.37.1.12 32370 1oe0A 230 3.51e+01 1gnuA 117 3.54e+01 d.15.1.3 65403 1kmvA 186 3.58e+01 c.71.1.1 72757 1plc 99 3.66e+01 1plc b.6.1.1 22846 1nkxA 348 3.70e+01 1h7eA 245 3.71e+01 c.68.1.13 60717 2arcA 164 3.71e+01 2arcA b.82.4.1 28148 1jxhA 288 3.79e+01 c.72.1.2 67415 1vkiA 181 3.79e+01 1pne 140 3.81e+01 1pne d.110.1.1 40866 1smlA 269 3.81e+01 1smlA d.157.1.1 42053 1fzoA 274 3.82e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1rlhA 173 3.82e+01 1c4xA 285 3.83e+01 1c4xA c.69.1.10 34684 1amuA 563 3.85e+01 1amuA e.23.1.1 43351 1ro2A 216 3.88e+01 1khxA 227 3.91e+01 b.26.1.1 68631 1r3sA 367 3.93e+01 1qv9A 283 3.94e+01 1nnlA 225 3.98e+01 c.108.1.4 85906