# 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 2arzA 247 1.57e-44 b.45.1.1 127225 1xhnA 184 4.43e-30 b.45.1.1 122007 1vl7A 157 3.52e-16 b.45.1.1 108732 1rfeA 162 2.32e-11 b.45.1.1 111796 1w9aA 147 4.12e-09 b.45.1.1 114408 2aq6A 147 1.59e-08 b.45.1.1 127156 2hq9A 149 1.11e-07 b.45.1.1 136659 1t9mA 214 4.09e-07 b.45.1.1 112364 2fhqA 141 1.05e-06 b.45.1.1 133497 2hhzA 150 4.30e-06 2htiA 185 5.69e-06 b.45.1.1 136744 2htdA 140 8.20e-06 2ig6A 150 1.26e-05 2iabA 155 1.26e-05 1ty9A 222 2.20e-05 b.45.1.1 112827 2i02A 148 8.84e-05 b.45.1.1 136936 1nrgA 261 9.53e-05 b.45.1.1 80694 2re7A 134 1.10e-04 1g79A 218 1.56e-04 1ci0A b.45.1.1 25752 1dnlA 199 1.69e-04 1ci0A b.45.1.1 25753 2hq7A 146 4.12e-04 b.45.1.1 136657 2asfA 137 4.18e-04 b.45.1.1 127253 1w3oA 216 1.47e-03 b.45.1.1 114142 2a2jA 246 2.28e-03 b.45.1.1 126033 3cp3A 148 1.00e-02 2fg9A 178 1.01e-02 b.45.1.1 133426 1axj 122 3.12e-02 1axj 2furA 209 3.84e-02 b.45.1.1 134185 2ou5A 175 1.31e-01 3ba3A 145 1.43e-01 3bgyA 237 2.22e-01 3b5mA 205 2.36e-01 2i51A 195 2.37e-01 2ej9A 237 3.25e-01 2plgA 163 3.38e-01 1iyjB 817 4.00e-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 2qeaA 160 4.36e-01 2ol5A 202 5.44e-01 1gcvA 140 5.53e-01 1cg5B a.1.1.2 15410 1ci0A 228 7.01e-01 1ci0A b.45.1.1 25750 1drmA 131 1.04e+00 1drmA d.110.3.2 40908 2p2vA 288 1.27e+00 1flmA 122 1.28e+00 1axj b.45.1.1 25747 1q15A 503 1.34e+00 c.26.2.1,d.153.1.1 95538,95539 2h1nA 567 2.10e+00 1ro7A 259 2.42e+00 c.130.1.1 97667 1uocA 289 3.15e+00 c.55.3.9 99686 1kamA 194 3.17e+00 c.26.1.3 72254 1s3iA 310 3.42e+00 b.46.1.1,c.65.1.1 98435,98436 1ef1A 294 3.75e+00 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1ud9A 245 4.47e+00 d.131.1.2,d.131.1.2 107768,107769 2ix0A 663 4.58e+00 2asuB 234 4.78e+00 2nr4A 213 5.09e+00 3b7cA 122 5.35e+00 1k8kD 300 5.69e+00 d.198.2.1,d.198.2.1 68309,68310 2id0A 644 6.36e+00 2nrrA 159 6.76e+00 2p0wA 324 6.83e+00 1pzsA 208 6.95e+00 b.1.8.1 104397 2zmfA 189 7.13e+00 2co7B 221 7.36e+00 1vjuA 309 7.96e+00 d.248.1.1 100835 2e4sA 189 8.22e+00 1r3nA 462 8.32e+00 c.56.5.4,d.58.19.1 96945,96946 1xjcA 169 9.02e+00 c.37.1.10 115387 2j0eA 266 9.34e+00 2cstA 411 9.49e+00 1ajsA c.67.1.1 34273 1nar 290 9.80e+00 1nar 1narA 290 9.80e+00 c.1.8.5 28988 1h4rA 314 9.98e+00 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 2himA 358 1.04e+01 2h2wA 312 1.04e+01 2rijA 387 1.12e+01 1gcwB 135 1.19e+01 1cg5B a.1.1.2 15591 2tbd 134 1.20e+01 2tbd 2hqqA 298 1.23e+01 2b0vA 153 1.24e+01 d.113.1.1 127650 2icnB 118 1.27e+01 1j5kA 89 1.36e+01 d.51.1.1 71565 2hlzA 312 1.36e+01 2o8gI 225 1.37e+01 2z99A 219 1.38e+01 2qe6A 274 1.50e+01 2de3A 365 1.51e+01 1jb0D 138 1.52e+01 1jb0D d.187.1.1 62823 1taq 832 1.59e+01 1taq 2bk9A 153 1.62e+01 2fldA 165 1.73e+01 2v8hA 474 1.74e+01 2qmaA 497 1.78e+01 2jbwA 386 1.83e+01 2zatA 260 1.85e+01 1hfoA 113 1.85e+01 d.80.1.3 61006 1j98A 157 1.86e+01 1j98A d.185.1.2 62755 2i8lA 156 1.88e+01 1b43A 340 1.90e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 2ew5A 181 1.93e+01 2on5A 206 1.96e+01 1ysjA 404 1.96e+01 c.56.5.4,d.58.19.1 123975,123976 1cg5A 141 2.00e+01 1abwA a.1.1.2 15406 1ew3A 159 2.09e+01 1mup b.60.1.1 27114 1lswA 131 2.12e+01 d.110.3.2 78181 2p19A 149 2.17e+01 1ajsA 412 2.29e+01 1ajsA c.67.1.1 34276 2ywrA 216 2.30e+01 2fa8A 105 2.31e+01 c.47.1.23 133185 1zkkA 167 2.36e+01 1kr4A 125 2.42e+01 d.58.5.2 72889 2gjlA 328 2.43e+01 2jbvA 546 2.45e+01 2p3yA 491 2.46e+01 1fy7A 278 2.47e+01 1fy7A d.108.1.1 40817 1go3E 187 2.49e+01 b.40.4.5,d.230.1.1 83054,83055 1h5yA 253 2.52e+01 c.1.2.1 65638 2bw0A 329 2.54e+01 b.46.1.1,c.65.1.1 129303,129304 1eetB 427 2.54e+01 1rthA e.8.1.2 43079 2o0mA 345 2.55e+01 2fufA 134 2.57e+01 d.89.1.1 134120 1wdkC 390 2.58e+01 c.95.1.1,c.95.1.1 109258,109259 1ps9A 671 2.59e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 2rcfA 91 2.65e+01 1gcvB 136 2.74e+01 1cg5B a.1.1.2 15589 1a4fA 141 2.80e+01 1abwA a.1.1.2 15394 1zzkA 82 2.81e+01 d.51.1.1 125909 2fqhA 109 2.89e+01 1ewaA 137 2.91e+01 1ewaA a.1.1.2 15639 2qfnA 138 2.93e+01 1ew6A 137 2.98e+01 1ewaA a.1.1.2 15637 1y4tA 322 3.00e+01 c.94.1.1 116464 2j7uA 635 3.01e+01 2iutA 574 3.02e+01 2qz7A 194 3.09e+01 2ps2A 371 3.10e+01 1vheA 373 3.12e+01 b.49.3.1,c.56.5.4 100669,100670 2pzzA 147 3.17e+01 2e85A 159 3.21e+01 1idsA 207 3.29e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 1oj5A 132 3.29e+01 d.110.3.8 93087 1y7wA 291 3.33e+01 2ceyA 306 3.35e+01 1v4xA 144 3.38e+01 a.1.1.2 108363 1miuA 738 3.39e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 3b50A 310 3.41e+01 3bomA 142 3.43e+01 1frpA 335 3.44e+01 1frpA e.7.1.1 42875 2pfrA 294 3.45e+01 1kw4A 89 3.51e+01 a.60.1.2 73077 2yziA 138 3.53e+01 1r3dA 264 3.53e+01 c.69.1.35 111680 1p7hL 286 3.61e+01 b.1.18.1,b.2.5.3 94271,94272 3bjuA 521 3.71e+01 7ahlA 293 3.72e+01 7ahlA f.6.1.1 43812 1c3gA 170 3.76e+01 1c3gA b.4.1.1,b.4.1.1 22831,22832 1o6sB 105 3.78e+01 b.1.6.1 81096 1zo0A 126 3.79e+01 d.108.1.7 125416 2vfkA 205 3.80e+01 2i7nA 360 3.81e+01 2q9kA 151 3.84e+01 2ebeA 106 3.84e+01 2r79A 283 3.87e+01 3hhrB 203 3.93e+01 1axiB b.1.2.1,b.1.2.1 22005,22006 1nuyA 337 4.02e+01 e.7.1.1 86213 1e8cA 498 4.02e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1u0tA 307 4.07e+01 e.52.1.1 107567 1xx6A 191 4.08e+01 c.37.1.24,g.39.1.14 116139,116140 2h2bA 107 4.21e+01 1zhvA 134 4.21e+01 d.58.18.8,d.58.18.8 125109,125110 1ohvA 472 4.23e+01 c.67.1.4 93031 1j2gA 319 4.31e+01 d.96.1.4,d.96.1.4 103824,103825 2vupA 190 4.34e+01 1m7xA 617 4.44e+01 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1urvA 190 4.46e+01 a.1.1.2 113414 1eaf 243 4.48e+01 1eaf 1dp4A 435 4.53e+01 1dp4A c.93.1.1 35710 1j1nA 492 4.54e+01 c.94.1.1 83978 1t7vA 278 4.57e+01 b.1.1.2,d.19.1.1 112302,112303 1yycA 174 4.58e+01 1vk8A 106 4.59e+01 d.58.48.1 108636 1segA 64 4.59e+01 g.3.7.1 105453 1v3wA 173 4.64e+01 b.81.1.5 100291 2yugA 155 4.70e+01 2pq8A 278 4.72e+01 2omzB 105 4.74e+01 2impA 479 4.74e+01 1kr7A 110 4.75e+01 a.1.1.4 72890 2k29A 53 4.75e+01 1iwmA 186 4.78e+01 b.125.1.2 83758 1kz8A 337 4.83e+01 e.7.1.1 77633 1ignA 246 4.86e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1j9lA 247 4.96e+01 c.106.1.1 62762 1gal 583 4.97e+01 1gpeA 3b7nA 320 4.98e+01 1ul7A 102 5.12e+01 d.129.6.1 99540 1it2A 146 5.12e+01 a.1.1.2 66365 451cA 82 5.16e+01 a.3.1.1 15904 1gyfA 62 5.16e+01 1gyfA d.76.1.1 39749 1k5nA 276 5.16e+01 b.1.1.2,d.19.1.1 77266,77267 1f3yA 165 5.21e+01 d.113.1.1 59635 2zgwA 235 5.23e+01 1vh7A 265 5.26e+01 c.1.2.1 100646 3b9eA 584 5.28e+01 2a0nA 265 5.32e+01 c.1.2.1 125961 2bkfA 87 5.33e+01 d.15.2.2 128699 2ditA 112 5.34e+01 d.58.7.1 131533 1f76A 336 5.36e+01 c.1.4.1 76160 1ffkI 194 5.36e+01 1ffkI d.12.1.2 37494 1i52A 236 5.36e+01 1i52A c.68.1.13 61767 2vdjA 301 5.43e+01 1m5yA 408 5.43e+01 a.223.1.2,d.26.1.1,d.26.1.1 78664,78665,78666 1x84A 189 5.47e+01 d.113.1.2 121795 1wmhA 89 5.49e+01 d.15.2.2 114744 1c3oA 1073 5.53e+01 1c3oA a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18562,31491,31681,31682,41526,41527 1kllA 130 5.53e+01 d.32.1.2 72720 1nd4A 264 5.53e+01 d.144.1.6 91815 1u0mA 382 5.60e+01 c.95.1.2,c.95.1.2 107557,107558 2fpqA 444 5.64e+01 2bbeA 108 5.66e+01 1xj4A 119 5.72e+01 d.110.3.2 122027 1ykdA 398 5.80e+01 2q0xA 335 5.81e+01 1u02A 239 5.83e+01 c.108.1.15 107538 2ogeA 399 5.94e+01 1k3bA 119 5.94e+01 b.61.5.1 72016 1wn5A 130 5.95e+01 c.97.1.1 121082 1i9aA 182 5.98e+01 1i9aA d.113.1.2 62082 1cs0A 1073 5.98e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1pvmA 184 6.02e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 2djfA 119 6.05e+01 b.61.5.1 131541 2bmbA 545 6.06e+01 2fp8A 322 6.17e+01 4uagA 437 6.17e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1wdeA 294 6.20e+01 c.90.1.1 114534 1y89A 238 6.25e+01 2a4xA 138 6.26e+01 d.32.1.2 126166 2pgeA 377 6.31e+01 1hl9A 449 6.38e+01 b.71.1.3,c.1.8.11 90650,90651 1zrhA 274 6.38e+01 1a9xA 1058 6.42e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 3b9oA 440 6.43e+01 1xqiA 195 6.45e+01 d.58.6.1 122237 2ojwA 384 6.48e+01 1pg4A 652 6.50e+01 e.23.1.1 88067 1iurA 88 6.57e+01 a.2.3.1 90704 2nsqA 155 6.63e+01 2hngA 127 6.66e+01 2gar 212 6.71e+01 2gar 1cf3A 583 6.71e+01 1gpeA c.3.1.2,d.16.1.1 30385,37949 2z3hA 130 6.77e+01 2clqA 295 6.81e+01 2yvyA 278 6.92e+01 2vfrA 422 6.93e+01 2vchA 480 6.97e+01 2aqmA 154 6.98e+01 1yuwA 554 7.02e+01 b.130.1.1,c.55.1.1,c.55.1.1 124070,124071,124072 1dm1A 146 7.06e+01 2fal a.1.1.2 15153 1fsuA 492 7.08e+01 c.76.1.2 35032 2ijaA 295 7.08e+01 1nnsA 326 7.09e+01 c.88.1.1 85910 1vkjA 285 7.13e+01 c.37.1.5 108666 1ksiA 642 7.17e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1fkoB 440 7.22e+01 1rthA e.8.1.2 43095 2qxiA 224 7.22e+01 1b8pA 329 7.28e+01 1bmdA c.2.1.5,d.162.1.1 30147,42114 1ksiB 642 7.29e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24409,38045,38046 1awcA 110 7.31e+01 1awcA a.4.5.21 16167 1mp9A 198 7.31e+01 d.129.1.1,d.129.1.1 91385,91386 2dc3A 193 7.33e+01 1q35A 320 7.34e+01 c.94.1.1 95661 1ocxA 182 7.34e+01 b.81.1.3 86814 1hh2P 344 7.35e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 2fsqA 243 7.45e+01 d.61.1.4 134035 2dj6A 115 7.47e+01 2bkxA 242 7.48e+01 1wuuA 399 7.64e+01 d.14.1.5,d.58.26.7 114900,114901 1tlk 154 7.69e+01 1tlk 1wmuA 141 7.76e+01 a.1.1.2 109416 2cyeA 133 7.77e+01 d.38.1.1 131021 1j5uA 136 7.86e+01 d.208.1.1 71584 5fbpA 335 7.86e+01 1frpA e.7.1.1 42873 1vbgA 876 7.88e+01 c.1.12.2,c.8.1.1,d.142.1.5 119951,119952,119953 1zavA 180 7.88e+01 1dpbA 243 7.91e+01 c.43.1.1 32618 1jkxA 212 7.94e+01 c.65.1.1 66813 1fhgA 154 8.00e+01 1tlk b.1.1.4 21706