# List of top-scoring protein chains for t04-100-30-str2-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 1.73e-39 b.45.1.1 127225 1dnlA 199 5.90e-26 1ci0A b.45.1.1 25753 1g79A 218 7.27e-26 1ci0A b.45.1.1 25752 1xhnA 184 3.29e-25 b.45.1.1 122007 1vl7A 157 4.42e-24 b.45.1.1 108732 1rfeA 162 6.86e-24 b.45.1.1 111796 1nrgA 261 1.49e-23 b.45.1.1 80694 1t9mA 214 1.37e-21 b.45.1.1 112364 2a2jA 246 1.32e-20 b.45.1.1 126033 1ci0A 228 5.40e-20 1ci0A b.45.1.1 25750 1ty9A 222 6.16e-20 b.45.1.1 112827 2fhqA 141 1.20e-19 b.45.1.1 133497 2fg9A 178 5.15e-19 b.45.1.1 133426 2htiA 185 1.37e-18 b.45.1.1 136744 2hq9A 149 2.74e-18 b.45.1.1 136659 2i02A 148 2.84e-18 b.45.1.1 136936 2asfA 137 5.46e-18 b.45.1.1 127253 2hhzA 150 1.60e-17 2re7A 134 4.36e-17 2aq6A 147 6.04e-17 b.45.1.1 127156 1w9aA 147 7.17e-17 b.45.1.1 114408 2i51A 195 1.26e-16 2iabA 155 8.30e-16 1w3oA 216 2.26e-15 b.45.1.1 114142 2ig6A 150 5.74e-15 2hq7A 146 1.28e-14 b.45.1.1 136657 2furA 209 4.12e-14 b.45.1.1 134185 2htdA 140 1.53e-13 2qeaA 160 3.95e-12 2ol5A 202 7.15e-12 1flmA 122 4.37e-10 1axj b.45.1.1 25747 2ou5A 175 8.06e-10 3cp3A 148 1.91e-09 3ba3A 145 2.83e-08 2q9kA 151 1.56e-04 3b5mA 205 2.81e-04 2qckA 167 1.02e-02 2ptfA 233 1.04e-02 1ejeA 192 1.32e-02 1ejeA b.45.1.2 25757 1k8kD 300 2.30e-02 d.198.2.1,d.198.2.1 68309,68310 2ozpA 345 4.56e-02 3bpkA 206 4.72e-02 2imlA 199 5.86e-02 2cw5A 255 6.13e-02 1iejA 332 1.05e-01 1nnt c.94.1.2 62328 2ej9A 237 1.38e-01 2z1aA 552 1.54e-01 1fc6A 388 1.62e-01 1fc6A b.36.1.3,c.14.1.2 64738,64739 2qz7A 194 1.74e-01 2plgA 163 1.94e-01 1k3eA 156 1.97e-01 d.198.1.1 68103 1ko3A 230 2.44e-01 d.157.1.1 90974 1aisA 182 3.04e-01 1ytbA d.129.1.1,d.129.1.1 41288,41289 2nr4A 213 3.35e-01 1lqyA 184 3.52e-01 d.167.1.1 74212 1ui7A 638 3.78e-01 b.30.2.1,d.17.2.1,d.17.2.1 99413,99414,99415 1ps9A 671 3.94e-01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 3bfmA 235 4.08e-01 2j3mA 572 4.30e-01 2z9wA 392 4.55e-01 2pdoA 144 5.20e-01 1go3E 187 5.23e-01 b.40.4.5,d.230.1.1 83054,83055 2iv2X 715 5.46e-01 b.52.2.2,c.81.1.1 137714,137715 1fmtA 314 5.71e-01 1fmtA b.46.1.1,c.65.1.1 25758,34174 2hv2A 400 5.83e-01 2j9cA 119 6.81e-01 2d1wA 638 6.99e-01 b.30.2.1,d.17.2.1,d.17.2.1 131145,131146,131147 2d5mA 190 7.01e-01 1w6gA 646 7.21e-01 b.30.2.1,d.17.2.1,d.17.2.1 120660,120661,120662 2kfnA 605 7.58e-01 1xwl c.55.3.5,e.8.1.1 33682,42975 1sqwA 188 7.60e-01 b.122.1.1,d.17.6.3 119033,119034 1vz6A 393 7.65e-01 d.154.1.2 108949 1t5yA 190 8.55e-01 b.122.1.1,d.17.6.3 106495,106496 3b8bA 292 8.95e-01 2fjuB 799 1.00e+00 1iqyA 638 1.03e+00 b.30.2.1,d.17.2.1,d.17.2.1 76763,76764,76765 1qhdA 398 1.07e+00 1qhdA a.115.1.2,b.19.1.1 63324,63325 1uocA 289 1.16e+00 c.55.3.9 99686 1ui8A 638 1.18e+00 b.30.2.1,d.17.2.1,d.17.2.1 99419,99420,99421 1qwyA 291 1.23e+00 b.84.3.2 96509 1n9lA 109 1.24e+00 d.110.3.6 85468 1rz1A 161 1.28e+00 b.45.1.2 98124 2c9hA 444 1.31e+00 2nrqA 159 1.31e+00 2btoA 473 1.34e+00 1q2lA 939 1.38e+00 d.185.1.1,d.185.1.1,d.185.1.1,d.185.1.1 118731,118732,118733,118734 1rjoA 646 1.38e+00 b.30.2.1,d.17.2.1,d.17.2.1 111832,111833,111834 1l0qA 391 1.41e+00 b.1.3.1,b.69.2.3 77644,77645 2dr3A 247 1.41e+00 2ix0A 663 1.43e+00 2ozlA 365 1.53e+00 2d37A 176 1.62e+00 2oplA 187 1.62e+00 2in0A 139 1.67e+00 2nqtA 352 1.73e+00 3b49A 211 1.80e+00 2id0A 644 1.84e+00 2i8tA 167 1.95e+00 1pvtA 238 2.00e+00 c.74.1.1 95189 1m5yA 408 2.01e+00 a.223.1.2,d.26.1.1,d.26.1.1 78664,78665,78666 1ryaA 160 2.10e+00 d.113.1.5 105122 3c1mA 473 2.10e+00 1x54A 434 2.16e+00 2isbA 192 2.16e+00 c.8.9.1 137601 2jhnA 295 2.18e+00 1ni4A 365 2.25e+00 c.36.1.11 85728 1ne9A 335 2.31e+00 d.108.1.4,d.108.1.4 91839,91840 1lbvA 252 2.35e+00 e.7.1.1 73813 1oacA 727 2.39e+00 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1kr4A 125 2.63e+00 d.58.5.2 72889 1eovA 487 2.91e+00 1b8aA b.40.4.1,d.104.1.1 25239,40760 1b9hA 388 3.00e+00 1b9hA c.67.1.4 34488 2joqA 91 3.01e+00 1s3iA 310 3.08e+00 b.46.1.1,c.65.1.1 98435,98436 1zvkA 358 3.08e+00 1y6hA 177 3.12e+00 d.167.1.1 116505 2h1tA 188 3.13e+00 1q6hA 224 3.17e+00 d.26.1.1 95975 1vjpA 394 3.23e+00 c.2.1.3,d.81.1.3 100828,100829 3cinA 394 3.23e+00 1vkkA 154 3.23e+00 d.109.1.2 108669 1b16A 254 3.24e+00 1b16A c.2.1.2 29875 3byvA 377 3.27e+00 1sbyA 254 3.29e+00 c.2.1.2 118930 1bywA 110 3.44e+00 1bywA d.110.3.6 40912 2a4xA 138 3.54e+00 d.32.1.2 126166 1q6uA 245 3.59e+00 d.26.1.1 95998 1iwmA 186 3.69e+00 b.125.1.2 83758 3bljA 221 3.70e+00 2z6wA 165 3.87e+00 1vk8A 106 3.92e+00 d.58.48.1 108636 2hufA 393 3.94e+00 3cxjA 165 3.95e+00 2bllA 345 4.01e+00 c.2.1.2 128733 1urvA 190 4.22e+00 a.1.1.2 113414 2gjgA 248 4.24e+00 2dy1A 665 4.25e+00 1ujqA 305 4.33e+00 c.1.12.7 99463 2yweA 600 4.42e+00 2zbvA 263 4.52e+00 2gibA 103 4.58e+00 d.254.1.2 135225 1u6mA 199 4.69e+00 d.108.1.1 113069 1i1qA 520 4.70e+00 1qdlA d.161.1.1 61543 1nlfA 279 4.74e+00 c.37.1.11 85850 2dc3A 193 4.90e+00 2iwzA 438 4.99e+00 2bitX 165 5.03e+00 b.62.1.1 128590 1hwxA 501 5.04e+00 1hwyA c.2.1.7,c.58.1.1 30250,33898 2gj8A 172 5.06e+00 c.37.1.8 135270 1i7qA 519 5.10e+00 1qdlA d.161.1.1 61901 1f7lA 121 5.20e+00 1f7lA d.150.1.2 59666 1wsrA 375 5.21e+00 2q6kA 283 5.23e+00 1a6cA 513 5.34e+00 1a6cA b.121.4.2,b.121.4.2,b.121.4.2 23296,23297,23298 1wn1A 356 5.34e+00 1kvkA 395 5.44e+00 d.14.1.5,d.58.26.3 73060,73061 1j5uA 136 5.49e+00 d.208.1.1 71584 1c8bA 371 5.59e+00 1c8bA c.56.1.2 59082 1sjyA 159 5.64e+00 d.113.1.1 98900 1s3rA 535 5.70e+00 1cruA 454 5.75e+00 1c9uA b.68.2.1 27617 2fe7A 166 5.76e+00 d.108.1.1 133325 2p13A 90 5.89e+00 1oc2A 348 5.93e+00 c.2.1.2 92765 1c8uA 285 5.93e+00 1c8uA d.38.1.3,d.38.1.3 38547,38548 1v3eA 431 5.98e+00 b.68.1.1 100287 2napA 723 6.07e+00 2napA b.52.2.2,c.81.1.1 26926,35334 1ftrA 296 6.08e+00 1ftrA d.58.33.1,d.58.33.1 39485,39486 2orzA 314 6.22e+00 1td2A 287 6.25e+00 c.72.1.5 106765 2vktA 289 6.34e+00 2q9uA 414 6.47e+00 1y08A 323 6.64e+00 d.3.1.12 116280 1jpcA 109 6.71e+00 b.78.1.1 27986 2fckA 181 6.72e+00 d.108.1.1 133272 1lvmA 229 6.72e+00 b.47.1.3 78243 1vjtA 483 6.78e+00 c.2.1.5,d.162.1.2 100833,100834 2dtqA 223 6.81e+00 b.1.1.2,b.1.1.2 131725,131726 1wj9A 211 6.86e+00 d.58.53.1,d.58.53.1 114694,114695 2b1xA 470 6.88e+00 b.33.1.2,d.129.3.3 127675,127676 1q8iA 783 7.01e+00 c.55.3.5,e.8.1.1 96208,96209 1z4rA 168 7.06e+00 d.108.1.1 124444 1yz1A 174 7.12e+00 b.88.1.2 124264 1vi9A 299 7.22e+00 c.72.1.5 100750 2cyeA 133 7.34e+00 d.38.1.1 131021 2ns9A 157 7.39e+00 2cveA 191 7.45e+00 d.14.1.11,d.58.11.2 130869,130870 1cf3A 583 7.46e+00 1gpeA c.3.1.2,d.16.1.1 30385,37949 2bycA 137 7.46e+00 d.58.10.2 129476 2z6oA 172 7.53e+00 1j5kA 89 7.54e+00 d.51.1.1 71565 1obpA 159 7.69e+00 1obpA b.60.1.1 27092 1jfuA 186 7.70e+00 c.47.1.10 62940 2h1nA 567 7.73e+00 2o3aA 178 7.81e+00 2bw0A 329 7.87e+00 b.46.1.1,c.65.1.1 129303,129304 2q4wA 524 7.93e+00 2i6lA 320 7.94e+00 1z6rA 406 7.96e+00 a.4.5.63,c.55.1.10,c.55.1.10 124557,124558,124559 1ixcA 294 8.05e+00 a.4.5.37,c.94.1.1 83764,83765 1wmhB 86 8.10e+00 d.15.2.2 114745 3bxoA 239 8.18e+00 2in1A 175 8.20e+00 d.20.1.4 137521 1mpyA 307 8.48e+00 1mpyA d.32.1.3,d.32.1.3 38508,38509 2it9A 127 8.54e+00 d.18.1.3 137634 1ri6A 343 8.59e+00 b.69.11.1 97503 2nyiA 195 8.59e+00 2pmzA 880 8.60e+00 2avwA 311 8.82e+00 1mdbA 539 8.88e+00 e.23.1.1 79008 2he7A 283 8.91e+00 1fd9A 213 8.95e+00 1fd9A d.26.1.1 59771 1kcmA 270 8.96e+00 d.129.3.4 72300 1b7yA 350 8.96e+00 1pysA d.104.1.1 40776 1d2fA 390 9.06e+00 1d2fA c.67.1.3 34411 1p4fA 293 9.26e+00 d.144.1.7 104063 2oklA 185 9.33e+00 1e5mA 416 9.34e+00 1dd8A c.95.1.1,c.95.1.1 58973,58974 1g291 372 9.35e+00 1g291 1uarA 285 9.59e+00 c.46.1.2,c.46.1.2 107762,107763 2zmfA 189 9.64e+00 2z3hA 130 9.64e+00 1ww7A 160 9.66e+00 1plq 258 9.71e+00 1plq 1plqA 258 9.71e+00 d.131.1.2,d.131.1.2 41388,41389 2z9iA 324 9.77e+00 1m6iA 493 9.83e+00 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1nd4A 264 9.90e+00 d.144.1.6 91815 1nrwA 288 9.96e+00 c.108.1.10 86128 2ej8A 160 9.96e+00 2cb2A 318 1.01e+01 d.58.4.17 130174 2pfrA 294 1.01e+01 1wn5A 130 1.02e+01 c.97.1.1 121082 1zynA 202 1.02e+01 c.47.1.2,c.47.1.2 125838,125839 1fc1A 224 1.03e+01 1igtB b.1.1.2,b.1.1.2 21520,21521 2r6r1 338 1.04e+01 1y14B 171 1.05e+01 b.40.4.5,d.230.1.1 116323,116324 1ylnA 252 1.06e+01 b.45.2.1,b.45.2.2 123657,123658 2ixaA 444 1.06e+01 1w8oA 601 1.06e+01 b.1.18.2,b.18.1.1,b.68.1.1 114374,114375,114376 3cnwA 148 1.06e+01 2e4sA 189 1.07e+01 1r9gA 216 1.08e+01 c.23.16.1 97258 1t3tA 1303 1.08e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 2rdeA 251 1.09e+01 1bebA 162 1.09e+01 1bebA b.60.1.1 27115 2ywrA 216 1.10e+01 2ar5A 121 1.10e+01 2gp6A 434 1.10e+01 2pzzA 147 1.11e+01 1h4vB 421 1.11e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 2exrA 524 1.12e+01 1ykjA 394 1.13e+01 2pd1A 104 1.13e+01 1djxB 624 1.13e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1fsz 372 1.13e+01 1fsz 2nv0A 196 1.13e+01 c.23.16.1 138625 1rdr 461 1.16e+01 1rdr 2r5fA 264 1.18e+01 3d72A 149 1.18e+01 1ef1A 294 1.18e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1k2eA 156 1.19e+01 d.113.1.1 72010 2v2fF 390 1.19e+01 2qdfA 335 1.21e+01 1xteA 154 1.21e+01 d.189.1.1 116017 1mc0A 368 1.23e+01 d.110.2.1,d.110.2.1 78937,78938 1zwxA 301 1.23e+01 d.151.1.3 125752 1j58A 385 1.25e+01 b.82.1.2 71531 1q1cA 280 1.29e+01 d.26.1.1,d.26.1.1 104474,104475 1yx1A 264 1.30e+01 c.1.15.7 124169 2elaA 175 1.30e+01 2bpqA 373 1.32e+01 1k1xA 659 1.33e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1gal 583 1.33e+01 1gpeA 1vknA 351 1.34e+01 c.2.1.3,d.81.1.1 108676,108677 1f37A 110 1.35e+01 1f37A c.47.1.11 33088 2j3tD 219 1.35e+01 1lc5A 364 1.35e+01 c.67.1.1 73827 1i0rA 169 1.36e+01 1i0rA b.45.1.2 61489 2a7lA 136 1.36e+01 d.20.1.1 126350 1x9mA 698 1.37e+01 c.55.3.5,e.8.1.1 114999,115000 2pdrA 149 1.37e+01 2dkhA 639 1.38e+01 1djxA 624 1.41e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 2v3sA 96 1.42e+01 1gg3A 279 1.43e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16372,27007,37615 1pysA 350 1.45e+01 1pysA d.104.1.1 40775 2hldG 278 1.46e+01 1lla 628 1.46e+01 1lla 1llaA 628 1.46e+01 a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1qz9A 416 1.47e+01 c.67.1.3 96621 1sjiA 350 1.47e+01 2f46A 156 1.47e+01 1ifrA 121 1.48e+01 b.1.16.1 71203 1m9sA 605 1.50e+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 1oa4A 222 1.52e+01 b.29.1.11 86731 2p12A 176 1.52e+01 2qmmA 197 1.53e+01 3dfhA 394 1.55e+01 2dyoA 297 1.55e+01 2ahxA 617 1.56e+01 1tuvA 114 1.56e+01 d.58.4.11 112665 1tueB 218 1.57e+01 b.91.1.1 107324 2gwmA 200 1.57e+01 1u55A 188 1.57e+01 d.278.1.1 107677 3bneA 839 1.61e+01 1qauA 112 1.64e+01 1qauA b.36.1.1 24779 1j9lA 247 1.65e+01 c.106.1.1 62762 1wcqA 601 1.66e+01 b.1.18.2,b.18.1.1,b.68.1.1 120894,120895,120896 2jg1A 330 1.67e+01 1s5jA 847 1.67e+01 c.55.3.5,e.8.1.1 112040,112041 2dkaA 544 1.68e+01 1quqB 121 1.72e+01 1quqB b.40.4.3 25305 2nvmA 126 1.74e+01 d.326.1.1 138631 1u5kA 244 1.76e+01 b.40.4.13,g.45.1.2 113038,113039 1s4nA 348 1.78e+01 c.68.1.16 98501 2aclB 244 1.79e+01 1ut7A 171 1.80e+01 b.143.1.1 99906 2pi2E 142 1.84e+01 1lf7A 182 1.84e+01 b.60.1.1 73878 1pj5A 830 1.84e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 2b9hA 353 1.85e+01 2c78A 405 1.86e+01 b.43.3.1,b.44.1.1,c.37.1.8 130037,130038,130039 1mba 147 1.86e+01 2fal 1xtnA 120 1.86e+01 d.189.1.1 116028 1mbaA 146 1.86e+01 a.1.1.2 15149 1c7nA 399 1.87e+01 1d2fA c.67.1.3 34413 1ur1A 378 1.87e+01 c.1.8.3 99804 1n3lA 372 1.87e+01 c.26.1.1 79966 1xtzA 264 1.87e+01 2hzqA 174 1.89e+01 1vclA 432 1.89e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1g8yA 279 1.91e+01 1g8yA c.37.1.11 32302 1khdA 345 1.92e+01 a.46.2.1,c.27.1.1 77400,77401 2r7dA 469 1.94e+01 2go8A 122 1.95e+01 1pbe 394 1.95e+01 1pbe 1pbeA 394 1.95e+01 c.3.1.2,d.16.1.2 30338,37869 1pbyB 337 1.97e+01 b.69.2.2 94422 1iznA 286 1.97e+01 e.43.1.1 83847 1jfmA 174 1.99e+01 d.19.1.1 66640 1l3iA 192 1.99e+01 c.66.1.22 77676 2z2nA 299 1.99e+01 1r8nA 185 1.99e+01 b.42.4.1 104851 1p9oA 313 2.01e+01 c.72.3.1 94397 2pd8A 149 2.06e+01 2bbeA 108 2.06e+01 1jjtA 228 2.08e+01 1a7tA d.157.1.1 63139 2o99A 182 2.10e+01 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