# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1cnzA 363 1.11e-44 1cnzA c.77.1.1 35061 1cm7A 363 5.03e-44 1cnzA c.77.1.1 35063 1a05A 358 1.20e-43 1cnzA c.77.1.1 35059 1idm 343 7.41e-43 1cnzA c.77.1.1 35035 1ipd 345 7.70e-43 1cnzA c.77.1.1 35038 1dr8B 344 9.64e-43 1cnzA c.77.1.1 35052 1iso 416 2.09e-40 1iso c.77.1.1 35065 1pb1A 416 5.89e-40 c.77.1.1 88014 7icd 416 8.08e-40 1iso c.77.1.1 35072 1hqsA 423 2.16e-39 1iso c.77.1.1 61154 1lwdA 413 6.35e-33 c.77.1.1 78265 1itwA 741 5.62e-05 c.77.1.2 76793 1gtqA 140 2.12e-01 1b66A d.96.1.2 40661 1kyqA 274 3.04e-01 c.2.1.11 73281 e.37.1.1 73282 1efcA 393 3.38e-01 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1b66A 140 3.85e-01 1b66A d.96.1.2 40657 1a3h 300 6.91e-01 7a3hA c.1.8.3 28819 7a3hA 303 1.04e+00 7a3hA c.1.8.3 28817 1fc3A 120 1.06e+00 1fc3A a.4.6.3 16237 1h5vA 304 1.37e+00 c.1.8.3 70898 1dozA 309 1.49e+00 1ak1 c.92.1.1 35592 1j5eB 256 1.72e+00 c.23.15.1 71543 1pnsB 234 1.78e+00 i.1.1.1 88169 1vizA 240 1.84e+00 c.1.4.1 -5212 1fjgB 256 2.04e+00 1fjfB c.23.15.1 31400 1ik6A 369 2.25e+00 c.36.1.7 66174 c.48.1.2 66175 1ak1 310 2.42e+00 1ak1 c.92.1.1 35594 1qxyA 252 2.82e+00 d.127.1.1 -10993 1etu 394 2.96e+00 1efcA c.37.1.8 64737 1o4vA 183 3.02e+00 c.23.8.1 86628 1ta3B 303 3.46e+00 1syyA 346 3.54e+00 1b6a 478 3.55e+00 1bn5 a.4.5.25 16223 d.127.1.1 41160 1thg 544 3.95e+00 1thg c.69.1.17 34763 1d1qA 161 3.96e+00 1dg9A c.44.1.1 32642 1bn5 478 4.06e+00 1bn5 a.4.5.25 16224 d.127.1.1 41161 1nni1 174 4.46e+00 1t0iA 191 5.07e+00 1qdlA 422 5.71e+00 1qdlA d.161.1.1 42088 1el5A 389 6.01e+00 1b3mA c.3.1.2 30369 d.16.1.3 37937 1kfuS 184 6.30e+00 a.39.1.8 68574 1pjbA 361 6.55e+00 1sayA c.2.1.4 30103 c.23.12.2 31363 1h3oB 76 6.79e+00 a.22.1.3 76645 1n6bA 473 6.84e+00 a.104.1.1 85359 1nr6A 473 7.38e+00 a.104.1.1 -1464 1qgvA 142 7.40e+00 1qgvA c.47.1.8 33056 1fpxA 352 7.95e+00 1fpxA a.4.5.29 59950 c.66.1.12 59951 1sayA 361 8.08e+00 1sayA c.2.1.4 30102 c.23.12.2 31362 1ptmA 329 8.09e+00 unknown_sccs -8456 1eqfA 280 8.15e+00 1eqfA a.29.2.1 16972 a.29.2.1 16973 1skyE 473 8.18e+00 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1rm8A 169 8.20e+00 d.92.1.11 -10584 1pjcA 361 8.23e+00 1sayA c.2.1.4 30101 c.23.12.2 31361 1ewkA 490 9.38e+00 1ewkA c.93.1.1 35712 1g01A 364 9.63e+00 7a3hA c.1.8.3 60161 1l9fA 389 9.89e+00 c.3.1.2 73716 d.16.1.3 73717 1vjnA 220 9.92e+00 unknown_sccs -11458 1gci 269 1.03e+01 1gci c.41.1.1 32503 1fp2A 352 1.03e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1lw6E 281 1.04e+01 c.41.1.1 74293 1iibA 106 1.04e+01 1iibA c.44.2.1 32648 1reqA 727 1.04e+01 1reqA c.1.19.1 29620 c.23.6.1 31247 1jcfA 344 1.05e+01 c.55.1.1 62878 c.55.1.1 62879 5reqA 727 1.10e+01 1reqA c.1.19.1 29632 c.23.6.1 31259 1xgsA 295 1.15e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1f6kA 293 1.23e+01 1nal3 c.1.10.1 29081 2fcr 173 1.24e+01 1rcf c.23.5.1 31151 1hizA 379 1.24e+01 c.1.8.3 65841 1j96A 323 1.29e+01 c.1.7.1 71616 1q5nA 454 1.31e+01 a.127.1.1 -1756 1kk9A 221 1.32e+01 d.115.1.1 77432 1ryp1 222 1.35e+01 1ryp1 7reqA 727 1.35e+01 1reqA c.1.19.1 29616 c.23.6.1 31243 1rcb 129 1.37e+01 1rcb a.26.1.2 16854 1l2lA 457 1.37e+01 c.72.1.3 77656 1g0cA 364 1.38e+01 7a3hA c.1.8.3 60165 1c4xA 285 1.40e+01 1c4xA c.69.1.10 34684 1v2dA 381 1.46e+01 2int 129 1.47e+01 1rcb a.26.1.2 16855 1c3cA 429 1.48e+01 1c3cA a.127.1.1 19425 1joa 447 1.50e+01 1nhp c.3.1.5 30563 c.3.1.5 30564 d.87.1.1 40203 1on2A 142 1.51e+01 a.4.5.24 87103 a.76.1.1 87104 1mxgA 435 1.61e+01 b.71.1.1 85193 c.1.8.1 85194 1vlbA 907 1.61e+01 1hziA 129 1.61e+01 1rcb a.26.1.2 61449 1hlrA 907 1.62e+01 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1jceA 344 1.66e+01 c.55.1.1 62876 c.55.1.1 62877 1hskA 326 1.67e+01 2mbr d.145.1.2 61241 d.146.1.1 61242 1dt6A 473 1.78e+01 1dt6A a.104.1.1 18977 1brwA 433 1.80e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1hu3A 260 1.84e+01 1hu3A unknown_sccs 19137 1ursA 402 1.85e+01 c.94.1.1 -8651 1f74A 293 1.87e+01 1nal3 c.1.10.1 29079 1j6nA 303 1.88e+01 1vdkA 466 1.94e+01 a.127.1.1 -1752 1odzA 386 1.99e+01 c.1.8.3 86889 1ltqA 301 2.00e+01 c.108.1.9 78208 c.37.1.1 78209 1sup 275 2.03e+01 1gci c.41.1.1 32510 2end 138 2.04e+01 2end a.18.1.1 16400 1u02A 239 2.05e+01 1e2b 106 2.07e+01 1iibA c.44.2.1 32650 1aw5 326 2.08e+01 1b4kA c.1.10.3 29181 1erw 105 2.09e+01 1erv c.47.1.1 32745 1f9vA 347 2.15e+01 1bg2 c.37.1.9 59745 1jqsC 68 2.18e+01 i.1.1.1 63239 1bbn 133 2.20e+01 1rcb a.26.1.2 16861 1phk 298 2.22e+01 1cdkA d.144.1.7 41635 1jzxK 205 2.22e+01 i.1.1.2 67885 1og6A 298 2.23e+01 c.1.7.1 86984 4rhv1 289 2.32e+01 1pov1 1d0qA 103 2.34e+01 1d0qA g.41.3.2 45208 1kwgA 645 2.34e+01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1mh9A 197 2.34e+01 c.108.1.8 79118 1vasA 137 2.35e+01 2end a.18.1.1 16404 1r29A 127 2.39e+01 d.42.1.1 -9726 1ur3M 319 2.40e+01 c.1.7.1 -5248 1zrn 232 2.41e+01 1qq5A c.108.1.1 43323 1dtyA 429 2.49e+01 1dtyA c.67.1.4 34495 1ni4A 365 2.49e+01 c.36.1.7 85728 1a53 247 2.49e+01 1a53 c.1.2.4 28564 1gakA 141 2.52e+01 1gakA a.19.1.1 16415 1s01 283 2.57e+01 1gci c.41.1.1 32511 1srvA 145 2.58e+01 1derA c.8.5.1 30817 1r6uA 437 2.65e+01 c.26.1.1 -6594 1itm 130 2.68e+01 1rcb a.26.1.2 16858 1bcpB 199 2.68e+01 1bcpB b.40.2.1 25120 d.169.1.2 42429 1qyrA 252 2.71e+01 1h77A 605 2.72e+01 1ncx 162 2.75e+01 1ncx a.39.1.5 17222 1tikA 213 2.76e+01 1alvA 173 2.76e+01 1alvA a.39.1.8 17370 1r85A 379 2.78e+01 1cyi 90 2.79e+01 1ctj a.3.1.1 15804 1m7gA 211 2.82e+01 c.37.1.4 78724 1s1pA 331 2.83e+01 c.1.7.1 -5240 1cnv 299 2.84e+01 1cnv c.1.8.5 28989 1b74A 254 2.88e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1kwkA 645 2.93e+01 b.71.1.1 77565 c.1.8.1 77566 c.23.16.5 77567 1b73A 254 2.93e+01 1b74A c.78.2.1 35266 c.78.2.1 35267 1lh0A 213 2.97e+01 c.61.1.1 73896 1avsA 90 2.99e+01 1cll a.39.1.5 17226 1igs 248 3.02e+01 1a53 c.1.2.4 28565 1o58A 303 3.04e+01 c.79.1.1 -8503 1j9yA 385 3.04e+01 1j9yA c.1.8.3 62791 1lnzA 342 3.13e+01 b.117.1.1 78112 c.37.1.8 78113 1k7jA 206 3.14e+01 d.115.1.1 72103 1o6eA 235 3.15e+01 b.57.1.1 81083 1bh6A 274 3.15e+01 1gci c.41.1.1 32487 1oroA 213 3.17e+01 1opr c.61.1.1 34093 1cec 343 3.18e+01 1ceo c.1.8.3 28809 1q92A 197 3.20e+01 c.108.1.8 -6819 1pj5A 830 3.29e+01 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1khyA 148 3.30e+01 a.174.1.1 77410 1ea7A 310 3.31e+01 c.41.1.1 70086 1juk 248 3.31e+01 1a53 c.1.2.4 28567 1nhs 447 3.34e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1jmvA 141 3.42e+01 c.26.2.4 66897 1g0uL 241 3.43e+01 d.153.1.4 41894 1ee8A 266 3.47e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1crl 534 3.54e+01 1thg c.69.1.17 34765 1lkcA 364 3.55e+01 c.67.1.1 73978 1nhp 447 3.58e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1dd9A 338 3.64e+01 1dd9A e.13.1.1 43254 1co6A 107 3.65e+01 1ycc a.3.1.1 15894 1j31A 262 3.65e+01 d.160.1.2 -11473 1dfmA 223 3.67e+01 1d2iA c.52.1.5 33295 1a7w 69 3.67e+01 1a7w a.22.1.2 16477 1nmoA 247 3.67e+01 unknown_sccs -8746 1fyeA 229 3.71e+01 1fyeA c.23.16.4 31477 1kczA 413 3.80e+01 c.1.11.2 68451 d.54.1.1 68452 1rreA 200 3.81e+01 unknown_sccs -9106 1eluA 390 3.82e+01 1elqA c.67.1.3 34434 1eqnA 321 3.84e+01 1dd9A e.13.1.1 43256 1pvdA 537 3.84e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 2hgsA 474 3.85e+01 2hgsA c.30.1.4 31722 d.142.1.6 75997 1elqA 390 3.89e+01 1elqA c.67.1.3 34436 1ceo 343 3.89e+01 1ceo c.1.8.3 28808 1ohlA 342 3.92e+01 c.1.10.3 87035 1k6wA 426 3.96e+01 b.92.1.2 68236 c.1.9.5 68237 1jk3A 158 3.98e+01 d.92.1.11 66790