# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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 1he2A 206 7.10e-01 1he2A c.2.1.2 60966 1hdoA 206 7.76e-01 1he2A c.2.1.2 60965 1g61A 228 1.04e+00 1g61A d.126.1.1 41126 1dc7A 124 1.21e+00 1dbwA c.23.1.1 31093 1mioB 458 1.32e+00 1qguB c.92.2.3 35602 1ccwA 137 1.40e+00 1be1 c.23.6.1 31238 1zhvA 134 1.54e+00 2cvjA 180 1.72e+00 1cye 129 1.73e+00 3chy c.23.1.1 31077 1a3yA 149 2.17e+00 1obpA b.60.1.1 27110 1ab6A 125 2.39e+00 3chy c.23.1.1 31054 1ab5A 125 2.63e+00 3chy c.23.1.1 31056 3chy 128 2.64e+00 3chy c.23.1.1 31038 1jbeA 128 2.70e+00 3chy c.23.1.1 62845 1dzkA 157 3.01e+00 1obpA b.60.1.1 27096 1nm2A 317 3.17e+00 c.19.1.1,d.58.23.1 80654,80655 2atzA 180 3.39e+00 1j8fA 323 3.43e+00 1j8fA c.31.1.5 62738 1b1a 137 3.43e+00 1be1 c.23.6.1 31242 2gq1A 332 3.58e+00 2gk9A 426 3.76e+00 1wohA 305 3.94e+00 c.42.1.1 109446 1lfwA 470 4.24e+00 c.56.5.4,d.58.19.1 77942,77943 1pqsA 77 4.36e+00 d.15.2.2 88277 2pgd 482 4.71e+00 2pgd a.100.1.1,c.2.1.6 18778,30190 1bo1A 416 4.89e+00 1bo1A d.143.1.2 41591 2g0dA 409 5.26e+00 1yqzA 438 5.64e+00 1yj7A 171 5.76e+00 1ju5A 109 6.55e+00 d.93.1.1 77173 1mwqA 101 6.73e+00 d.58.4.7 91481 2aqjA 538 7.00e+00 1ti6A 875 7.31e+00 b.52.2.2,c.81.1.1 106974,106975 1emwA 88 7.62e+00 1emwA d.27.1.1 38448 1oxkB 134 7.71e+00 c.23.1.1 93691 1ys7A 233 8.07e+00 1gy8A 397 9.47e+00 c.2.1.2 83376 1ntr 124 9.70e+00 1dbwA c.23.1.1 31092 1q1oA 98 9.83e+00 d.15.2.2 95596 1u9cA 224 9.90e+00 1bsg 266 1.01e+01 1btl e.3.1.1 42729 1t35A 191 1.09e+01 c.129.1.1 99108 2b30A 301 1.10e+01 1atr 386 1.10e+01 1ba1 c.55.1.1,c.55.1.1 33421,33422 2aehA 369 1.11e+01 1gt1A 159 1.14e+01 b.60.1.1 90515 1hn2A 159 1.15e+01 b.60.1.1 65890 2aa4A 289 1.19e+01 1v2xA 194 1.23e+01 c.116.1.1 100274 1vjqA 79 1.28e+01 k.43.1.1 100830 1fjgP 88 1.37e+01 1emwA d.27.1.1 38444 1meoA 209 1.40e+01 c.65.1.1 79035 1eg5A 384 1.44e+01 1ecxA c.67.1.3 34429 1dp4A 435 1.44e+01 1dp4A c.93.1.1 35710 1ysrA 150 1.46e+01 1uspA 139 1.59e+01 d.227.1.1 99879 1tpt 440 1.61e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17763,31627,38625 1umnA 165 1.61e+01 a.25.1.1 99607 1obpA 159 1.61e+01 1obpA b.60.1.1 27092 1yb2A 275 1.70e+01 1dr8B 344 1.70e+01 1cnzA c.77.1.1 35052 1tl9A 339 1.71e+01 2eueA 279 1.74e+01 1t9kA 347 1.75e+01 c.124.1.5 106721 1vp2A 208 1.76e+01 1zkpA 268 1.77e+01 1v6sA 390 1.87e+01 c.86.1.1 100424 1xneA 113 1.94e+01 1jx6A 342 1.97e+01 c.93.1.1 67406 1y1oA 203 2.08e+01 1dm5A 315 2.20e+01 1avc a.65.1.1 18186 1ecxA 384 2.21e+01 1ecxA c.67.1.3 34431 1xaa 345 2.25e+01 1cnzA c.77.1.1 35033 1hxvA 113 2.27e+01 d.26.1.1 71089 1kwmA 402 2.35e+01 c.56.5.1,d.58.3.1 73079,73080 1yioA 208 2.39e+01 1ujrA 110 2.40e+01 2abqA 306 2.47e+01 2al6A 375 2.49e+01 1udb 338 2.51e+01 1xel c.2.1.2 29787 1ipd 345 2.52e+01 1cnzA c.77.1.1 35038 2ah5A 210 2.53e+01 2fqxA 318 2.59e+01 2bvlA 543 2.60e+01 1f48A 589 2.67e+01 1f48A c.37.1.10,c.37.1.10 32280,32281 1idm 343 2.69e+01 1cnzA c.77.1.1 35035 2f06A 144 2.71e+01 2udpA 338 2.71e+01 1xel c.2.1.2 29791 1nrwA 288 2.72e+01 c.108.1.10 86128 1zz1A 369 2.77e+01 1be1 137 2.82e+01 1be1 c.23.6.1 31237 1a9y 338 2.82e+01 1xel c.2.1.2 29789 1vcsA 102 2.85e+01 1o1xA 155 2.89e+01 c.121.1.1 86553 2dri 271 2.95e+01 2dri c.93.1.1 35637 1f2tB 148 2.95e+01 1f2tB 1ii5A 233 2.97e+01 c.94.1.1 62412 1e69B 322 3.05e+01 1e69B c.37.1.12 32377 1udc 338 3.08e+01 1xel c.2.1.2 29785 1iiwA 232 3.08e+01 c.94.1.1 62461 1aeiA 315 3.11e+01 1avc a.65.1.1 18180 1xel 338 3.11e+01 1xel c.2.1.2 29786 1a9z 338 3.12e+01 1xel c.2.1.2 29795 1pba 81 3.14e+01 1pytA d.58.3.1 39067 1gpeA 587 3.14e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1bu8A 452 3.20e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 1ihuA 589 3.24e+01 c.37.1.10,c.37.1.10 62394,62395 1hpm 386 3.29e+01 1ba1 c.55.1.1,c.55.1.1 33381,33382 1rmwA 212 3.35e+01 1kay 381 3.40e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1ble 163 3.42e+01 1ble c.38.1.1 32475 2b82A 211 3.43e+01 2gdqA 382 3.46e+01 1ba1 386 3.46e+01 1ba1 c.55.1.1,c.55.1.1 33387,33388 1ub0A 258 3.48e+01 c.72.1.2 88394 2f4nA 273 3.50e+01 1yzhA 214 3.58e+01 1zrjA 50 3.58e+01 1zk7A 467 3.64e+01 1bupA 386 3.70e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1kxrA 339 3.83e+01 d.3.1.3 73175 1kvs 338 3.84e+01 1xel c.2.1.2 29799 2gbp 309 3.89e+01 1gca c.93.1.1 35657 1gca 309 3.92e+01 1gca c.93.1.1 35659 1g6hA 257 3.92e+01 1gajA c.37.1.12 60318 1mkzA 172 3.98e+01 c.57.1.1 84998 1pbn 289 3.99e+01 1b8oA c.56.2.1 33771 1j7xA 302 4.01e+01 c.14.1.2 66425 1k1eA 180 4.19e+01 c.108.1.5 67995 2tpt 440 4.25e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1wwkA 307 4.27e+01 1ti6B 274 4.27e+01 b.3.5.1,d.58.1.5 106976,106977 1t8sA 484 4.30e+01 c.56.2.1 106679 1g9rA 311 4.33e+01 1ga8A c.68.1.4 34517 1k8bA 52 4.37e+01 d.241.1.1 72171 1gmjC 84 4.37e+01 h.4.8.1 65312 1ss9A 311 4.39e+01 c.68.1.4 105978 1u5hA 273 4.43e+01 1nthA 458 4.53e+01 c.1.25.1 80730 1rdzA 337 4.57e+01 1frpA e.7.1.1 42882 1aoiD 99 4.57e+01 1aoiD a.22.1.1 16452 1t3oA 95 4.59e+01 1aqjA 421 4.63e+01 2admA c.66.1.27 34242 1kvnA 104 4.67e+01 d.201.1.1 73066 1rxqA 178 4.67e+01 a.213.1.1 105118 2d27A 149 4.71e+01 1jxhA 288 4.71e+01 c.72.1.2 67415 1mejA 223 4.72e+01 c.65.1.1 79029 2cbzA 237 4.74e+01 1hyqA 263 4.76e+01 1hyqA c.37.1.10 61412 1ga8A 311 4.80e+01 1ga8A c.68.1.4 34516 1avv 151 4.83e+01 1efnB d.102.1.1 40703 1gmjA 84 4.84e+01 h.4.8.1 65310 1xhfA 123 4.91e+01 1vpqA 273 4.92e+01 1yqtA 538 5.00e+01 1l2qA 458 5.02e+01 c.1.25.1 73510 1wi6A 88 5.06e+01 1itxA 419 5.06e+01 c.1.8.5,d.26.3.1 71425,71426 2f8lA 344 5.07e+01 1obbA 480 5.09e+01 c.2.1.5,d.162.1.2 86760,86761 1k8kG 151 5.10e+01 a.118.13.1 68313 1n8nA 212 5.15e+01 c.108.1.12 91706 1ca1 370 5.17e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1suyC 34 5.17e+01 1u35D 126 5.18e+01 1iirA 415 5.23e+01 1iirA c.87.1.5 62453 1c5mD 255 5.27e+01 5ptp b.47.1.2 26338 1ewsA 32 5.31e+01 1ewsA g.9.1.1 59534 1h0aA 158 5.32e+01 a.118.9.1 76434 1mucA 373 5.35e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 1a9t 284 5.42e+01 1b8oA c.56.2.1 33765 2ab0A 205 5.44e+01 1ylmA 144 5.47e+01 1kx5D 125 5.48e+01 a.22.1.1 77596 1z6kA 293 5.52e+01 1cf3A 583 5.54e+01 1gpeA c.3.1.2,d.16.1.1 30385,37949 1jd1A 129 5.56e+01 1qu9A d.79.1.1 62890 2c71A 216 5.56e+01 1afwA 393 5.59e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 1eyhA 144 5.63e+01 1eduA a.118.9.1 19214 1uxc 65 5.74e+01 1uxc a.35.1.5 17119 1rkd 309 5.77e+01 1rkd c.72.1.1 34928 2ewrA 170 5.84e+01 5abp 306 5.86e+01 8abp c.93.1.1 35651 1jnyA 435 5.89e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2g76A 335 5.90e+01 1w9pA 433 5.91e+01 2fq4A 192 5.99e+01 1hcgA 241 6.03e+01 5ptp b.47.1.2 26341 1ul7A 102 6.04e+01 d.129.6.1 99540 1ho1A 242 6.08e+01 1ho1A c.1.24.1 61097 1dppA 507 6.08e+01 1dpe c.94.1.1 35800 1gnkA 112 6.13e+01 2pii d.58.5.1 39073 1fpkA 335 6.17e+01 1frpA e.7.1.1 42930 1x9zA 188 6.24e+01 1cmbA 104 6.24e+01 1cmbA a.43.1.5 17460 2b1yA 104 6.24e+01 1v92A 46 6.30e+01 a.5.2.3 100531 1yg2A 179 6.38e+01 1mszA 86 6.41e+01 d.68.7.1 79428 1xsm 390 6.53e+01 1xsm a.25.1.2 16804 1frpA 335 6.53e+01 1frpA e.7.1.1 42875 1ctf 74 6.56e+01 1ctf d.45.1.1 38759 1fnoA 417 6.57e+01 d.58.19.1,c.56.5.4 70145,75841 1twfJ 70 6.59e+01 1vi6A 208 6.60e+01 c.23.15.1 100736 1wcv1 257 6.60e+01 1e4eA 343 6.60e+01 1iow c.30.1.2,d.142.1.1 59221,59222 1abe 306 6.61e+01 8abp c.93.1.1 35648 1spiA 358 6.63e+01 1frpA e.7.1.1 42939 1pxtB 390 6.63e+01 1afwA c.95.1.1,c.95.1.1 35906,35907 1cmaA 104 6.64e+01 1cmbA a.43.1.5 17486 1amhA 223 6.66e+01 5ptp b.47.1.2 25994 1uxd 65 6.67e+01 1uxc a.35.1.5 17118 1bap 306 6.68e+01 8abp c.93.1.1 35654 1nuyA 337 6.69e+01 e.7.1.1 86213 1j93A 353 6.73e+01 c.1.22.1 66454 2gukA 120 6.81e+01 2b0cA 206 6.83e+01 1w6kA 732 6.85e+01 1j4aA 333 6.87e+01 c.2.1.4,c.23.12.1 71502,71503 1h0oA 390 6.93e+01 a.25.1.2 70845 2admA 421 7.06e+01 2admA c.66.1.27 34238 1orrA 347 7.14e+01 c.2.1.2 93460 1h0cA 392 7.16e+01 c.67.1.3 83424 2olbA 517 7.20e+01 1jevA c.94.1.1 35721 1g38A 393 7.28e+01 2admA c.66.1.27 60235 1eduA 149 7.32e+01 1eduA a.118.9.1 19215 1oi2A 366 7.32e+01 c.119.1.2 103802 1mjoA 104 7.35e+01 1cmbA a.43.1.5 17466 1cmcA 104 7.35e+01 1cmbA a.43.1.5 17462 1a05A 358 7.42e+01 1cnzA c.77.1.1 35059 1and 223 7.42e+01 5ptp b.47.1.2 25985 1tzyB 126 7.44e+01 a.22.1.1 107531 1qtrA 317 7.52e+01 1qtrA c.69.1.7 34660 1ae1A 273 7.54e+01 1bdb c.2.1.2 29943 1hq3B 126 7.59e+01 1aoiD a.22.1.1 16444 8abp 306 7.63e+01 8abp c.93.1.1 35647 2gdnA 267 7.68e+01 1w68A 390 7.71e+01 a.25.1.2 109216 1jevA 517 7.78e+01 1jevA c.94.1.1 35720 1r4gA 53 7.87e+01 a.8.5.1 96996 1kz8A 337 7.87e+01 e.7.1.1 77633 1gsoA 431 7.89e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1tpm 50 7.91e+01 1tpg g.27.1.1 44957 1vixA 420 7.91e+01 c.56.5.4,d.58.19.1 100777,100778 1anc 223 7.91e+01 5ptp b.47.1.2 25982 1pru 56 7.96e+01 1pru a.35.1.5 17104 1bu2A 229 8.02e+01 1bu2A a.74.1.1,a.74.1.1 18360,18361 1lqpA 135 8.05e+01 d.32.1.2 78151 1vcc 77 8.08e+01 1vcc d.121.1.1 41092 1anb 223 8.13e+01 5ptp b.47.1.2 25998 5fbpA 335 8.14e+01 1frpA e.7.1.1 42873 2phh 394 8.20e+01 1pbe c.3.1.2,d.16.1.2 30353,37884 1wqaA 455 8.24e+01 1aksA 125 8.26e+01 5ptp b.47.1.2 25969 1utrA 96 8.40e+01 1utg a.101.1.1 18817 1k07A 263 8.41e+01 d.157.1.1 77218 1aazA 87 8.44e+01 1aba c.47.1.1 32761 2dcnA 311 8.45e+01 1o50A 157 8.47e+01 d.37.1.1,d.37.1.1 92478,92479 2a9fA 398 8.56e+01 1y74B 50 8.59e+01 1f7zA 233 8.62e+01 5ptp b.47.1.2 59681 1tedA 393 8.65e+01 c.95.1.2 106807 1ftt 68 8.71e+01 2hddA a.4.1.1 15997 2fh7A 595 8.74e+01 1s1hN 36 8.75e+01 i.1.1.1 105166 1pfvA 551 8.78e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1ats 386 8.85e+01 1ba1 c.55.1.1,c.55.1.1 33423,33424 1aba 87 8.86e+01 1aba c.47.1.1 32760 1jqhA 308 8.86e+01 d.144.1.7 71793 1p90A 145 8.90e+01 c.55.5.2 94377