# List of top-scoring protein chains for t2k-100-30-bys-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 1hxpA 348 9.67e-02 1guqA d.13.1.2,d.13.1.2 37530,37531 1guqA 348 1.12e-01 1guqA d.13.1.2,d.13.1.2 37522,37523 1gupA 348 1.31e-01 1guqA d.13.1.2,d.13.1.2 37534,37535 1neiA 60 1.81e-01 d.253.1.1 91843 1eu1A 780 9.19e-01 1dmr b.52.2.2,c.81.1.1 26903,35311 1n0qA 93 1.59e+00 k.37.1.1 79754 1h6kZ 98 2.19e+00 d.58.7.1 60686 1udh 244 2.65e+00 3eugA c.18.1.1 31015 1udg 244 2.76e+00 3eugA c.18.1.1 31016 1v30A 124 2.88e+00 1ehaA 558 2.92e+00 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21859,27786,28773 2pgd 482 2.95e+00 2pgd a.100.1.1,c.2.1.6 18778,30190 1ti6A 875 3.02e+00 b.52.2.2,c.81.1.1 106974,106975 1nh9A 87 3.51e+00 d.68.6.1 91878 1h6kX 97 3.70e+00 d.58.7.1 60684 1sspE 223 4.09e+00 3eugA c.18.1.1 31009 1zyeA 220 4.18e+00 2aehA 369 4.18e+00 1awcA 110 4.37e+00 1awcA a.4.5.21 16167 2bhoA 130 4.90e+00 1aty 79 4.97e+00 1aty j.35.1.1 46259 1ppn 212 5.44e+00 1cs8A d.3.1.1 37004 2c9aA 259 6.03e+00 1vbuA 328 6.08e+00 1kssA 571 6.23e+00 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 2cioA 212 6.25e+00 1axn 323 6.70e+00 1avc a.65.1.1 18149 1q9iA 571 6.76e+00 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1wyuB 474 6.90e+00 2al6A 375 7.02e+00 1xpjA 126 7.21e+00 1khqA 212 7.48e+00 d.3.1.1 90964 1agrE 205 7.70e+00 1agrE a.91.1.1 18538 1aii 323 7.74e+00 1avc a.65.1.1 18150 1ykuA 136 7.92e+00 1lj1A 571 7.94e+00 a.138.1.3,c.3.1.4,d.168.1.1 78023,78024,78025 1dd3A 128 7.96e+00 1dd3C a.108.1.1,d.45.1.1 19031,38760 9pap 212 8.11e+00 1cs8A d.3.1.1 37006 1y0pA 571 8.16e+00 1qjdA 571 8.28e+00 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19695,30432,42315 1yn8A 59 8.67e+00 1gokA 303 8.79e+00 c.1.8.3 65420 1rwrA 301 8.79e+00 b.80.1.11 97990 1m64A 571 8.79e+00 a.138.1.3,c.3.1.4,d.168.1.1 78683,78684,78685 1p2hA 571 8.82e+00 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1akz 223 8.83e+00 3eugA c.18.1.1 31007 1a12A 413 9.42e+00 1a12A b.69.5.1 27663 1taxA 302 9.49e+00 1taxA 1pujA 282 9.87e+00 c.37.1.8 88294 1zk8A 183 9.98e+00 1s7iA 124 1.03e+01 d.58.4.9 105353 1dm5A 315 1.08e+01 1avc a.65.1.1 18186 1h0xA 100 1.13e+01 d.68.6.1 76451 1i4jA 110 1.14e+01 d.55.1.1 76734 1s0pA 176 1.14e+01 a.192.1.1 98300 1k6aA 303 1.16e+01 c.1.8.3 72081 1e39A 571 1.19e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1bxeA 113 1.25e+01 1bxeA d.55.1.1 38898 1xyzA 347 1.26e+01 1taxA c.1.8.3 28804 1gweA 503 1.28e+01 e.5.1.1 70667 2fnbA 95 1.30e+01 2fnbA b.1.2.1 21979 1hbzA 498 1.34e+01 1cf9A e.5.1.1 60937 1vajA 214 1.41e+01 1hkvA 453 1.43e+01 b.49.2.3,c.1.6.1 83559,83560 1aeiA 315 1.58e+01 1avc a.65.1.1 18180 3eugA 229 1.68e+01 3eugA c.18.1.1 31018 1z96A 40 1.70e+01 1hizA 379 1.70e+01 c.1.8.3 65841 1flzA 228 1.75e+01 3eugA c.18.1.1 31027 1u2eA 289 1.81e+01 1uteA 313 1.83e+01 1uteA d.159.1.1 42078 1r85A 379 1.91e+01 c.1.8.3 104839 1hl9A 449 1.92e+01 b.71.1.3,c.1.8.11 90650,90651 1t6cA 315 1.98e+01 c.55.1.8,c.55.1.8 106558,106559 1otvA 259 2.01e+01 a.132.1.4 93526 2axwA 134 2.01e+01 4eugA 229 2.02e+01 3eugA c.18.1.1 31019 1eugA 229 2.09e+01 3eugA c.18.1.1 31021 2bkyA 97 2.09e+01 2au5A 139 2.10e+01 1euiA 228 2.13e+01 3eugA c.18.1.1 31028 2sniI 83 2.25e+01 2sniI d.40.1.1 38573 1yixA 265 2.25e+01 1d2rA 326 2.27e+01 1d2rB c.26.1.1 31572 1bnkA 216 2.29e+01 1bnkA b.46.1.2 25765 1wj7A 104 2.29e+01 1dts 221 2.30e+01 1byi c.37.1.10 32200 1wehA 171 2.30e+01 2fd4A 122 2.37e+01 1n7eA 97 2.37e+01 b.36.1.1 91691 2sli 679 2.38e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1i2tA 61 2.46e+01 1i2tA a.144.1.1 61582 1x6zA 123 2.49e+01 1s12A 94 2.50e+01 1d2rB 326 2.50e+01 1d2rB c.26.1.1 31573 4sli 679 2.53e+01 2sli b.29.1.9,b.68.1.1 24275,27612 1k1vA 41 2.54e+01 a.37.1.1 71999 1iknD 236 2.56e+01 1iknD d.211.1.1 19171 1eh9A 558 2.60e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21858,27785,28772 1i1wA 303 2.68e+01 c.1.8.3 76732 1dulA 69 2.69e+01 1dulA a.36.1.1 17121 1jtdB 273 2.72e+01 b.69.5.2 67265 1t5jA 313 2.73e+01 a.209.1.1 99125 1dnpA 471 2.76e+01 1qnf a.99.1.1,c.28.1.1 18775,31630 1v8gA 329 2.77e+01 a.46.2.1,c.27.1.1 100505,100506 1qb4A 883 2.81e+01 c.1.12.3 74640 1h2vZ 156 2.86e+01 d.58.7.1 76595 1n7fA 97 2.90e+01 b.36.1.1 91692 1g26A 31 2.92e+01 1g26A g.3.16.1 44381 1fiy 883 2.94e+01 1fiy c.1.12.3 29307 1eylA 186 2.97e+01 1wba b.42.4.1 25593 1ciqA 40 3.00e+01 2sniI d.40.1.1 38576 1zwyA 185 3.00e+01 1sglA 209 3.02e+01 d.124.1.1 105536 2b5aA 77 3.05e+01 1jqnA 883 3.07e+01 c.1.12.3 77159 1tuc 63 3.12e+01 1tuc b.34.2.1 24492 1allA 160 3.13e+01 1qgwC a.1.1.3 15647 1rlzA 369 3.15e+01 c.31.1.1 104989 2bshA 125 3.17e+01 1r6dA 337 3.24e+01 c.2.1.2 97148 2fggA 101 3.25e+01 1irk 306 3.30e+01 1fmk d.144.1.7 41703 1u8vA 490 3.34e+01 1hjxA 362 3.39e+01 c.1.8.5,d.26.3.1 83512,83513 2bsjA 133 3.55e+01 1r9kA 172 3.56e+01 a.168.1.1 104869 1ad6 185 3.67e+01 1guxA a.74.1.3 18390 1jxhA 288 3.69e+01 c.72.1.2 67415 1ir3A 306 3.70e+01 1fmk d.144.1.7 41702 1xmxA 385 3.70e+01 2fqmA 75 3.76e+01 1gegA 256 3.85e+01 1ybvA c.2.1.2 29888 1jsxA 207 3.86e+01 c.66.1.20 71846 1bdg 451 3.88e+01 1qhaA c.55.1.3,c.55.1.3 33461,33462 1mugA 168 3.92e+01 1mugA c.18.1.2 31030 1u2xA 474 3.95e+01 c.72.1.3 107622 1vhxA 150 3.95e+01 c.55.3.8 100712 1uwkA 557 3.96e+01 e.51.1.1 108065 1y02A 120 3.97e+01 1lw6I 64 3.98e+01 d.40.1.1 74294 1kyhA 276 4.01e+01 c.72.1.4 73222 1tp5A 119 4.01e+01 1be9A 119 4.06e+01 1pdr b.36.1.1 24774 1b31A 302 4.14e+01 1taxA c.1.8.3 28892 1ng2A 193 4.15e+01 b.34.2.1,b.34.2.1 85660,85661 1w6kA 732 4.15e+01 1r6vA 671 4.18e+01 1m6pA 152 4.22e+01 1m6pA b.64.1.1 27519 1ndoA 449 4.28e+01 1ndoA b.33.1.2,d.129.3.3 24444,41323 1cis 66 4.29e+01 2sniI k.1.1.1 46375 2cobA 70 4.36e+01 1pzqA 60 4.42e+01 a.34.3.1 95466 3nodB 423 4.51e+01 1nseA d.174.1.1 42513 1s14A 194 4.51e+01 d.122.1.2 98329 1khoA 370 4.64e+01 a.124.1.1,b.12.1.3 72489,72490 1vf5F 35 4.64e+01 f.23.25.1 100586 1shg 62 4.70e+01 1ckaA b.34.2.1 24493 1fgkA 310 4.75e+01 1fgkA d.144.1.7 41693 1uch 230 4.75e+01 1uch d.3.1.6 37129 1s7zA 117 4.86e+01 a.159.3.1 98715 1a91 79 4.86e+01 1a91 f.17.1.1 43635 1twiA 434 4.90e+01 b.49.2.3,c.1.6.1 107399,107400 1wnaA 131 4.90e+01 1uw4B 248 4.92e+01 a.118.1.14 100072 1to2I 64 4.93e+01 1nr6A 473 4.96e+01 a.104.1.1 92085 1qh5A 260 5.07e+01 1qh5A d.157.1.2 42057 1ayg 80 5.11e+01 451c a.3.1.1 15831 1pu6A 218 5.18e+01 a.96.1.5 95123 2f2lX 167 5.19e+01 1p0hA 318 5.23e+01 d.108.1.1 93866 1bs9 207 5.23e+01 1bs9 c.69.1.30 31330 2bjfA 329 5.23e+01 1ibrB 462 5.25e+01 1qgrA a.118.1.1 19120 1r7jA 95 5.30e+01 a.4.5.49 104836 1g66A 207 5.31e+01 1bs9 c.69.1.30 31329 1xd3A 230 5.32e+01 1qh3A 260 5.32e+01 1qh5A d.157.1.2 42059 2bnjA 303 5.34e+01 1i6kA 328 5.35e+01 c.26.1.1 66040 1sknP 92 5.36e+01 1sknP a.37.1.1 17127 1i6lA 328 5.36e+01 c.26.1.1 66041 1k1gA 131 5.38e+01 d.51.1.1 68015 1wijA 140 5.47e+01 1e0gA 48 5.51e+01 1e01A d.7.1.1 37325 1pwt 61 5.59e+01 1tud b.34.2.1 24490 2a19A 175 5.62e+01 1dzoA 123 5.72e+01 1dzoA d.24.1.1 38378 1auiA 521 5.74e+01 1auiA d.159.1.3 42085 1gngX 39 5.74e+01 1bg4 302 5.87e+01 1taxA c.1.8.3 28806 1oaiA 59 5.87e+01 a.5.2.3 81255 2fneA 117 5.98e+01 1iygA 133 6.00e+01 a.118.8.1 76947 1p97A 114 6.03e+01 d.110.3.7 94382 1wqsA 173 6.04e+01 1b8qA 127 6.11e+01 1qauA b.36.1.1 24781 2occG 84 6.13e+01 2occG f.23.2.1 43522 1pdr 99 6.14e+01 1pdr b.36.1.1 24771 2fr1A 486 6.16e+01 1dhs 344 6.19e+01 1dhs c.31.1.1 31727 1hxiA 121 6.27e+01 1hxiA a.118.8.1 61366 1dmr 823 6.31e+01 1dmr b.52.2.2,c.81.1.1 26904,35312 1fc6A 388 6.33e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1qtwA 285 6.42e+01 1qumA c.1.15.1 29392 1a8vA 121 6.44e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 2f9dA 125 6.48e+01 2d13A 227 6.51e+01 1tie 172 6.61e+01 1wba b.42.4.1 25592 1guxA 218 6.62e+01 1guxA a.74.1.3 18388 2c4xA 260 6.69e+01 2aqwA 332 6.74e+01 1q4mA 221 6.74e+01 a.132.1.3 95805 1ex2A 189 6.74e+01 1ex2A c.51.4.2 33225 1gvnA 90 6.77e+01 a.8.2.1 76353 1u59A 287 6.86e+01 d.144.1.7 107681 1wp1A 474 6.88e+01 1dad 224 6.92e+01 1byi c.37.1.10 32204 1dusA 194 6.93e+01 1dusA c.66.1.4 34182 1n8fA 350 6.96e+01 c.1.10.4 85397 1nznA 126 6.97e+01 a.118.8.1 92382 1bbzE 58 6.98e+01 1bbzA b.34.2.1 24479 1ctf 74 7.01e+01 1ctf d.45.1.1 38759 2ch7A 309 7.12e+01 2ac4A 309 7.19e+01 2f2gA 221 7.20e+01 1jvpP 298 7.20e+01 d.144.1.7 67371 1jqhA 308 7.24e+01 d.144.1.7 71793 1cch 82 7.24e+01 451c a.3.1.1 15902 1keoA 154 7.25e+01 b.64.1.1 68534 1rztA 331 7.30e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1hcl 298 7.36e+01 1hcl d.144.1.7 41593 1mmiA 366 7.36e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1bbzA 58 7.36e+01 1bbzA b.34.2.1 24477 1ztuA 341 7.41e+01 1ann 318 7.45e+01 1avc a.65.1.1 18151 1zavU 30 7.50e+01 2c26A 260 7.54e+01 1iieA 75 7.55e+01 1iieA a.109.1.1 19039 2d2mD 145 7.60e+01 1qavB 115 7.62e+01 1qauA b.36.1.1 24780 1qumA 285 7.64e+01 1qumA c.1.15.1 29393 1z3eA 132 7.66e+01 1bfeA 119 7.72e+01 1pdr b.36.1.1 24775 1f2tA 149 7.74e+01 1f2tA c.37.1.12 32373 1on2A 142 7.79e+01 a.4.5.24,a.76.1.1 87103,87104 1l8yA 91 7.80e+01 a.21.1.1 73708 1ufmA 84 7.84e+01 a.4.5.47 107816 1v9nA 360 7.87e+01 1pk1B 89 7.92e+01 1xhkA 187 7.97e+01 1qauA 112 8.08e+01 1qauA b.36.1.1 24779 1thfD 253 8.08e+01 1thfD c.1.2.1 28535 1j8bA 112 8.13e+01 d.222.1.1 77101 1wdvA 152 8.19e+01 1qr7A 350 8.20e+01 1qr7A c.1.10.4 29191 1tufA 434 8.20e+01 b.49.2.3,c.1.6.1 107335,107336 1w18A 493 8.26e+01 2ajgA 196 8.28e+01 2a72A 146 8.30e+01 1sg4A 260 8.47e+01 1vi9A 299 8.51e+01 c.72.1.5 100750 1ejaB 59 8.60e+01 1ejaB g.3.15.1 59416 1xe1A 116 8.63e+01 b.43.3.1 109571 1g9lA 144 8.64e+01 1g9lA a.144.1.1 60399 1ak1 310 8.68e+01 1ak1 c.92.1.1 35594 1hf2A 210 8.73e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1dmmA 131 8.74e+01 1opy d.17.4.3 38114 1w97L 246 8.78e+01 1owqA 361 8.81e+01 c.1.8.5,d.26.3.1 104041,104042 1ryjA 70 8.83e+01 d.15.3.2 98104 1icwA 72 8.88e+01 1tvxA d.9.1.1 37357 1coaI 64 8.90e+01 2sniI d.40.1.1 38574 2fdsA 352 8.94e+01 1zwwA 256 8.96e+01