# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 1v7lA 163 1.65e-02 3ullA 132 1.36e-01 3ullA b.40.4.3 25282 1zvyA 136 2.88e-01 1q7hA 153 5.63e-01 b.122.1.1,d.17.6.2 96042,96043 2fxqA 264 6.70e-01 1qvcA 145 7.25e-01 3ullA b.40.4.3 25284 1dl5A 317 9.01e-01 1dl5A c.66.1.7,d.197.1.1 64720,64721 2gp4A 628 9.81e-01 1t3lA 337 9.85e-01 b.34.2.1,c.37.1.1 106358,106359 1t0hB 224 1.05e+00 c.37.1.1 106208 2gjgA 248 1.12e+00 2cwaA 263 1.27e+00 1pguA 615 1.63e+00 b.69.4.1,b.69.4.1 88069,88070 1x3eA 165 1.75e+00 1ivyA 452 1.78e+00 1ivyA c.69.1.5 34654 1kqfA 1015 1.83e+00 b.52.2.2,c.81.1.1 72871,72872 1wmmA 145 2.04e+00 1ue1A 164 2.23e+00 b.40.4.3 99243 1aquA 297 2.31e+00 1aquA c.37.1.5 31942 1o54A 277 2.58e+00 c.66.1.13 92482 1tk9A 188 2.64e+00 c.80.1.3 107082 1iz6A 138 2.71e+00 b.34.5.2,b.40.4.5 76976,76977 1z9fA 153 2.81e+00 1whzA 70 3.18e+00 1z4hA 66 3.25e+00 1vs0A 310 3.60e+00 2napA 723 3.92e+00 2napA b.52.2.2,c.81.1.1 26926,35334 2viuA 328 4.39e+00 1hgeA b.19.1.2 23797 1nkqA 259 4.40e+00 d.177.1.1 103862 1k3sA 113 4.45e+00 d.198.1.1 68120 2aebA 322 5.03e+00 1xovA 326 5.45e+00 1zeqX 84 5.73e+00 1qauA 112 5.82e+00 1qauA b.36.1.1 24779 1e0tA 470 5.82e+00 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1rerA 391 6.88e+00 b.1.18.4,f.10.1.1 97327,97328 1ii2A 524 7.15e+00 c.91.1.1,c.109.1.1 66146,66147 1yfqA 342 7.50e+00 1iqzA 81 7.71e+00 d.58.1.4 66281 1cm9A 74 8.47e+00 1b3aA d.9.1.1 37405 1kqfB 294 8.58e+00 d.58.1.5,f.23.22.1 75900,75901 1i12A 160 8.58e+00 1i21A d.108.1.1 61515 1xtoA 311 9.00e+00 1i1dA 161 9.13e+00 1i21A d.108.1.1 61526 1eu3A 210 9.42e+00 1an8 b.40.2.2,d.15.6.1 25206,37795 1iv8A 720 9.67e+00 b.71.1.1,c.1.8.1 76842,76843 2crvA 120 1.03e+01 1viuA 203 1.14e+01 d.113.1.1 100771 1d3vA 323 1.14e+01 1d3vA c.42.1.1 32559 1ox3A 109 1.19e+01 h.1.17.1 93668 1oyzA 280 1.19e+01 a.118.1.16 93775 2gu2A 312 1.22e+01 1l3iA 192 1.23e+01 c.66.1.22 77676 1yavA 159 1.27e+01 1ireB 228 1.33e+01 b.34.4.4 76770 1jsdA 319 1.34e+01 b.19.1.2 63258 1pk6A 133 1.37e+01 b.22.1.1 94801 3htsB 102 1.41e+01 2hts a.4.5.22 16175 1b34B 118 1.42e+01 1b34B b.38.1.1 24797 1lr0A 129 1.42e+01 d.212.1.1 74213 1ltlA 279 1.43e+01 b.40.4.11 84701 1e58A 249 1.45e+01 1qhfA c.60.1.1 59262 1e3jA 352 1.47e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1vchA 175 1.47e+01 1t3tA 1303 1.50e+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 1r6xA 395 1.50e+01 b.122.1.3,c.26.1.5 97167,97168 1uebA 184 1.51e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 2hts 88 1.55e+01 2hts a.4.5.22 16174 1tvxA 75 1.57e+01 1tvxA d.9.1.1 37441 2cxaA 256 1.58e+01 1wi1A 126 1.59e+01 2furA 209 1.63e+01 1qlaB 239 1.66e+01 1qlaB a.1.2.1,d.15.4.2 15679,37707 1ruwA 69 1.67e+01 1j58A 385 1.71e+01 b.82.1.2 71531 1v5eA 590 1.72e+01 1kevA 351 1.74e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1jqbA 351 1.75e+01 b.35.1.2,c.2.1.1 77151,77152 1zd0A 150 1.75e+01 2czsA 80 1.90e+01 1h0hA 977 1.91e+01 b.52.2.2,c.81.1.1 76435,76436 1ryiA 382 1.94e+01 1szhA 161 1.95e+01 a.226.1.1 106157 1aonO 97 1.99e+01 b.35.1.1 24642 1uv4A 293 2.02e+01 1ng4A 390 2.06e+01 c.3.1.2,d.16.1.3 85666,85667 1bkb 136 2.07e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 2g76A 335 2.09e+01 1x6oA 174 2.14e+01 b.34.5.2,b.40.4.5 109493,109494 2alaA 391 2.16e+01 1tuc 63 2.16e+01 1tuc b.34.2.1 24492 1j54A 186 2.24e+01 c.55.3.5 77077 1r3eA 309 2.24e+01 b.122.1.1,d.265.1.2 96907,96908 1g40A 244 2.25e+01 1e5gA g.18.1.1,g.18.1.1,g.18.1.1,g.18.1.1 44823,44824,44825,44826 1se8A 301 2.26e+01 b.40.4.3 105448 1fb6A 105 2.26e+01 1thx c.47.1.1 32739 1u4cA 349 2.28e+01 b.69.4.2 107666 2ha8A 184 2.40e+01 1mh1 186 2.41e+01 1eesA c.37.1.8 32002 1jsmA 325 2.42e+01 b.19.1.2 63264 1hxvA 113 2.43e+01 d.26.1.1 71089 2gsfA 373 2.43e+01 3il8 72 2.48e+01 1tvxA d.9.1.1 37356 1zx8A 136 2.49e+01 1k8kB 394 2.53e+01 c.55.1.1 68307 1j1uA 306 2.57e+01 c.26.1.1 83980 1ywnA 316 2.57e+01 1pl8A 356 2.57e+01 b.35.1.2,c.2.1.1 94878,94879 2aqlA 173 2.59e+01 1owfA 99 2.70e+01 a.55.1.1 87487 1hilB 220 2.70e+01 1igtB b.1.1.1,b.1.1.2 19787,20897 1ugpB 226 2.70e+01 b.34.4.4 107832 1pfkA 320 2.71e+01 3pfk c.89.1.1 35575 1q6hA 224 2.75e+01 d.26.1.1 95975 1vpjA 192 2.76e+01 1dqeA 137 2.76e+01 1dqeA a.39.2.1 17388 1g8fA 511 2.77e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1i1nA 226 2.79e+01 c.66.1.7 71102 1c30B 382 2.80e+01 c.8.3.1,c.23.16.1 30736,31413 1zq1C 633 2.89e+01 1q6uA 245 2.96e+01 d.26.1.1 95998 1mp8A 281 3.03e+01 d.144.1.7 91384 1t46A 313 3.04e+01 d.144.1.7 106397 1a9xB 379 3.07e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1bteA 97 3.12e+01 1bteA g.7.1.3 44463 2gm5A 139 3.23e+01 1a8p 258 3.32e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 2cbp 96 3.35e+01 2cbp b.6.1.1 22895 1f2tB 148 3.35e+01 1f2tB 1pch 88 3.61e+01 1ptf d.94.1.1 40564 1sazA 381 3.63e+01 1vkyA 347 3.67e+01 e.53.1.1 108696 1yn8A 59 3.68e+01 1rkqA 282 3.72e+01 c.108.1.10 97621 2a9uA 144 3.81e+01 1fltX 95 3.90e+01 1fltX b.1.1.4 21765 2ew0A 192 3.98e+01 1afp 51 4.11e+01 1afp g.26.1.1 44947 1tig 94 4.17e+01 1tig d.68.1.1 39566 1zvhA 134 4.20e+01 1wjnA 97 4.24e+01 1tovA 98 4.26e+01 b.34.10.1 107179 1a79A 171 4.27e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 1wy5A 317 4.38e+01 1zxtA 76 4.43e+01 1jj2E 177 4.46e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1te7A 103 4.50e+01 1lplA 95 4.50e+01 b.34.10.1 74173 1kblA 873 4.52e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1vqoE 178 4.52e+01 2as0A 396 4.57e+01 1hbzA 498 4.60e+01 1cf9A e.5.1.1 60937 1s72E 178 4.65e+01 d.141.1.1,d.141.1.1 105323,105324 1c75A 71 4.67e+01 451c a.3.1.1 15796 1kzlA 208 4.72e+01 b.43.4.3,b.43.4.3 77635,77636 1xneA 113 4.75e+01 1ytaA 180 4.80e+01 1p42A 270 4.86e+01 d.14.1.7,d.14.1.7 87754,87755 1v1qA 134 5.02e+01 1qu1A 155 5.15e+01 1qu1A h.3.1.1 45670 1am2 199 5.17e+01 1am2 b.86.1.2 28381 1rcqA 357 5.17e+01 b.49.2.2,c.1.6.1 104882,104883 1dg6A 191 5.21e+01 1d4vB b.22.1.1 23883 2fbyA 205 5.28e+01 1vqvA 306 5.33e+01 1vdmA 153 5.35e+01 1gweA 503 5.39e+01 e.5.1.1 70667 1g3mA 294 5.42e+01 c.37.1.5 83268 2ak5A 64 5.48e+01 1a6wH 120 5.50e+01 1mfa b.1.1.1 20253 1smxA 96 5.55e+01 b.40.4.5 105772 1qvbA 481 5.55e+01 1qvbA c.1.8.4 28983 1k0hA 117 5.58e+01 b.106.1.2 71975 2c5kT 95 5.63e+01 1vc3B 97 5.65e+01 1kopA 223 5.68e+01 2cba b.74.1.1 27966 1oxsC 353 5.72e+01 b.40.6.3,c.37.1.12 87519,87520 1lgpA 116 5.84e+01 b.26.1.2 73890 1qpcA 279 5.88e+01 1fgkA d.144.1.7 41685 1qysA 106 5.89e+01 k.41.1.1 96603 1yiyA 429 5.93e+01 2bx2L 517 6.06e+01 1weyA 104 6.08e+01 1s12A 94 6.16e+01 2g6fX 59 6.20e+01 1i1jA 108 6.22e+01 1i1jA b.34.2.1 61531 1dxy 333 6.26e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1v8yA 170 6.29e+01 1yb5A 351 6.30e+01 1uj0A 62 6.32e+01 b.34.2.1 99449 1wocA 103 6.33e+01 2g1lA 104 6.35e+01 1u0qA 125 6.42e+01 1yizA 429 6.50e+01 2go3A 267 6.51e+01 1k78A 149 6.51e+01 a.4.1.5,a.4.1.5 68255,68256 1r17A 343 6.51e+01 b.2.3.4,b.2.3.4 96796,96797 1a49A 530 6.61e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 2mcm 112 6.62e+01 2mcm b.1.7.1 22207 2bdwA 362 6.73e+01 2pfkA 320 6.79e+01 3pfk c.89.1.1 35577 1eexG 173 6.80e+01 1dioG a.23.2.1 16490 1zlmA 58 6.88e+01 2auwA 170 6.94e+01 1ir3A 306 6.98e+01 1fmk d.144.1.7 41702 2ggcA 263 7.03e+01 1i8dA 213 7.09e+01 b.43.4.3,b.43.4.3 61953,61954 1w70A 60 7.11e+01 1up6A 416 7.23e+01 c.2.1.5,d.162.1.2 107976,107977 1e6cA 173 7.25e+01 1shkA c.37.1.2 59296 1c24A 263 7.30e+01 1c24A d.127.1.1 41148 1ktbA 405 7.30e+01 b.71.1.1,c.1.8.1 72960,72961 1qorA 327 7.45e+01 1qorA b.35.1.2,c.2.1.1 24766,29782 3rabA 169 7.53e+01 1ctqA c.37.1.8 32018 2f9hA 129 7.54e+01 1f53A 84 7.54e+01 1f53A b.11.1.4 23632 1ydxA 406 7.69e+01 1huuA 90 7.72e+01 1huuA a.55.1.1 17897 1nnsA 326 7.73e+01 c.88.1.1 85910 1bxaA 105 7.73e+01 1aac b.6.1.1 22839 1pht 85 7.93e+01 1ckaA b.34.2.1 24483 2fdsA 352 8.06e+01 2bz8A 58 8.07e+01 1em8A 147 8.11e+01 c.128.1.1 90457 1wveC 80 8.12e+01 1vhvA 268 8.14e+01 c.90.1.1 100704 1xocA 520 8.18e+01 1zbxB 141 8.38e+01 1y9lA 115 8.39e+01 1xdwA 331 8.51e+01 2d28C 149 8.56e+01 1up7A 417 8.67e+01 2as9A 210 8.71e+01 1w9sA 142 8.75e+01 1t9bA 677 8.87e+01 1diiC 80 8.90e+01 1diiC a.3.1.1 15925 1x2kA 68 8.98e+01