# 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 1dnlA 199 2.76e-22 1ci0A b.45.1.1 25753 1g79A 218 7.28e-22 1ci0A b.45.1.1 25752 1nrgA 261 5.75e-20 b.45.1.1 80694 1t9mA 214 1.93e-18 1ty9A 222 1.34e-17 1rfeA 162 1.40e-16 2fhqA 141 6.25e-16 2fg9A 178 1.69e-14 2asfA 137 1.18e-13 1vl7A 157 1.29e-13 b.45.1.1 108732 1w9aA 147 4.79e-12 1xxoA 147 7.05e-12 2aq6A 147 1.29e-11 2arzA 247 3.14e-10 2furA 209 4.15e-10 1w3oA 216 2.77e-08 1flmA 122 4.35e-07 1axj b.45.1.1 25747 1xhnA 184 1.56e-06 1ejeA 192 4.03e-04 1ejeA b.45.1.2 25757 2etvA 346 1.19e+00 1xezA 721 1.25e+00 1ujqA 305 2.41e+00 c.1.12.7 99463 1zymA 258 2.48e+00 1zymA a.60.10.1,c.8.1.2 18110,30705 1cfzA 162 2.66e+00 1cfzA c.56.1.1 33754 1winA 143 3.02e+00 1q5xA 161 3.95e+00 c.8.7.1 95947 2d93A 134 4.14e+00 1q6uA 245 4.58e+00 d.26.1.1 95998 1zzkA 82 4.99e+00 1dp4A 435 5.11e+00 1dp4A c.93.1.1 35710 1q6hA 224 5.42e+00 d.26.1.1 95975 1khtA 192 5.81e+00 c.37.1.1 84401 1q1rA 431 6.35e+00 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1ki9A 192 6.52e+00 c.37.1.1 84404 1m2kA 249 7.50e+00 c.31.1.5 84754 1j09A 468 7.60e+00 a.97.1.1,c.26.1.1 77025,77026 1pjjA 271 7.93e+00 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1j58A 385 7.94e+00 b.82.1.2 71531 2gukA 120 8.31e+00 1ne9A 335 8.44e+00 d.108.1.4,d.108.1.4 91839,91840 1tdzA 272 8.68e+00 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1jdpA 441 8.71e+00 c.93.1.1 62906 1s3rA 535 8.77e+00 1nnjA 271 9.06e+00 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1i24A 404 9.09e+00 c.2.1.2 83663 1qrrA 394 9.09e+00 1qrrA c.2.1.2 29824 1b8gA 429 9.09e+00 1b8gA c.67.1.4 34499 1gln 468 9.33e+00 1gln a.97.1.1,c.26.1.1 18752,31588 1s2wA 295 9.34e+00 c.1.12.7 98407 1q7bA 244 9.91e+00 c.2.1.2 96026 1pba 81 1.01e+01 1pytA d.58.3.1 39067 1obpA 159 1.07e+01 1obpA b.60.1.1 27092 1ko3A 230 1.07e+01 d.157.1.1 90974 1vmaA 306 1.09e+01 a.24.13.1,c.37.1.10 108887,108888 1pvtA 238 1.09e+01 c.74.1.1 95189 1m7yA 435 1.15e+01 c.67.1.4 78761 1kjnA 157 1.28e+01 c.115.1.1 72614 1oxsC 353 1.34e+01 b.40.6.3,c.37.1.12 87519,87520 1ualA 274 1.38e+01 c.116.1.4 88383 1hgxA 183 1.40e+01 1tc1A c.61.1.1 34027 1m40A 263 1.41e+01 e.3.1.1 74437 1zyeA 220 1.41e+01 1x54A 434 1.42e+01 1aszB 490 1.42e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 2napA 723 1.49e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1e2wA 251 1.50e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 2f46A 156 1.54e+01 1iejA 332 1.65e+01 1nnt c.94.1.2 62328 1ta3A 274 1.66e+01 c.1.8.5 106731 2fcjA 119 1.72e+01 1ukuA 102 1.72e+01 d.58.5.2 99533 2ae2A 260 1.77e+01 1bdb c.2.1.2 29945 2a1vA 144 1.89e+01 2fgtA 417 1.91e+01 1oxxK 353 1.92e+01 b.40.6.3,c.37.1.12 93715,93716 2bgiA 272 1.93e+01 1g5tA 196 1.94e+01 1g5rA c.37.1.11 32366 1uliA 460 1.95e+01 b.33.1.2,d.129.3.3 107921,107922 1i0sA 169 1.98e+01 1i0rA b.45.1.2 61491 1om0A 274 2.01e+01 c.1.8.5 87058 1mo7A 213 2.03e+01 d.220.1.1 85028 1ye8A 178 2.09e+01 1j5kA 89 2.15e+01 d.51.1.1 71565 1k66A 149 2.17e+01 c.23.1.1 90941 1auiB 169 2.18e+01 1auiB a.39.1.5 17325 1vpbA 451 2.19e+01 1ynuA 473 2.21e+01 1q3iA 214 2.25e+01 d.220.1.1 104524 1ywnA 316 2.26e+01 1i0rA 169 2.31e+01 1i0rA b.45.1.2 61489 2b4yA 271 2.31e+01 1j2jB 45 2.37e+01 a.7.8.1 84017 1i8dA 213 2.38e+01 b.43.4.3,b.43.4.3 61953,61954 1wq3A 322 2.51e+01 1o0pA 104 2.53e+01 d.58.7.1 86535 1gmuA 143 2.55e+01 b.107.1.1,d.58.38.1 65335,65336 1v1pA 211 2.58e+01 b.40.2.2,d.15.6.1 108268,108269 1cqxA 403 2.59e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1wj9A 211 2.68e+01 1tidB 119 2.74e+01 c.13.2.1 107000 1wmjA 130 2.83e+01 1o54A 277 2.85e+01 c.66.1.13 92482 1ermA 263 2.88e+01 1btl e.3.1.1 42690 1vl8A 267 2.95e+01 c.2.1.2 108733 1ha3A 405 2.95e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1eur 365 2.96e+01 1eut b.68.1.1 27607 2cxcA 144 3.07e+01 1lj2A 110 3.13e+01 h.1.13.2 73926 1n97A 389 3.14e+01 a.104.1.1 80335 1r6lA 239 3.29e+01 d.14.1.4,d.101.1.1 97153,97154 1gc5A 467 3.33e+01 1gc5A c.72.1.3 60429 1sffA 426 3.41e+01 c.67.1.4 105482 2iv2X 715 3.41e+01 1btl 263 3.44e+01 1btl e.3.1.1 42691 1wisA 124 3.56e+01 1t5yA 190 3.59e+01 b.122.1.1,d.17.6.3 106495,106496 1y3tA 337 3.78e+01 1dbfA 127 3.79e+01 2chsA d.79.1.2 39761 1qsoA 149 3.81e+01 1qsmA d.108.1.1 40812 1ftrA 296 3.81e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1r9gA 216 3.82e+01 c.23.16.1 97258 1h9mA 145 3.87e+01 1h9jA b.40.6.2,b.40.6.2 60833,60834 1mg2D 155 3.89e+01 a.3.1.1 79062 1ihuA 589 3.90e+01 c.37.1.10,c.37.1.10 62394,62395 1m15A 357 3.94e+01 a.83.1.1,d.128.1.2 78368,78369 1dqaA 467 3.96e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1azsA 220 4.00e+01 1azsA d.58.29.1 39416 1ql0A 241 4.05e+01 1qaeA d.4.1.2 37139 2mtaC 147 4.09e+01 2mtaC a.3.1.1 15908 2bbeA 108 4.19e+01 1txkA 498 4.19e+01 b.1.18.2,b.30.5.9 107425,107426 1y1pA 342 4.22e+01 1vggA 161 4.34e+01 2dcnA 311 4.43e+01 1g8yA 279 4.47e+01 1g8yA c.37.1.11 32302 1xw3A 110 4.50e+01 1gy7A 125 4.58e+01 d.17.4.2 70738 1wu4A 396 4.62e+01 1ibrB 462 4.66e+01 1qgrA a.118.1.1 19120 2c2xA 281 4.71e+01 1otvA 259 4.75e+01 a.132.1.4 93526 1vc1A 110 4.78e+01 c.13.2.1 108493 2g40A 224 4.83e+01 2a4nA 182 4.90e+01 1v8qA 85 4.95e+01 b.84.4.1 108428 1wcqA 601 4.96e+01 1bg0 356 4.97e+01 1qh4A a.83.1.1,d.128.1.2 18476,41211 1w0dA 337 5.01e+01 1vyoA 128 5.02e+01 1aa7A 158 5.03e+01 1aa7A a.95.1.1 18741 1xw4X 110 5.04e+01 1uw4B 248 5.04e+01 a.118.1.14 100072 1q87A 221 5.06e+01 e.47.1.1 96192 2bjuA 453 5.07e+01 1o6sB 105 5.08e+01 b.1.6.1 81096 1zm8A 259 5.08e+01 1w8oA 601 5.16e+01 2c78A 405 5.17e+01 1dlyA 164 5.21e+01 1dlyA a.1.1.1 14983 2fsxA 148 5.25e+01 2c2aA 258 5.28e+01 2fauA 341 5.42e+01 1ufkA 254 5.46e+01 c.66.1.39 99340 1t1dA 100 5.57e+01 1t1dA d.42.1.2 38637 1sxgA 280 5.59e+01 1zx2A 147 5.59e+01 1ccwB 483 5.63e+01 1cb7B c.1.19.2 29646 1sj1A 66 5.69e+01 d.58.1.4 105595 1zoyC 140 5.70e+01 1b6a 478 5.74e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1ojrA 274 5.79e+01 c.74.1.1 93147 1ukmB 128 5.79e+01 d.169.1.1 99500 1wmaA 276 5.84e+01 1iznA 286 5.84e+01 e.43.1.1 83847 1gxuA 91 5.86e+01 d.58.10.1 76378 2aebA 322 5.89e+01 1bg1A 722 5.90e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1yrbA 262 5.98e+01 2bw0A 329 6.04e+01 1e3dB 542 6.07e+01 1h2rL e.18.1.1 59189 1h5uA 842 6.16e+01 1a8i c.87.1.4 60655 1b87A 181 6.29e+01 1b87A d.108.1.1 40797 1ubeA 349 6.41e+01 c.37.1.11,d.48.1.1 88412,88413 2d4rA 147 6.41e+01 1bn8A 420 6.41e+01 1pcl b.80.1.1 28022 1ukgA 252 6.45e+01 b.29.1.1 99489 1a68 95 6.47e+01 1t1dA d.42.1.2 38639 1xmxA 385 6.51e+01 1u69A 163 6.55e+01 d.32.1.7 107699 1jnyA 435 6.57e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2c4nA 250 6.57e+01 2fx0A 201 6.64e+01 1ujmA 342 6.65e+01 1cc1L 498 6.71e+01 1h2rL e.18.1.1 43301 1nt2A 210 6.74e+01 c.66.1.3 86149 1f6fA 199 6.76e+01 1f6fA a.26.1.1 16839 2h2tB 175 6.77e+01 1aa6 715 6.79e+01 2napA b.52.2.2,c.81.1.1 26916,35324 2czdA 208 6.82e+01 1rlzA 369 6.86e+01 c.31.1.1 104989 1uirA 314 6.92e+01 c.66.1.17 99429 1m45A 148 7.00e+01 a.39.1.5 78598 1i9zA 347 7.00e+01 1i9yA d.151.1.2 62102 1uzmA 247 7.04e+01 1jmtA 104 7.06e+01 d.58.7.3 63180 1uhvA 500 7.07e+01 b.71.1.2,c.1.8.3 99402,99403 1vchA 175 7.11e+01 1euhA 475 7.12e+01 1euhA c.82.1.1 35369 1vmfA 145 7.15e+01 1ek4A 418 7.19e+01 1dd8A c.95.1.1,c.95.1.1 59436,59437 1ytaA 180 7.19e+01 1s9rA 410 7.25e+01 d.126.1.4 98758 1n71A 180 7.28e+01 d.108.1.1 85370 1nlfA 279 7.32e+01 c.37.1.11 85850 1sr9A 644 7.33e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1vkkA 154 7.47e+01 d.109.1.2 108669 1hl9A 449 7.57e+01 b.71.1.3,c.1.8.11 90650,90651 5reqA 727 7.66e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 1uu1A 335 7.71e+01 c.67.1.1 99993 1gvhA 396 7.79e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1wvqA 167 7.87e+01 1qsmA 152 7.88e+01 1qsmA d.108.1.1 40808 1sy6A 204 8.01e+01 b.1.1.4,b.1.1.4 106111,106112 1jg5A 83 8.03e+01 d.205.1.1 66666 1spxA 278 8.04e+01 c.2.1.2 98958 1lddA 74 8.05e+01 a.4.5.34 73841 1pru 56 8.05e+01 1pru a.35.1.5 17104 1dsxA 87 8.07e+01 1t1dA d.42.1.2 38644 1yueA 427 8.14e+01 1b56 135 8.15e+01 1hmt b.60.1.2 27183 1jlwA 219 8.20e+01 a.45.1.1,c.47.1.5 71741,71742 2biwA 490 8.20e+01 1nqnA 122 8.27e+01 b.61.1.1 86042 1w8iA 156 8.29e+01 1rg9A 383 8.37e+01 d.130.1.1,d.130.1.1,d.130.1.1 97427,97428,97429 1reqA 727 8.46e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 2b5oA 402 8.48e+01 1wsrA 375 8.50e+01 2a4vA 159 8.52e+01 1zsoA 164 8.58e+01 2bjdA 101 8.60e+01 1uzcA 71 8.61e+01 a.159.2.1 100222 1j1iA 296 8.63e+01 c.69.1.10 83977 1gzsB 165 8.67e+01 a.168.1.1 76425 1v7oA 165 8.70e+01 d.67.1.2 100480 2ex4A 241 8.71e+01 1i1qB 192 8.80e+01 1qdlB c.23.16.1 61544 1scjB 71 8.90e+01 1scjB d.58.3.2 39069 1sbyA 254 8.94e+01 2h0bA 184 8.97e+01 1z4rA 168 8.98e+01 1h2cA 140 8.98e+01 b.31.1.1 83462