# List of top-scoring protein chains for t2k-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 1kagA 173 7.13e-01 c.37.1.2 72249 2cqnA 77 1.10e+00 2anuA 255 1.38e+00 1svfB 38 1.86e+00 1svfB h.3.2.1 45764 2bvpA 276 1.89e+00 6ldh 330 2.47e+00 3ldh c.2.1.5,d.162.1.1 30161,42128 1tmy 120 2.50e+00 1dbwA c.23.1.1 31083 1ldm 329 2.55e+00 3ldh c.2.1.5,d.162.1.1 30160,42127 1m5tA 124 3.15e+00 c.23.1.1 78660 1u0sY 118 3.33e+00 c.23.1.1 107566 1mb3A 124 3.34e+00 c.23.1.1 78907 1jf8A 131 3.64e+00 c.44.1.1 66621 1yuwA 554 3.67e+00 1c9kB 180 3.69e+00 1c9kB c.37.1.11 32364 1z47A 355 3.85e+00 2b5dX 528 3.92e+00 1cbuA 180 4.23e+00 1c9kB c.37.1.11 32360 1c9kA 180 4.25e+00 1c9kB c.37.1.11 32363 2fo1D 85 4.27e+00 1srrA 124 4.49e+00 1dz3A c.23.1.1 31110 1yh3A 256 4.87e+00 1jfvA 131 5.13e+00 c.44.1.1 66654 2b99A 156 7.21e+00 2eshA 118 7.51e+00 1fobA 334 8.06e+00 c.1.8.3 83255 2fsp 124 8.86e+00 1dz3A c.23.1.1 31119 1bupA 386 8.96e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1h54B 754 9.00e+00 a.102.1.4,b.30.5.3 60636,60637 1ats 386 9.08e+00 1ba1 c.55.1.1,c.55.1.1 33423,33424 1ba1 386 9.29e+00 1ba1 c.55.1.1,c.55.1.1 33387,33388 1h54A 754 9.68e+00 a.102.1.4,b.30.5.3 60634,60635 1vp8A 201 9.97e+00 1kay 381 1.00e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1bbn 133 1.02e+01 1rcb a.26.1.2 16861 1l2tA 235 1.04e+01 c.37.1.12 73514 1ccwA 137 1.06e+01 1be1 c.23.6.1 31238 1atr 386 1.11e+01 1ba1 c.55.1.1,c.55.1.1 33421,33422 2d48A 129 1.14e+01 1hpm 386 1.14e+01 1ba1 c.55.1.1,c.55.1.1 33381,33382 2ethA 154 1.30e+01 2co5A 99 1.39e+01 1mvoA 136 1.44e+01 c.23.1.1 79513 2feaA 236 1.54e+01 2d28C 149 1.59e+01 1a04A 215 1.77e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1qrvB 73 1.81e+01 a.21.1.1 16426 2fbiA 142 1.84e+01 1qrvA 73 2.01e+01 1cktA a.21.1.1 16425 1itm 130 2.07e+01 1rcb a.26.1.2 16858 1ntyA 311 2.08e+01 a.87.1.1,b.55.1.1 103873,103874 1hma 73 2.08e+01 1cktA a.21.1.1 16427 2h88C 140 2.12e+01 1vk9A 151 2.13e+01 c.139.1.1 108640 2scuB 388 2.17e+01 2scuB c.23.4.1,d.142.1.4 31141,41562 1m6pA 152 2.34e+01 1m6pA b.64.1.1 27519 1dr8B 344 2.40e+01 1cnzA c.77.1.1 35052 1vgjA 184 2.42e+01 1hziA 129 2.51e+01 1rcb a.26.1.2 61449 2f5gA 133 2.51e+01 2int 129 2.57e+01 1rcb a.26.1.2 16855 1a2oA 349 2.67e+01 1chd c.23.1.1,c.40.1.1 31120,32479 1rcb 129 2.75e+01 1rcb a.26.1.2 16854 1w8iA 156 2.76e+01 2d27A 149 2.77e+01 2eueA 279 2.78e+01 1vdxA 184 2.88e+01 1e19A 314 2.89e+01 1b7bA c.73.1.1 34967 1ukxA 137 2.89e+01 d.20.1.3 107919 1c0dA 358 2.89e+01 1eceA c.1.8.3 28815 1ak1 310 3.17e+01 1ak1 c.92.1.1 35594 1i50H 146 3.28e+01 b.40.4.8 61761 1n13B 113 3.29e+01 1wovA 250 3.38e+01 1eceA 358 3.51e+01 1eceA c.1.8.3 28813 1vhmA 195 3.52e+01 d.110.2.1 100691 1zanL 214 3.52e+01 1s8nA 205 3.53e+01 c.23.1.1 105374 9ldtA 332 3.59e+01 3ldh c.2.1.5,d.162.1.1 30154,42121 1pmi 440 3.76e+01 1pmi b.82.1.3 28114 1lldA 319 3.81e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1mzjA 339 4.02e+01 c.95.1.2,c.95.1.2 79700,79701 2bosA 68 4.11e+01 2bosA b.40.2.1 25025 1g8sA 230 4.33e+01 c.66.1.3 90507 1t8tA 271 4.35e+01 c.37.1.5 106685 1eciA 37 4.39e+01 1eciA a.33.1.1 16999 1ydwA 362 4.43e+01 1r4pB 70 4.51e+01 b.40.2.1 97026 1ebfA 358 4.67e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 2bf5A 98 4.67e+01 1n2sA 299 4.76e+01 c.2.1.2 79857 1dbyA 107 4.81e+01 1thx c.47.1.1 32734 2di4A 238 4.85e+01 1squA 155 5.11e+01 d.252.1.1 98971 1fzqA 181 5.17e+01 1hurA c.37.1.8 32060 1v71A 323 5.19e+01 1wh8A 111 5.19e+01 1ufiA 64 5.22e+01 a.30.4.1 99336 2gqrA 237 5.44e+01 2au3A 407 5.47e+01 1a0sP 413 5.52e+01 1a0tP f.4.3.2 43797 1wd5A 208 5.53e+01 2ffcA 353 5.59e+01 1ldnA 316 5.62e+01 1hyhA c.2.1.5,d.162.1.1 30166,42133 1uv4A 293 5.79e+01 1k8bA 52 5.90e+01 d.241.1.1 72171 1b0uA 262 5.94e+01 1b0uA c.37.1.12 32370 1qxyA 252 6.21e+01 d.127.1.1 96565 1u9lA 70 6.27e+01 a.60.4.2 107751 2fbwC 141 6.32e+01 1pzgA 331 6.32e+01 c.2.1.5,d.162.1.1 95425,95426 1e6cA 173 6.38e+01 1shkA c.37.1.2 59296 1k34A 68 6.41e+01 h.3.2.1 68093 1fbnA 230 6.47e+01 1fbnA c.66.1.3 34181 1ltzA 297 6.64e+01 d.178.1.1 74254 2gclA 261 6.68e+01 1yvkA 163 6.77e+01 1szt 68 6.78e+01 1aikN h.3.2.1 45725 1g10A 102 6.92e+01 1g10A d.137.1.1 60191 1xgyL 216 6.98e+01 1a0tP 413 7.02e+01 1a0tP f.4.3.2 43794 1ibcA 194 7.32e+01 1pauA c.17.1.1 30997 1tmcA 175 7.39e+01 1agdA d.19.1.1 38258 1ej8A 140 7.50e+01 1qupA b.1.8.1 22300 1keoA 154 7.52e+01 b.64.1.1 68534 1wjvA 79 7.75e+01 1xebA 150 7.83e+01 1wz9A 375 7.90e+01 1wudA 89 7.94e+01 2fcr 173 7.99e+01 1rcf c.23.5.1 31151 2gpiA 91 8.00e+01 1o5kA 306 8.06e+01 c.1.10.1 92504 1ztxL 212 8.17e+01 1twfH 146 8.32e+01 2f4nA 273 8.33e+01 1u04A 771 8.34e+01 b.34.14.1,c.55.3.10 107539,107540 1gheA 177 8.39e+01 d.108.1.1 76222 1ebuA 358 8.41e+01 1ebuA c.2.1.3,d.81.1.2 30035,39950 2gm5A 139 8.53e+01 2fyxA 143 8.59e+01 1m48A 133 8.64e+01 a.26.1.2 74443 1cnzA 363 8.73e+01 1cnzA c.77.1.1 35061 1ehyA 294 8.74e+01 1ehyA c.69.1.11 34693 1ytw 306 8.78e+01 1ytw c.45.1.2 32689 2b7kA 200 8.78e+01 1hyxL 216 8.79e+01 8fabA b.1.1.1,b.1.1.2 20166,21190 2fbjL 213 8.86e+01 8fabA b.1.1.1,b.1.1.2 19850,20954 1nlbL 220 8.96e+01 b.1.1.1,b.1.1.2 80623,80624 2fi9A 128 8.98e+01