# List of top-scoring protein chains for t06-100-30-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 2fneA 117 1.45e-16 2fe5A 94 1.32e-15 2fcfA 103 3.93e-15 1tp5A 119 4.68e-15 1g9oA 91 7.10e-15 1pdr b.36.1.1 60400 1qavA 90 2.64e-14 1qauA b.36.1.1 24777 1ihjA 98 2.71e-14 1pdr b.36.1.1 62382 1n7fA 97 2.53e-13 b.36.1.1 91692 1n7eA 97 2.67e-13 b.36.1.1 91691 2f0aA 98 3.16e-13 2h2bA 107 4.03e-13 1mfgA 95 7.54e-13 b.36.1.1 79043 1qauA 112 7.90e-13 1qauA b.36.1.1 24779 2h3lA 103 8.37e-13 1q3oA 109 9.40e-13 b.36.1.1 95700 2f5yA 91 1.89e-12 1nf3C 128 3.02e-12 b.36.1.1 85596 1wf7A 103 5.30e-12 1kwaA 88 8.50e-12 1kwaA b.36.1.1 24772 1r6jA 82 8.45e-11 b.36.1.1 97151 1lcyA 325 2.10e-06 b.36.1.4,b.47.1.1 73834,73835 1fc6A 388 2.31e-06 1fc6A b.36.1.3,c.14.1.2 64738,64739 1te0A 318 3.91e-06 1y8tA 324 1.47e-04 2a6tA 271 3.96e-01 2bh4X 134 5.79e-01 1vpqA 273 1.21e+00 1o6dA 163 1.23e+00 c.116.1.3 92567 1koe 172 1.29e+00 1koe d.169.1.5 42448 2bhoA 130 1.37e+00 1reqB 637 1.60e+00 1reqB c.1.19.1,c.23.6.1 29621,31248 3tmkA 216 1.85e+00 3tmkA c.37.1.1 31920 2brfA 110 2.13e+00 1dxrH 258 2.21e+00 6prcH b.41.1.1,f.23.10.1 25456,43433 2f51A 118 2.34e+00 1xewX 182 2.51e+00 2bsjA 133 2.52e+00 1rypH 205 3.16e+00 d.153.1.4 41876 1dg6A 191 3.25e+00 1d4vB b.22.1.1 23883 1fxlA 167 3.31e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 1h6kA 757 3.60e+00 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 1to2I 64 3.81e+00 2d4pA 141 3.83e+00 1cq3A 233 4.18e+00 1cq3A b.27.1.1 23923 1fm0E 150 4.23e+00 1fmaE d.41.5.1 38629 1js8A 394 4.31e+00 a.86.1.1,b.112.1.1 67219,67220 1kw4A 89 4.42e+00 a.60.1.2 73077 1rlhA 173 4.55e+00 d.256.1.1 97646 2bw3A 534 4.65e+00 1gjjA 168 4.71e+00 a.140.1.1,a.140.1.1 83291,83292 1z5yE 149 4.83e+00 1unkA 87 5.46e+00 1cei a.28.2.1 16935 1t6t1 118 5.74e+00 1pk1B 89 5.75e+00 1vj0A 380 5.84e+00 b.35.1.2,c.2.1.1 100786,100787 1rz2A 254 5.89e+00 b.100.1.1 105130 1sflA 238 5.94e+00 1l3iA 192 5.95e+00 c.66.1.22 77676 1fdr 248 6.11e+00 1fdr b.43.4.2,c.25.1.1 25653,31543 1yvcA 70 6.26e+00 1nmeA 146 6.27e+00 c.17.1.1 85874 1k4mA 213 6.60e+00 c.26.1.3 77258 2gm5A 139 7.07e+00 1nz0A 118 7.33e+00 d.14.1.2 86433 2aefA 234 7.56e+00 2b4aA 138 8.26e+00 1bx4A 345 8.31e+00 1bx4A c.72.1.1 34935 2c9wA 169 8.42e+00 1mzbA 136 8.46e+00 a.4.5.42 91497 1evlA 401 8.58e+00 1qf6A c.51.1.1,d.104.1.1 33202,40751 1h05A 146 8.63e+00 c.23.13.1 76433 1sixA 174 8.94e+00 b.85.4.1 98892 1r6xA 395 9.12e+00 b.122.1.3,c.26.1.5 97167,97168 1cliA 345 9.77e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1qw2A 102 1.02e+01 d.249.1.1 96456 1h9oA 112 1.02e+01 1qadA d.93.1.1 60837 1q7hA 153 1.07e+01 b.122.1.1,d.17.6.2 96042,96043 1jvwA 167 1.07e+01 d.26.1.1 71907 1yeyA 444 1.08e+01 1csh 435 1.09e+01 1csh a.103.1.1 18880 2cu5A 129 1.10e+01 1a62 130 1.12e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1uc2A 481 1.13e+01 d.261.1.1 99161 1qb7A 236 1.15e+01 1qb7A c.61.1.1 34087 2cc0A 195 1.16e+01 1yg9A 330 1.17e+01 1jhfA 202 1.24e+01 a.4.5.2,b.87.1.1 63057,63058 1l1dA 152 1.24e+01 b.88.1.3 73452 1mkmA 249 1.26e+01 a.4.5.33,d.110.2.2 79242,79243 1unlD 208 1.27e+01 1yf3A 259 1.29e+01 1qhlA 227 1.29e+01 1qhlA c.37.1.12 32382 1h3gA 601 1.32e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1zq9A 285 1.33e+01 1pueE 89 1.34e+01 1awcA a.4.5.21 16165 1hssA 124 1.36e+01 1bea a.52.1.2 17819 1zuoA 186 1.38e+01 2c5qA 240 1.43e+01 1uc8A 280 1.43e+01 c.30.1.6,d.142.1.7 99165,99166 2d9iA 96 1.46e+01 1qyaA 307 1.50e+01 d.21.1.2,d.21.1.2 104653,104654 1se8A 301 1.51e+01 b.40.4.3 105448 2ahqA 76 1.55e+01 1t9iA 163 1.59e+01 1n0qA 93 1.61e+01 k.37.1.1 79754 1gpr 162 1.63e+01 1gpr b.84.3.1 28267 2bikB 313 1.65e+01 1d4oA 184 1.65e+01 1d4oA c.31.1.4 31748 1xewY 172 1.66e+01 2aa4A 289 1.69e+01 2axcA 264 1.70e+01 2cw8A 537 1.71e+01 1v5iB 76 1.72e+01 1xo5A 183 1.72e+01 1kk1A 410 1.74e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1u8vA 490 1.77e+01 1g2hA 61 1.84e+01 1g2hA a.4.1.12 60224 1at0 145 1.87e+01 1at0 b.86.1.1 28374 1rxdA 159 1.88e+01 1rutX 188 1.90e+01 1yb2A 275 1.99e+01 1r0vA 305 2.05e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 2csbA 519 2.06e+01 1nykA 165 2.08e+01 b.33.1.1 86408 1sdjA 310 2.16e+01 d.21.1.2,d.21.1.2 98807,98808 1sknP 92 2.18e+01 1sknP a.37.1.1 17127 1euwA 152 2.22e+01 1dupA b.85.4.1 28349 2bwbA 46 2.24e+01 1a8y 367 2.24e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1ti6A 875 2.25e+01 b.52.2.2,c.81.1.1 106974,106975 2f5tX 233 2.27e+01 1b65A 375 2.28e+01 1b65A d.154.1.1 42020 1fr3A 67 2.28e+01 1fr3A b.40.6.1 25436 1zhvA 134 2.29e+01 1yloA 348 2.30e+01 2bkfA 87 2.32e+01 1dvoA 152 2.34e+01 1dvoA a.136.1.1 19623 1w9gA 104 2.37e+01 1fxkC 133 2.38e+01 1fxkC a.2.5.1 15702 1fgkA 310 2.50e+01 1fgkA d.144.1.7 41693 2a2pA 129 2.61e+01 1iruK 201 2.65e+01 d.153.1.4 71362 1wvqA 167 2.66e+01 1yqfA 203 2.70e+01 1ufkA 254 2.72e+01 c.66.1.39 99340 1rxwA 336 2.72e+01 a.60.7.1,c.120.1.2 98059,98060 2as0A 396 2.75e+01 1viaA 175 2.75e+01 c.37.1.2 100754 1ex2A 189 2.80e+01 1ex2A c.51.4.2 33225 1ppjB 439 2.85e+01 d.185.1.1,d.185.1.1 104254,104255 1sv6A 269 2.88e+01 d.177.1.1 106043 1pswA 348 2.90e+01 c.87.1.7 88287 1um0A 365 2.91e+01 d.258.1.1 107942 2fi0A 81 2.93e+01 2gwnA 452 2.98e+01 1wqsA 173 2.99e+01 2a8eA 220 3.05e+01 1rrmA 386 3.17e+01 e.22.1.2 105081 1gky 187 3.19e+01 1gky c.37.1.1 31839 2bneA 241 3.23e+01 1uh5A 329 3.29e+01 c.2.1.2 107840 1flmA 122 3.31e+01 1axj b.45.1.1 25747 1yi9A 309 3.37e+01 1yg2A 179 3.38e+01 1x3mA 415 3.39e+01 2rslA 140 3.43e+01 2rslA c.53.1.1 33345 1bb9 115 3.47e+01 1bb9 b.34.2.1 24554 2b4lA 268 3.52e+01 1g7sA 594 3.53e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1xv2A 237 3.57e+01 1xv5A 401 3.63e+01 1tif 78 3.66e+01 1tif d.15.8.1 37836 2gu3A 136 3.68e+01 2napA 723 3.69e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1wolA 122 3.69e+01 2cq2A 114 3.69e+01 1wdiA 345 3.70e+01 1ycoA 279 3.71e+01 1jjtA 228 3.78e+01 1a7tA d.157.1.1 63139 1earA 147 3.83e+01 b.107.1.1,d.58.38.1 64875,64876 8rucI 123 3.84e+01 1rboC d.73.1.1 39629 1vheA 373 3.85e+01 b.49.3.1,c.56.5.4 100669,100670 1iq8A 582 3.86e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1y8oB 128 3.87e+01 1oi2A 366 3.92e+01 c.119.1.2 103802 2db1A 118 3.95e+01 1ejfA 125 3.96e+01 1ejfA b.15.1.2 23683 1pgvA 197 3.98e+01 c.10.1.1 88073 2btvA 901 3.99e+01 2btvA e.28.1.1 43376 1kjyB 36 3.99e+01 1zrjA 50 4.00e+01 1wi9A 72 4.02e+01 2bsyA 278 4.02e+01 2fojA 155 4.07e+01 1augA 215 4.08e+01 1a2zA c.56.4.1 33798 1l0bA 229 4.12e+01 c.15.1.3,c.15.1.3 73391,73392 1zwtA 158 4.15e+01 1k8wA 327 4.16e+01 b.122.1.1,d.265.1.2 83094,90388 1kgdA 180 4.17e+01 c.37.1.1 68582 1yy6A 155 4.17e+01 1ztdA 133 4.20e+01 1ex7A 186 4.27e+01 1gky c.37.1.1 59537 2evwX 166 4.28e+01 2gk4A 232 4.28e+01 1h8eA 510 4.32e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1sfdA 105 4.34e+01 b.6.1.1 105480 1ucdA 190 4.34e+01 d.124.1.1 107767 1cruA 454 4.35e+01 1c9uA b.68.2.1 27617 1g5tA 196 4.36e+01 1g5rA c.37.1.11 32366 1xsvA 113 4.37e+01 2g3kA 94 4.38e+01 1qd1A 325 4.49e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1zxxA 319 4.51e+01 1vekA 84 4.54e+01 1ojhA 65 4.57e+01 a.214.1.1 103976 1l2mA 118 4.58e+01 d.89.1.4 77657 2gmqA 118 4.59e+01 1zn8A 180 4.65e+01 1wmhA 89 4.66e+01 1vkiA 181 4.68e+01 d.116.1.1 108664 1h3qA 140 4.76e+01 d.110.4.3 76652 2fhqA 141 4.81e+01 1rd5A 262 4.84e+01 1oeyA 83 4.84e+01 d.15.2.2 92800 2an3A 289 5.00e+01 7taa 478 5.05e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1ypvA 313 5.05e+01 1xebA 150 5.06e+01 1xs1A 193 5.14e+01 2c71A 216 5.19e+01 1tkkA 366 5.27e+01 c.1.11.2,d.54.1.1 107089,107090 1rypL 212 5.27e+01 d.153.1.4 41880 1b43A 340 5.34e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1xbbA 291 5.34e+01 1ryp1 222 5.37e+01 1ryp1 2b18A 164 5.40e+01 1xtmA 175 5.42e+01 1p42A 270 5.43e+01 d.14.1.7,d.14.1.7 87754,87755 2f9fA 177 5.52e+01 1ej2A 181 5.53e+01 1f9aA c.26.1.3 59414 1s4iA 175 5.55e+01 1rwzA 245 5.61e+01 d.131.1.2,d.131.1.2 98005,98006 2gs8A 317 5.71e+01 1cc8A 73 5.73e+01 1cc8A d.58.17.1 39343 1y7lA 316 5.73e+01 2ck3A 510 5.74e+01 1g8sA 230 5.74e+01 c.66.1.3 90507 1ww7A 160 5.75e+01 1x6vA 630 5.77e+01 1m8jA 181 5.81e+01 c.26.1.3 84875 1zh1A 163 5.83e+01 1ghpA 258 5.84e+01 1btl e.3.1.1 60520 1ccwB 483 5.85e+01 1cb7B c.1.19.2 29646 1tr8A 102 5.86e+01 1he1A 135 5.94e+01 1he1A a.24.11.1 16641 1ebfA 358 5.97e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1z3eA 132 5.99e+01 1uteA 313 6.04e+01 1uteA d.159.1.1 42078 1wfxA 186 6.05e+01 2g7zA 282 6.06e+01 1jm1A 204 6.06e+01 b.33.1.1 71745 1b8aA 438 6.09e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1r61A 207 6.11e+01 c.8.8.1 97138 1z1dA 103 6.21e+01 1qmvA 197 6.22e+01 1qq2A c.47.1.10 33066 2gasA 307 6.23e+01 1ehiA 377 6.23e+01 1iow c.30.1.2,d.142.1.1 31716,41484 2fp4B 395 6.25e+01 1nuuA 252 6.26e+01 c.26.1.3 86209 1z96A 40 6.26e+01 1wkvA 389 6.28e+01 2btzA 394 6.28e+01 1lngA 87 6.30e+01 d.201.1.1 74045 1id2A 106 6.31e+01 1aac b.6.1.1 62288 1qzzA 374 6.32e+01 a.4.5.29,c.66.1.12 96719,96720 2f2lX 167 6.37e+01 1t3qB 788 6.42e+01 d.41.1.1,d.133.1.1 106369,106370 1y0bA 197 6.53e+01 1nkqA 259 6.56e+01 d.177.1.1 103862 1qo0D 196 6.57e+01 1qo0D c.23.1.3 31125 1rwrA 301 6.58e+01 b.80.1.11 97990 1ne5A 42 6.63e+01 g.3.7.2 85588 1dpe 507 6.68e+01 1dpe c.94.1.1 35799 1q67A 231 6.70e+01 b.55.1.7 95960 1x1oA 286 6.75e+01 1v9mA 323 6.88e+01 f.40.1.1 100543 1bkzA 135 6.93e+01 1a3k b.29.1.3 24202 1c1lA 136 7.03e+01 1c1lA b.29.1.3 24219 1h3fA 432 7.03e+01 c.26.1.1,d.66.1.4 76631,76632 1p99A 295 7.03e+01 c.94.1.1 94384 1p0yA 444 7.04e+01 a.166.1.1,b.85.7.3 87654,87655 1fkmA 396 7.06e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 1y0yA 353 7.12e+01 1k4iA 233 7.15e+01 d.115.1.2 72056 3c2c 112 7.15e+01 1ycc a.3.1.1 15885 1tmy 120 7.21e+01 1dbwA c.23.1.1 31083 1iz5A 249 7.26e+01 d.131.1.2,d.131.1.2 83834,83835 1mvoA 136 7.27e+01 c.23.1.1 79513 2bw0A 329 7.33e+01 1kk8B 139 7.37e+01 a.39.1.5 77430 1llnA 262 7.45e+01 d.165.1.1 84625 1rypK 198 7.47e+01 d.153.1.4 41879 2azwA 148 7.48e+01 1eo6A 117 7.50e+01 1eo6A d.15.1.3 37609 2fsxA 148 7.51e+01 1yb3A 175 7.54e+01 1gk8I 140 7.61e+01 d.73.1.1 65242 1zavA 180 7.62e+01 1wmaA 276 7.63e+01 1fhgA 154 7.68e+01 1tlk b.1.1.4 21706 1bdfA 235 7.70e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1u2wA 122 7.78e+01 1c3pA 375 7.82e+01 1c3pA c.42.1.2 32606 1fo8A 343 7.82e+01 1foaA c.68.1.10 59927 2fr1A 486 8.05e+01 2c8mA 262 8.15e+01 1obfO 335 8.17e+01 c.2.1.3,d.81.1.1 86768,86769 1fp2A 352 8.20e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 2a1fA 247 8.28e+01 1xvqA 175 8.36e+01 1i1qB 192 8.41e+01 1qdlB c.23.16.1 61544 1t3iA 420 8.45e+01 c.67.1.3 106354 1txvA 452 8.57e+01 1gnuA 117 8.57e+01 d.15.1.3 65403 1gmlA 178 8.59e+01 c.8.5.2 70273 1zpwX 90 8.60e+01 1lkkA 105 8.69e+01 1lckA d.93.1.1 40412 1xpjA 126 8.74e+01 1czfA 362 8.74e+01 1czfA b.80.1.3 28031 2a7mA 250 8.74e+01 1nnhA 294 8.84e+01 d.104.1.1 92005 1ngnA 155 8.88e+01 a.96.1.2 85697 1st9A 143 8.96e+01 c.47.1.10 98987 1v71A 323 8.99e+01