# 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 1y2qA 143 8.75e-02 1wqaA 455 1.46e-01 1rz3A 201 4.23e-01 c.37.1.6 98132 2gfgA 193 4.30e-01 1mp9A 198 4.39e-01 d.129.1.1,d.129.1.1 91385,91386 1ufkA 254 4.49e-01 c.66.1.39 99340 2ewtA 71 6.19e-01 1qysA 106 6.51e-01 k.41.1.1 96603 1vljA 407 7.13e-01 e.22.1.2 108832 1wy7A 207 8.61e-01 1aisA 182 9.65e-01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1v6tA 255 1.02e+00 1z4rA 168 1.22e+00 1dlyA 164 1.25e+00 1dlyA a.1.1.1 14983 1s69A 124 1.29e+00 a.1.1.1 105305 1zxmA 400 1.38e+00 1f4pA 147 1.77e+00 5nul c.23.5.1 59651 2bcqA 335 1.83e+00 1gesA 450 2.03e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1jg1A 235 2.27e+00 c.66.1.7 66661 1tqjA 230 2.51e+00 c.1.2.2 107228 1vgjA 184 3.01e+00 1epuA 591 3.02e+00 1dn1A e.25.1.1 43358 1gefA 123 3.17e+00 1gefA c.52.1.18 60465 1y8qB 640 3.72e+00 1usgA 346 3.93e+00 c.93.1.1 99864 1o4sA 389 4.02e+00 c.67.1.1 86620 1gudA 288 4.47e+00 c.93.1.1 83326 1gheA 177 4.81e+00 d.108.1.1 76222 1geeA 261 4.99e+00 c.2.1.2 90509 1wa3A 205 5.32e+00 1rp4A 389 5.66e+00 a.227.1.1 105027 1qb7A 236 5.90e+00 1qb7A c.61.1.1 34087 1gntA 553 6.19e+00 e.26.1.1 70290 1pvgA 418 6.34e+00 d.14.1.3,d.122.1.2 95161,95162 1vmaA 306 6.51e+00 a.24.13.1,c.37.1.10 108887,108888 2bwvA 440 6.79e+00 1gnlA 544 6.90e+00 e.26.1.1 70287 1vkmA 297 7.23e+00 c.138.1.1 108670 1v60A 123 7.40e+00 2f62A 161 7.97e+00 1xgsA 295 8.00e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 1js3A 486 8.18e+00 c.67.1.6 67215 1vlbA 907 8.27e+00 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1dljA 402 8.32e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1t6t1 118 8.38e+00 1uslA 170 8.51e+00 c.121.1.1 99871 1tvlA 454 8.62e+00 c.1.16.4 107366 1r89A 437 9.57e+00 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1mkyA 439 9.81e+00 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1z15A 344 1.03e+01 1trb 320 1.03e+01 1trb c.3.1.5,c.3.1.5 30529,30530 1wu7A 434 1.08e+01 1yx0A 159 1.09e+01 2c07A 285 1.17e+01 1b00A 127 1.24e+01 3chy c.23.1.1 31122 1cg2A 393 1.25e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 2czdA 208 1.26e+01 1lxjA 104 1.28e+01 d.58.48.1 84736 1v8bA 479 1.28e+01 1jg5A 83 1.28e+01 d.205.1.1 66666 1jnyA 435 1.31e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2f9zC 159 1.39e+01 2abwA 227 1.41e+01 1c44A 123 1.43e+01 1qndA d.106.1.1 40795 1x6vA 630 1.48e+01 1kg0C 136 1.48e+01 d.169.1.1 72445 1gy7A 125 1.49e+01 d.17.4.2 70738 8abp 306 1.50e+01 8abp c.93.1.1 35647 1qhxA 178 1.52e+01 1qhsA c.37.1.3 31936 2ggcA 263 1.53e+01 1q52A 314 1.54e+01 c.14.1.3 95846 1o20A 427 1.54e+01 c.82.1.1 86556 1vmeA 410 1.54e+01 c.23.5.1,d.157.1.3 108893,108894 1g6hA 257 1.63e+01 1gajA c.37.1.12 60318 1b5l 172 1.64e+01 1b5l a.26.1.3 16900 1zmdA 474 1.66e+01 1ig0A 319 1.67e+01 1ig0A b.82.6.1,c.100.1.1 62354,62355 1xnzA 264 1.69e+01 1tzfA 259 1.74e+01 c.68.1.13 107476 5nul 138 1.80e+01 5nul c.23.5.1 31191 1v95A 130 1.85e+01 c.51.1.1 108435 1kafA 108 1.91e+01 d.199.1.1 68372 1y9aA 360 1.95e+01 2culA 232 1.99e+01 2a2kA 175 1.99e+01 2h0uA 217 2.02e+01 1wy2A 351 2.02e+01 1fm0E 150 2.05e+01 1fmaE d.41.5.1 38629 1wd3A 482 2.05e+01 b.29.1.21,b.42.8.1 109233,109234 2f8mA 244 2.06e+01 1vddA 228 2.10e+01 e.49.1.1 108519 1ja9A 274 2.11e+01 c.2.1.2 62817 1ituA 369 2.12e+01 c.1.9.7 71423 1ezwA 349 2.14e+01 1ezwA c.1.16.3 29558 1gxjA 186 2.17e+01 d.215.1.1 70707 1w41A 101 2.19e+01 1et9A 204 2.19e+01 1an8 b.40.2.2,d.15.6.1 25204,37793 2fp4B 395 2.21e+01 1j34B 123 2.25e+01 d.169.1.1 84049 2fhxA 246 2.27e+01 1kk1A 410 2.29e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2ci1A 275 2.30e+01 1xtqA 177 2.32e+01 1mjhA 162 2.33e+01 1mjhA c.26.2.4 31639 1s8nA 205 2.36e+01 c.23.1.1 105374 2c6cA 707 2.36e+01 1s2oA 244 2.38e+01 1r1mA 164 2.40e+01 d.79.7.1 96820 1tx2A 297 2.41e+01 c.1.21.1 107420 1uj2A 252 2.42e+01 c.37.1.6 99452 1ymkA 175 2.45e+01 1iynA 295 2.50e+01 a.93.1.1 90722 1w85I 49 2.50e+01 1gw5A 621 2.50e+01 a.118.1.10 70629 1wf3A 301 2.50e+01 1tzjA 338 2.59e+01 1p1lA 102 2.62e+01 d.58.5.2 87695 1dxy 333 2.67e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 2a35A 215 2.71e+01 2fcr 173 2.76e+01 1rcf c.23.5.1 31151 1r8nA 185 2.77e+01 b.42.4.1 104851 2dri 271 2.79e+01 2dri c.93.1.1 35637 1yseA 141 2.83e+01 1wvfA 520 2.83e+01 1ucnA 152 2.87e+01 d.58.6.1 99183 1fpzA 212 2.87e+01 1fpzA c.45.1.1 59976 1knwA 425 2.88e+01 b.49.2.3,c.1.6.1 90969,90970 1vr6A 350 2.96e+01 2blnA 305 2.99e+01 1y9wA 140 3.00e+01 2fliA 220 3.02e+01 1nsj 205 3.04e+01 1nsj c.1.2.4 28560 2d83A 363 3.06e+01 1ub0A 258 3.12e+01 c.72.1.2 88394 1xrjA 261 3.14e+01 1d4aA 273 3.15e+01 1d4aA c.23.5.3 31219 1luaA 287 3.15e+01 c.2.1.7,c.58.1.4 78216,78217 1w6uA 302 3.17e+01 1b3tA 147 3.17e+01 1b3tA d.58.8.1 39228 1l6sA 323 3.24e+01 c.1.10.3 73627 1vdmA 153 3.35e+01 1nigA 152 3.35e+01 a.25.2.1 85740 1rypH 205 3.48e+01 d.153.1.4 41876 1t1vA 93 3.49e+01 c.47.1.14 106278 1v5vA 401 3.51e+01 1fjgT 106 3.59e+01 1fjfT a.7.6.1 16338 1vimA 200 3.69e+01 c.80.1.3 100758 1pyoB 105 3.79e+01 1fmcA 255 3.81e+01 1cydA c.2.1.2 29856 1yz7A 188 3.81e+01 1to6A 371 3.82e+01 c.141.1.1 107170 2iu4A 336 3.83e+01 1hc7A 477 3.88e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 2bivA 243 3.97e+01 1kaeA 434 3.98e+01 c.82.1.2 72247 1jyhA 157 4.00e+01 d.60.1.3 71956 1qw9A 502 4.00e+01 b.71.1.2,c.1.8.3 96466,96467 1ka1A 357 4.01e+01 e.7.1.1 68369 2fgeA 995 4.04e+01 1o0xA 262 4.15e+01 d.127.1.1 80755 1m0wA 491 4.19e+01 c.30.1.4,d.142.1.6 78363,78364 1xb4A 202 4.23e+01 1ddwA 120 4.28e+01 1evhA b.55.1.4 27001 1r3sA 367 4.33e+01 c.1.22.1 96963 1aky 221 4.35e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1twuA 139 4.40e+01 d.32.1.8 107413 1j58A 385 4.40e+01 b.82.1.2 71531 2b0cA 206 4.42e+01 1u6tA 121 4.43e+01 1n83A 270 4.44e+01 a.123.1.1 80276 1fjgJ 105 4.49e+01 1fjfJ d.58.15.1 39330 1nhkL 144 4.54e+01 1npk d.58.6.1 39142 1o5zA 442 4.67e+01 c.59.1.2,c.72.2.2 92530,92531 2bjiA 277 4.72e+01 4tmkA 213 4.78e+01 5tmpA c.37.1.1 31930 1k92A 455 4.88e+01 c.26.2.1,d.210.1.1 68325,68326 1xqaA 113 4.89e+01 1xfjA 261 4.90e+01 d.194.1.2 109585 1wvqA 167 4.98e+01 1vzsA 76 5.04e+01 f.45.1.1 108972 1nm2A 317 5.07e+01 c.19.1.1,d.58.23.1 80654,80655 1zjcA 418 5.12e+01 1a7j 290 5.17e+01 1a7j c.37.1.6 31952 2f1fA 164 5.18e+01 1j8mF 297 5.19e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1eexB 224 5.20e+01 1dioB c.51.3.1 33213 1b5pA 385 5.25e+01 c.67.1.1 90403 1in0A 163 5.30e+01 d.58.49.1,d.58.49.1 83694,83695 1rliA 184 5.30e+01 c.23.5.6 97647 1ul7A 102 5.31e+01 d.129.6.1 99540 1nzaA 103 5.37e+01 d.58.5.2 86444 1wdjA 187 5.41e+01 1npk 154 5.43e+01 1npk d.58.6.1 39099 2f4nA 273 5.43e+01 1txjA 171 5.46e+01 b.88.1.2 107424 1vhoA 346 5.51e+01 b.49.3.1,c.56.5.4 100694,100695 1mzgA 146 5.52e+01 d.224.1.1 79696 1es5A 262 5.55e+01 1skf e.3.1.1 42679 1yj7A 171 5.61e+01 1rzhH 260 5.61e+01 b.41.1.1,f.23.10.1 98162,98163 1cc8A 73 5.63e+01 1cc8A d.58.17.1 39343 1fvuB 125 5.66e+01 1ixxB d.169.1.1 42346 1vdwA 254 5.67e+01 e.7.1.1 100569 1ez3A 127 5.71e+01 1dn1B a.47.2.1 17768 1nq7A 244 5.74e+01 a.123.1.1 92047 1tc1A 220 5.77e+01 1tc1A c.61.1.1 34083 1knyA 253 5.82e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1t5bA 201 5.88e+01 c.23.5.3 106433 1n2sA 299 5.88e+01 c.2.1.2 79857 1naqA 112 5.89e+01 d.58.5.2 91761 2b9eA 303 5.95e+01 1rl6A 177 5.99e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1j98A 157 6.03e+01 1j98A d.185.1.2 62755 1ooeA 236 6.08e+01 c.2.1.2 87196 1eo1A 124 6.10e+01 1eo1A c.55.5.1 33739 1izoA 417 6.19e+01 a.104.1.1 83851 2c8vA 288 6.21e+01 1m22A 503 6.22e+01 c.117.1.1 78464 2b3hA 329 6.27e+01 1josA 128 6.30e+01 d.52.7.1 84191 1hqkA 154 6.33e+01 c.16.1.1 65902 1yoxA 250 6.33e+01 2fnuA 375 6.47e+01 2jdxA 385 6.49e+01 1jdw d.126.1.2 41139 1l1qA 186 6.53e+01 c.61.1.1 77653 1yxmA 303 6.57e+01 2fi0A 81 6.58e+01 1zndA 174 6.59e+01 1v37A 177 6.59e+01 1i88A 389 6.61e+01 c.95.1.2,c.95.1.2 66070,66071 1u7iA 136 6.66e+01 d.32.1.7 107724 1idrA 136 6.67e+01 1dlyA a.1.1.1 62301 1jv1A 505 6.68e+01 c.68.1.5 71892 1jjvA 206 6.68e+01 c.37.1.1 71698 1u5dA 108 6.69e+01 1u6rA 380 6.69e+01 1ne2A 200 6.70e+01 c.66.1.32 85586 1xocA 520 6.82e+01 1qy1A 174 6.86e+01 b.60.1.1 96568 2f1rA 171 6.87e+01 2b0aA 186 6.89e+01 1d3gA 367 6.89e+01 1d3gA c.1.4.1 28600 2cwkA 160 6.90e+01 1jsf 130 6.90e+01 3lzt d.2.1.2 36410 1xngA 268 6.91e+01 1xtaA 221 6.97e+01 1l3iA 192 6.99e+01 c.66.1.22 77676 1cnt1 187 7.04e+01 1cnt3 1u9iA 519 7.05e+01 1gpeA 587 7.07e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1oe8A 211 7.11e+01 a.45.1.1,c.47.1.5 86905,86906 2cvdA 198 7.12e+01 1jkeA 145 7.17e+01 c.110.1.1 66791 2fyxA 143 7.18e+01 1fc6A 388 7.21e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1xo5A 183 7.22e+01 3lzt 129 7.23e+01 3lzt d.2.1.2 36245 1vkyA 347 7.32e+01 e.53.1.1 108696 1ow1A 195 7.38e+01 b.131.1.3 93625 1m32A 366 7.53e+01 c.67.1.3 78508 1qxyA 252 7.57e+01 d.127.1.1 96565 2cvzA 289 7.66e+01 1i0lA 221 7.67e+01 c.61.1.1 71096 1c7sA 858 7.72e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1yarA 233 7.73e+01 1cznA 169 7.76e+01 1rcf c.23.5.1 31181 1oksA 56 7.79e+01 a.8.5.1 93271 1wosA 364 7.93e+01 b.44.2.1,d.250.1.1 109468,109469 2fxuA 375 7.94e+01 1vr4A 103 7.95e+01 1uesA 191 8.02e+01 a.2.11.1,d.44.1.1 107798,107799 1rkd 309 8.02e+01 1rkd c.72.1.1 34928 1fjhA 257 8.03e+01 1fjhB c.2.1.2 29870 2bjfA 329 8.04e+01 1ozjA 144 8.08e+01 d.164.1.1 93846 2d13A 227 8.14e+01 1ekjA 221 8.15e+01 1ekjB c.53.2.1 33364 1h6gA 256 8.15e+01 1h6gA a.24.9.1,a.24.9.1 60669,60670 1dlwA 116 8.20e+01 1dlyA a.1.1.1 14982 1zzmA 259 8.20e+01 1rypL 212 8.24e+01 d.153.1.4 41880 1d1gA 168 8.30e+01 1d1gA c.71.1.1 34889 2citA 282 8.30e+01 1vkcA 158 8.35e+01 1ysjA 404 8.35e+01 1jdw 423 8.36e+01 1jdw d.126.1.2 41129 1urjA 1136 8.43e+01 1wwkA 307 8.44e+01 1hbwA 57 8.49e+01 1hbwA h.1.3.1 60928 2ff4A 388 8.58e+01 1a73A 163 8.61e+01 1a73A d.4.1.3 37145 1ycdA 243 8.66e+01 2f31A 233 8.67e+01 1bh9B 89 8.72e+01 1bh9B a.22.1.3 16485 1iyhA 198 8.81e+01 a.45.1.1,c.47.1.5 83790,83791 2c5kP 24 8.86e+01 1q2lA 939 8.86e+01 1vmbA 140 8.89e+01 1lmq 129 8.92e+01 3lzt d.2.1.2 36588 1vrvA 101 8.94e+01 1z8gA 372 8.95e+01 1i2aA 219 8.96e+01 e.24.1.1 90660 1ep3A 311 8.97e+01 2dorA c.1.4.1 28597