# 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 2cchB 260 3.22e-40 1w98B 283 2.90e-33 1f5qB 252 1.06e-22 1f5qB a.74.1.1,a.74.1.1 18362,18363 1aisB 200 4.20e-22 1aisB a.74.1.2,a.74.1.2 18384,18385 1j1vA 94 9.87e-03 a.4.12.2 83981 1r29A 127 3.85e-02 d.42.1.1 96856 1o69A 394 8.56e-02 c.67.1.4 92560 1ctt 294 9.54e-02 1ctt c.97.1.1,c.97.1.1 36022,36023 2bsjA 133 1.17e-01 1guxB 152 1.48e-01 1guxB a.74.1.3 18389 1lqaA 346 2.45e-01 c.1.7.1 84674 2bhoA 130 2.99e-01 2gx9A 129 4.76e-01 1i2sA 282 5.68e-01 e.3.1.1 71104 1r8sE 203 7.53e-01 a.118.3.1 97248 2cw6A 298 8.66e-01 1q4rA 112 8.86e-01 d.58.4.4 95823 1oz9A 150 1.02e+00 d.92.1.15 93808 1t6sA 162 1.13e+00 1vk8A 106 1.20e+00 d.58.48.1 108636 1ab8A 220 1.29e+00 1azsA d.58.29.1 39414 1tr0A 108 1.31e+00 d.58.4.4 107261 1r3sA 367 1.52e+00 c.1.22.1 96963 1u4nA 310 1.57e+00 1ku3A 73 1.69e+00 a.4.13.2 73000 1e5rA 290 1.83e+00 1e5rA b.82.2.4 59276 1ars 396 1.93e+00 1ajsA c.67.1.1 34287 1xjjA 644 1.99e+00 1ynpA 317 2.16e+00 1e5dA 402 2.21e+00 1e5dA c.23.5.1,d.157.1.3 31208,42061 1v2zA 111 2.21e+00 a.186.1.1 108300 1r8mE 203 2.26e+00 a.118.3.1 97242 1vmeA 410 2.27e+00 c.23.5.1,d.157.1.3 108893,108894 1qhtA 775 2.46e+00 1tgoA c.55.3.5,e.8.1.1 33722,43011 2abqA 306 2.51e+00 1w77A 228 2.64e+00 1x7yA 400 2.65e+00 1qlpA 394 2.92e+00 1ovaA e.1.1.1 42628 1zrn 232 2.93e+00 1qq5A c.108.1.1 43323 1fiqB 350 3.12e+00 1fiqB d.87.2.1,d.145.1.3 40229,41760 1wleA 501 3.16e+00 1lvwA 295 3.25e+00 c.68.1.6 84723 1m5wA 243 3.78e+00 c.1.24.1 84836 1r9jA 673 3.98e+00 1wa5C 960 3.99e+00 1rcwA 231 4.03e+00 a.132.1.4 97299 1whnA 128 4.07e+00 1g60A 260 4.42e+00 c.66.1.11 70151 2fq3A 104 4.70e+00 1xppA 115 4.91e+00 1u04A 771 5.25e+00 b.34.14.1,c.55.3.10 107539,107540 1hssA 124 5.41e+00 1bea a.52.1.2 17819 1sbzA 197 5.55e+00 1khtA 192 5.74e+00 c.37.1.1 84401 1vpt 348 5.83e+00 3mag c.66.1.25 34207 1a8l 226 6.00e+00 1a8l c.47.1.2,c.47.1.2 32777,32778 1q79A 514 6.11e+00 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 7aatA 401 6.26e+00 1ajsA c.67.1.1 34250 1vj7A 393 6.37e+00 a.211.1.1,d.218.1.8 100801,100802 1o2dA 371 6.49e+00 e.22.1.2 86591 1gdeA 389 6.56e+00 c.67.1.1 60456 1z0xA 220 6.62e+00 2bg5A 324 6.65e+00 1orjA 130 6.84e+00 a.24.19.1 93456 1yzxA 226 6.92e+00 1mugA 168 7.36e+00 1mugA c.18.1.2 31030 1t8kA 77 7.69e+00 a.28.1.1 106666 1khbA 625 7.98e+00 c.91.1.1,c.109.1.1 68606,68607 1mo9A 523 7.99e+00 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1i24A 404 8.01e+00 c.2.1.2 83663 1he1A 135 8.33e+00 1he1A a.24.11.1 16641 1v5iB 76 8.62e+00 2c3nA 247 8.69e+00 2aheA 267 8.93e+00 2d1eA 248 8.94e+00 1ej0A 180 9.01e+00 1ej0A c.66.1.2 34179 1unlD 208 9.13e+00 1jtvA 327 9.16e+00 c.2.1.2 84230 1or4A 178 9.31e+00 a.1.1.2 93447 1vr6A 350 9.52e+00 1hf8A 289 9.71e+00 1hg5A a.7.8.2,a.118.9.3 90354,90355 1idrA 136 9.82e+00 1dlyA a.1.1.1 62301 1zs3A 182 9.87e+00 1vhcA 224 9.88e+00 c.1.10.1 100661 2ga9A 297 9.89e+00 1womA 271 1.05e+01 1ujnA 348 1.10e+01 e.22.1.1 99460 2fqxA 318 1.11e+01 1na3A 91 1.11e+01 k.38.1.1 85481 1gw5S 142 1.13e+01 d.110.4.2 70633 1l5aA 436 1.14e+01 c.43.1.2,c.43.1.2 75923,75924 1gpeA 587 1.18e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1dqpA 230 1.18e+01 1dqnA c.61.1.1 34069 1vzyA 291 1.20e+01 1mkmA 249 1.20e+01 a.4.5.33,d.110.2.2 79242,79243 2d0sA 79 1.21e+01 2fswA 107 1.23e+01 1csn 298 1.24e+01 1csn d.144.1.7 41664 1kjnA 157 1.24e+01 c.115.1.1 72614 1t9hA 307 1.29e+01 1m2dA 110 1.37e+01 c.47.1.11 78476 1d3cA 686 1.39e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1eiwA 111 1.45e+01 1eiwA c.23.3.1 31130 1tn6A 382 1.46e+01 1ckmA 330 1.47e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1kr4A 125 1.49e+01 d.58.5.2 72889 1jh6A 189 1.49e+01 d.61.1.1 66707 1q67A 231 1.50e+01 b.55.1.7 95960 1eqfA 280 1.54e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1fmjA 351 1.54e+01 c.37.1.5 59879 1j27A 102 1.54e+01 d.58.50.1 90778 1xd3A 230 1.61e+01 1evyA 366 1.61e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1yf2A 425 1.63e+01 1rkbA 173 1.63e+01 1uzxA 169 1.68e+01 d.20.1.2 100238 1vf1A 229 1.69e+01 1t0qB 330 1.79e+01 a.25.1.2 106221 2vhbA 146 1.79e+01 2vhbA a.1.1.2 15629 1vflA 356 1.82e+01 1ae9A 179 1.84e+01 1ae9A d.163.1.1 42153 1v77A 212 1.85e+01 c.6.3.2 108402 1no1A 126 1.88e+01 a.179.1.1 85913 1sumB 235 1.89e+01 a.7.12.1 106025 2cq2A 114 1.91e+01 1o1yA 239 1.93e+01 c.23.16.1 86554 2b1eA 564 1.95e+01 1mun 225 1.97e+01 1mun a.96.1.2 18744 1jd1A 129 1.98e+01 1qu9A d.79.1.1 62890 1yd7A 395 1.99e+01 1uluA 261 2.00e+01 1iugA 352 2.02e+01 c.67.1.3 90699 1ls9A 91 2.05e+01 a.3.1.1 78177 1wvqA 167 2.08e+01 1ni4B 341 2.09e+01 c.36.1.7,c.48.1.2 85729,85730 1u6zA 513 2.12e+01 1lj2A 110 2.14e+01 h.1.13.2 73926 1vpqA 273 2.14e+01 1srrA 124 2.17e+01 1dz3A c.23.1.1 31110 1kcmA 270 2.18e+01 d.129.3.4 72300 1uxy 340 2.20e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 1vkuA 100 2.22e+01 a.28.1.1 108690 2ahqA 76 2.24e+01 1musA 477 2.25e+01 c.55.3.4 79494 1uufA 369 2.26e+01 b.35.1.2,c.2.1.1 100006,100007 1hq1A 105 2.26e+01 1dulA a.36.1.1 17120 2f5tX 233 2.29e+01 1o3uA 135 2.32e+01 a.24.16.3 86615 1dqeA 137 2.42e+01 1dqeA a.39.2.1 17388 2ga1A 106 2.44e+01 2bfdA 400 2.49e+01 1xteA 154 2.49e+01 1hw1A 239 2.50e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1t7lA 766 2.54e+01 1mvcA 240 2.55e+01 a.123.1.1 79499 1yemA 179 2.55e+01 1rm6B 324 2.59e+01 1vfrA 218 2.60e+01 1vfrA d.90.1.1 40247 1hrhA 136 2.63e+01 1rthA c.55.3.1 33577 1go3F 107 2.64e+01 a.60.8.2 65407 1b5pA 385 2.64e+01 c.67.1.1 90403 1rkxA 357 2.65e+01 c.2.1.2 97631 2d0tA 406 2.66e+01 2f7tA 227 2.69e+01 1d8wA 426 2.69e+01 1de5A c.1.15.2 29394 2gk4A 232 2.69e+01 1qc7A 101 2.72e+01 1qc7A a.118.14.1 18456 1qrvA 73 2.74e+01 1cktA a.21.1.1 16425 2cxcA 144 2.75e+01 1qusA 322 2.77e+01 1ltm d.2.1.6 36991 1m7kA 99 2.79e+01 a.7.7.1 74573 1qy6A 274 2.79e+01 b.47.1.1 96574 1pu6A 218 2.80e+01 a.96.1.5 95123 1je8A 82 2.80e+01 a.4.6.2 77108 1g8sA 230 2.82e+01 c.66.1.3 90507 1wh5A 80 2.88e+01 1q15A 503 2.89e+01 c.26.2.1,d.153.1.1 95538,95539 1k4mA 213 2.90e+01 c.26.1.3 77258 1q0qA 406 2.93e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1tkiA 321 2.94e+01 1tkiA d.144.1.7 41638 1kshA 186 2.95e+01 c.37.1.8 72914 1ofcX 304 2.95e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2gqrA 237 2.96e+01 1qd9A 124 2.98e+01 1qu9A d.79.1.1 39758 1f5mA 180 2.98e+01 1f5mB d.110.2.1 40895 1y14A 187 3.01e+01 1fr2A 86 3.04e+01 a.28.2.1 83256 1owfB 94 3.07e+01 a.55.1.1 87488 2fnuA 375 3.09e+01 1wzuA 300 3.15e+01 1r7lA 110 3.15e+01 d.277.1.1 104837 1ymiA 334 3.16e+01 1vqoI 162 3.17e+01 1wbeA 209 3.21e+01 1kuuA 202 3.22e+01 d.153.2.1 73019 1oqcA 125 3.24e+01 a.24.15.1 87264 1b9oA 123 3.25e+01 3lzt d.2.1.2 36597 2cbiA 594 3.25e+01 1winA 143 3.27e+01 2cs7A 55 3.31e+01 1j5wA 298 3.32e+01 d.104.1.1 71589 2fokA 579 3.35e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1idk 359 3.37e+01 1qcxA b.80.1.2 28025 1b43A 340 3.40e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1zk8A 183 3.41e+01 1s28A 132 3.41e+01 d.198.1.1 105223 2axpA 173 3.42e+01 1jdlA 121 3.42e+01 a.3.1.1 66557 1vixA 420 3.43e+01 c.56.5.4,d.58.19.1 100777,100778 1whuA 104 3.47e+01 1jkeA 145 3.47e+01 c.110.1.1 66791 1xkpB 124 3.50e+01 1xcrA 316 3.51e+01 1y7yA 74 3.51e+01 1mdc 133 3.53e+01 1hmt b.60.1.2 27198 1pu1A 94 3.58e+01 d.266.1.1 104307 1qahA 136 3.58e+01 d.79.1.1 96338 1vqrA 297 3.59e+01 1hlvA 131 3.60e+01 a.4.1.7,a.4.1.7 65854,65855 1u9lA 70 3.64e+01 a.60.4.2 107751 1b8oA 284 3.66e+01 1b8oA c.56.2.1 33762 2be4A 272 3.72e+01 1l5xA 280 3.73e+01 c.106.1.1 77718 1te2A 226 3.79e+01 c.108.1.6 106792 2ethA 154 3.79e+01 1xxaA 78 3.90e+01 1xxaA d.74.2.1 39700 1v7pC 200 3.98e+01 c.62.1.1 108408 1m12A 84 4.01e+01 a.64.1.1 84745 1gvnA 90 4.02e+01 a.8.2.1 76353 1ga8A 311 4.06e+01 1ga8A c.68.1.4 34516 1hi9A 274 4.07e+01 1hi9A c.99.1.1 61063 2dh4A 340 4.08e+01 1enwA 114 4.09e+01 1enwA a.5.4.1 16291 1xszA 356 4.11e+01 1g3mA 294 4.17e+01 c.37.1.5 83268 1omrA 201 4.23e+01 a.39.1.5 93349 1y8qA 346 4.24e+01 1c75A 71 4.25e+01 451c a.3.1.1 15796 1ghhA 81 4.29e+01 1ghhA d.57.1.1 38940 1b7yB 785 4.31e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1wyuA 438 4.35e+01 1p99A 295 4.38e+01 c.94.1.1 94384 1chuA 540 4.39e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1h5oA 42 4.46e+01 g.9.1.2 83484 1ivnA 190 4.47e+01 c.23.10.5 83719 1mwmA 320 4.48e+01 c.55.1.1,c.55.1.1 79580,79581 1rrmA 386 4.49e+01 e.22.1.2 105081 1gvhA 396 4.53e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 2fgoA 82 4.54e+01 1oeyJ 107 4.62e+01 d.15.2.2 92804 1kyqA 274 4.68e+01 c.2.1.11,e.37.1.1 73281,73282 1vhnA 318 4.71e+01 c.1.4.1 100693 1t94A 459 4.84e+01 d.240.1.1,e.8.1.7 106701,106702 4pgaA 337 4.85e+01 4pgaA c.88.1.1 35565 1aisA 182 4.85e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 2a5yB 549 4.87e+01 1kewA 361 4.88e+01 c.2.1.2 68544 1j7gA 144 4.89e+01 c.110.1.1 84130 1qqfA 277 4.90e+01 1c3d a.102.4.4 18875 1tedA 393 4.97e+01 c.95.1.2 106807 2eutA 294 4.98e+01 1v4pA 157 5.01e+01 1dc1A 323 5.06e+01 1dc1A c.52.1.11 33321 1o4sA 389 5.08e+01 c.67.1.1 86620 1xtyA 120 5.10e+01 2ao9A 155 5.13e+01 1nzjA 298 5.14e+01 c.26.1.1 92377 1p7tA 731 5.14e+01 c.1.13.1 94319 1e8yA 966 5.14e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1s6cA 183 5.16e+01 a.39.1.5 98594 1o5hA 214 5.26e+01 a.191.1.1 92497 1rtu 114 5.26e+01 9rnt d.1.1.4 36139 2b99A 156 5.28e+01 1yyaA 250 5.28e+01 1ss9A 311 5.32e+01 c.68.1.4 105978 1nmeA 146 5.32e+01 c.17.1.1 85874 1qwkA 317 5.32e+01 c.1.7.1 96482 1fus 106 5.35e+01 9rnt d.1.1.4 36050 2c5uA 375 5.41e+01 1l6xA 207 5.49e+01 b.1.1.2,b.1.1.2 73642,73643 1vjxA 157 5.50e+01 a.25.1.1 100837 1rr7A 129 5.55e+01 a.4.1.14 105075 1w41A 101 5.56e+01 1uzeA 589 5.61e+01 d.92.1.5 108174 1zzkA 82 5.62e+01 2ex3B 264 5.64e+01 1nnsA 326 5.65e+01 c.88.1.1 85910 1e2kA 331 5.65e+01 1qhiA c.37.1.1 31854 1t3qC 288 5.68e+01 d.87.2.1,d.145.1.3 106371,106372 1y0uA 96 5.75e+01 1ypfA 336 5.78e+01 1vkwA 218 5.82e+01 d.90.1.2 108695 1qh5A 260 5.83e+01 1qh5A d.157.1.2 42057 1w68A 390 5.86e+01 a.25.1.2 109216 1ornA 226 5.87e+01 a.96.1.1 87342 1ijbA 202 5.90e+01 c.62.1.1 71229 1wcdJ 441 6.02e+01 1u0mA 382 6.12e+01 c.95.1.2,c.95.1.2 107557,107558 1of5A 221 6.12e+01 d.17.4.2 86933 1ttwA 138 6.13e+01 d.198.1.1 107308 2fztA 79 6.22e+01 1kicA 339 6.22e+01 c.70.1.1 72510 2cobA 70 6.29e+01 1pufB 73 6.36e+01 a.4.1.1 95132 1ag9A 175 6.39e+01 1rcf c.23.5.1 31178 2d2eA 250 6.46e+01 1ngnA 155 6.47e+01 a.96.1.2 85697 1v7cA 351 6.49e+01 c.79.1.1 100446 1u67A 600 6.53e+01 a.93.1.2,g.3.11.1 107697,107698 2abwA 227 6.54e+01 1s3cA 141 6.55e+01 1ko6A 187 6.56e+01 b.119.1.1 77471 2erfA 209 6.63e+01 1m1lA 236 6.65e+01 d.260.1.1 91166 1vfjA 116 6.66e+01 1nh1A 330 6.68e+01 e.45.1.1 91871 1wd5A 208 6.70e+01 1h7sA 365 6.75e+01 d.14.1.3,d.122.1.2 65705,65706 1mngA 203 6.75e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1js3A 486 6.76e+01 c.67.1.6 67215 2a61A 145 6.77e+01 1sedA 117 6.80e+01 a.219.1.1 105449 1jmvA 141 6.85e+01 c.26.2.4 66897 1gqvA 135 6.88e+01 d.5.1.1 70376 1xngA 268 6.90e+01 1vggA 161 6.91e+01 2bnlA 136 6.94e+01 1o08A 221 7.02e+01 c.108.1.6 86525 1k3sA 113 7.02e+01 d.198.1.1 68120 1pvtA 238 7.04e+01 c.74.1.1 95189 1q1aA 289 7.10e+01 c.31.1.5 95561 1z6bA 154 7.17e+01 1n3yA 198 7.21e+01 c.62.1.1 79976 1obbA 480 7.22e+01 c.2.1.5,d.162.1.2 86760,86761 1n9lA 109 7.24e+01 d.110.3.6 85468 1gg4A 452 7.25e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1v96A 149 7.26e+01 1t64A 377 7.44e+01 c.42.1.2 106543 1ctf 74 7.45e+01 1ctf d.45.1.1 38759 1zejA 293 7.45e+01 1ly1A 181 7.61e+01 c.37.1.1 74334 1wstA 417 7.63e+01 1wmaA 276 7.72e+01 2f9sA 151 7.75e+01 1puoA 170 7.75e+01 a.101.1.1,a.101.1.1 95134,95135 2fe8A 315 7.85e+01 2fcwA 109 7.85e+01 1z7uA 112 7.88e+01 1exrA 148 7.92e+01 1cll a.39.1.5 17299 1e6yC 247 7.92e+01 1mroC d.58.31.1 39441 1txkA 498 8.00e+01 b.1.18.2,b.30.5.9 107425,107426 1dcfA 136 8.00e+01 1dcfA c.23.1.2 31124 2ezh 75 8.01e+01 2ezh a.4.1.2 16029 1pt6A 213 8.04e+01 c.62.1.1 95091 1z00B 84 8.07e+01 1ssqA 267 8.12e+01 b.81.1.6 105993 1v9vA 114 8.13e+01 1auoA 218 8.14e+01 1auoA c.69.1.14 34716 1cjaA 342 8.18e+01 1cjaA d.144.1.3 41708 1n83A 270 8.21e+01 a.123.1.1 80276 1fpzA 212 8.31e+01 1fpzA c.45.1.1 59976 1qj4A 257 8.36e+01 1qj4A c.69.1.20 34796 1twdA 256 8.43e+01 c.1.30.1 107397 1xv2A 237 8.43e+01 1tljA 213 8.48e+01 d.282.1.1 107126 2c5kT 95 8.51e+01 1r5eA 115 8.52e+01 2gwhA 298 8.52e+01 2g9iA 249 8.53e+01 2fpoA 202 8.56e+01 1ydmA 187 8.58e+01 1q8iA 783 8.60e+01 c.55.3.5,e.8.1.1 96208,96209 1y0kA 209 8.64e+01 2c2qA 199 8.67e+01 1ujcA 161 8.71e+01 1nzyA 269 8.81e+01 1nzyA c.14.1.3 30903 1x8hA 228 8.97e+01