# List of top-scoring protein chains for T0454.t2k-w0.5 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.soe.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 1vi0A 206 5.48e-22 a.4.1.9,a.121.1.1 100720,100721 1pb6A 212 1.01e-21 a.4.1.9,a.121.1.1 88017,88018 3bcgA 215 3.83e-21 3cdlA 203 2.52e-20 3bruA 222 2.79e-20 2uxuA 210 1.32e-19 2hytA 197 2.67e-19 2ibdA 204 4.69e-19 2i10A 202 8.25e-19 a.4.1.9,a.121.1.1 136960,136961 2id6A 202 1.29e-18 1zkgA 212 1.29e-18 a.4.1.9,a.121.1.1 125194,125195 2iekA 200 1.31e-18 2iaiA 230 1.31e-18 2g7sA 194 1.51e-18 a.4.1.9,a.121.1.1 134737,134738 2f07A 197 4.55e-18 2genA 197 4.92e-18 a.4.1.9,a.121.1.1 135062,135063 2g3bA 208 5.61e-18 a.4.1.9,a.121.1.1 134558,134559 3bhqA 211 1.38e-17 1rktA 205 1.41e-17 a.4.1.9,a.121.1.1 97623,97624 3c07A 273 1.45e-17 2eh3A 179 1.63e-17 2gfnA 209 2.90e-17 a.4.1.9,a.121.1.1 135101,135102 2pbxA 203 2.91e-17 1ui5A 215 2.91e-17 a.4.1.9,a.121.1.1 107856,107857 2fx0A 201 6.25e-17 a.4.1.9,a.121.1.1 134269,134270 2d6yA 202 7.41e-17 a.4.1.9,a.121.1.1 131313,131314 3crjA 199 8.12e-17 2nx4A 194 9.68e-17 3ccyA 203 1.41e-16 2jj7A 186 1.76e-16 2qibA 231 2.30e-16 1sgmA 191 4.33e-16 a.4.1.9,a.121.1.1 105537,105538 2qcoA 210 5.10e-16 2fbqA 235 5.37e-16 a.4.1.9,a.121.1.1 133256,133257 1jt6A 188 6.54e-16 a.4.1.9,a.121.1.1 67247,67248 1rkwA 194 6.82e-16 a.4.1.9,a.121.1.1 104967,104968 1qvtA 194 7.72e-16 a.4.1.9,a.121.1.1 104602,104603 2hyjA 200 9.74e-16 2qtqA 213 9.77e-16 2zcmA 192 1.32e-15 2qwtA 196 1.40e-15 1t56A 216 1.99e-15 a.4.1.9,a.121.1.1 106428,106429 1u9nA 236 2.01e-15 a.4.1.9,a.121.1.1 113246,113247 2zcnA 192 2.13e-15 2q24A 194 2.33e-15 2raeA 207 1.30e-14 3cjdA 198 3.06e-14 2np3A 212 6.19e-14 a.4.1.9,a.121.1.1 138420,138421 2fq4A 192 7.71e-14 a.4.1.9,a.121.1.1 133937,133938 2fd5A 180 8.36e-14 a.4.1.9,a.121.1.1 133291,133292 2guhA 214 8.49e-14 2of7A 260 9.38e-14 2rasA 212 1.09e-13 2np5A 203 1.12e-13 a.4.1.9,a.121.1.1 138424,138425 2pz9A 226 1.45e-13 3c2bA 221 2.86e-13 2rekA 199 3.14e-13 3b81A 203 4.36e-13 2dg8A 193 5.71e-13 3bniA 229 7.12e-13 3bjbA 207 1.37e-12 2oerA 214 2.63e-12 3cwrA 208 3.36e-12 2zb9A 214 4.08e-12 1t33A 224 4.91e-12 a.4.1.9,a.121.1.1 106295,106296 2id3A 225 7.70e-12 a.4.1.9,a.121.1.1 137261,137262 2yvhA 177 1.13e-11 1v7bA 185 1.14e-11 a.4.1.9,a.121.1.1 119861,119862 2dh0A 183 1.14e-11 2yveA 185 1.14e-11 2oi8A 216 3.10e-11 3colA 196 4.50e-11 2hkuA 215 6.29e-11 1zk8A 183 1.32e-10 a.4.1.9,a.121.1.1 125177,125178 2dg7A 195 2.08e-10 2hxiA 241 3.05e-10 2ns7A 208 4.04e-10 2o7oA 207 4.30e-10 a.4.1.9,a.121.1.1 138930,138931 2tctA 207 4.52e-10 a.4.1.9,a.121.1.1 16063,19240 2trtA 217 4.68e-10 a.4.1.9,a.121.1.1 16064,19241 1qpiA 203 5.14e-10 2tct a.4.1.9,a.121.1.1 16072,19249 3bqyA 209 7.67e-10 2qkoA 215 8.01e-10 1z0xA 220 2.03e-09 a.4.1.9,a.121.1.1 124334,124335 2vprA 207 2.38e-09 1a6iA 217 2.71e-09 a.4.1.9,a.121.1.1 16066,19243 2o7tA 199 7.35e-09 2hxoA 237 1.43e-08 2g7lA 243 4.87e-08 a.4.1.9,a.121.1.1 134734,134735 2optA 234 5.67e-07 2g7gA 213 9.56e-07 a.4.1.9,a.121.1.1 134732,134733 2iu5A 195 6.35e-06 2e85A 159 2.37e-02 2i8lA 156 2.39e-02 2pg4A 95 9.67e-01 1pveA 72 1.69e+00 a.189.1.1 104322 1du6A 64 2.20e+00 1akhA a.4.1.1 16002 1pufB 73 2.35e+00 a.4.1.1 95132 2o5hA 136 2.41e+00 1b72B 87 2.50e+00 1akhA a.4.1.1 16001 1kftA 78 2.70e+00 a.60.2.3 77375 1b8iB 63 3.63e+00 1akhA a.4.1.1 16011 1pruA 56 3.83e+00 a.35.1.5 17104 2douA 376 4.23e+00 1lfuP 82 5.04e+00 a.4.1.1 77939 1qruA 553 5.34e+00 1gtrA b.53.1.2,c.26.1.1 26946,31585 3ctpA 330 5.50e+00 1nylA 539 5.52e+00 b.53.1.2,c.26.1.1 80741,80742 1euyA 548 5.62e+00 1gtrA b.53.1.2,c.26.1.1 26945,31584 1qrtA 553 5.63e+00 1gtrA b.53.1.2,c.26.1.1 26943,31582 1qtqA 553 5.64e+00 1gtrA b.53.1.2,c.26.1.1 26940,31579 1qrsA 553 5.65e+00 1gtrA b.53.1.2,c.26.1.1 26941,31580 1o0cA 554 5.65e+00 b.53.1.2,c.26.1.1 86529,86530 1mhyD 521 5.70e+00 1mhyD a.25.1.2 16780 2rd2A 556 5.74e+00 1uxcA 65 8.17e+00 a.35.1.5 17119 2q15A 385 8.39e+00 2q11A 388 8.44e+00 2vijA 392 8.45e+00 1s7oA 113 8.48e+00 a.4.13.3 105354 2r6gF 514 9.34e+00 2fdpA 388 1.02e+01 b.50.1.2 133316 2g94A 389 1.02e+01 b.50.1.2 134790 1fknA 391 1.03e+01 1fknA b.50.1.2 26879 2qp8A 395 1.03e+01 2iqgA 406 1.05e+01 b.50.1.2 137588 1hlvA 131 1.05e+01 a.4.1.7,a.4.1.7 65854,65855 3buhA 409 1.06e+01 1ym2A 402 1.06e+01 b.50.1.2 123679 2ohqA 402 1.06e+01 b.50.1.2 139075 1ym4A 408 1.07e+01 b.50.1.2 123682 2ph8A 405 1.07e+01 2zhvA 411 1.07e+01 1w50A 411 1.08e+01 b.50.1.2 109173 3ckpA 412 1.08e+01 2qzlA 411 1.10e+01 1h3fA 432 1.19e+01 c.26.1.1,d.66.1.4 76631,76632 1zcjA 463 1.26e+01 1gwcA 230 1.32e+01 a.45.1.1,c.47.1.5 70660,70661 2j48A 119 1.61e+01 2qsjA 154 1.61e+01 2awcA 130 1.65e+01 2va7A 455 1.70e+01 3fruA 269 1.76e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 2p83A 455 1.76e+01 b.50.1.2 139519 2i2xB 258 1.82e+01 3bj6A 152 1.83e+01 2ekcA 262 1.93e+01 1dk7A 146 1.96e+01 1derA c.8.5.1 30772 1fqfA 331 1.98e+01 1nnt c.94.1.2 59989 2avkA 136 1.98e+01 2bjcA 62 1.99e+01 a.35.1.5 128620 1jonA 155 2.12e+01 c.8.5.1 30780 2e60A 101 2.21e+01 1htbA 374 2.29e+01 2ohxA b.35.1.2,c.2.1.1 24715,29731 1u3uA 374 2.30e+01 b.35.1.2,c.2.1.1 113005,113006 1hdyA 374 2.31e+01 2ohxA b.35.1.2,c.2.1.1 24723,29739 1hdzA 374 2.31e+01 2ohxA b.35.1.2,c.2.1.1 24725,29741 1mk3A 178 2.44e+01 f.1.4.1 84978 2iqcA 210 2.61e+01 1c7dA 284 2.70e+01 1abwA a.1.1.2,a.1.1.2 15278,15279 3b7hA 78 2.78e+01 1sjyA 159 2.89e+01 d.113.1.1 98900 2jn6A 97 2.92e+01 1ss8A 524 3.04e+01 1sx3A 525 3.04e+01 1svtA 524 3.05e+01 1j4zA 547 3.06e+01 a.129.1.1,c.8.5.1,d.56.1.1 90838,90839,90840 1kp8A 547 3.09e+01 a.129.1.1,c.8.5.1,d.56.1.1 84414,84415,84416 1la1A 192 3.13e+01 c.8.5.1 73772 2eu1A 548 3.13e+01 1kidA 203 3.15e+01 c.8.5.1 30771 1gr5A 547 3.23e+01 i.16.1.1 65478 1xckA 547 3.23e+01 2dzdA 461 3.30e+01 2qulA 290 3.55e+01 1b0nA 111 3.55e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 2g2bA 150 3.71e+01 2a6hF 423 3.76e+01 a.4.13.1,a.4.13.2,a.177.1.1 126267,126268,126269 1oqhA 337 3.85e+01 c.94.1.2 87305 1t9mA 214 3.85e+01 b.45.1.1 112364 1d4nA 329 3.89e+01 1nnt c.94.1.2 35891 1sq6A 253 3.93e+01 c.56.2.1 98964 1deqA 390 3.93e+01 i.9.1.1 45987 2d4pA 141 3.98e+01 1oqgA 337 3.99e+01 c.94.1.2 87304 1o0lA 188 4.01e+01 f.1.4.1 86534 1bp5A 337 4.02e+01 1cb6A c.94.1.2 35892 1lccA 51 4.07e+01 1pru a.35.1.5 17110 2o84X 337 4.07e+01 2bsxA 253 4.09e+01 c.56.2.1 129128 1n7xA 331 4.14e+01 c.94.1.2 85379 1b3eA 330 4.15e+01 1nnt c.94.1.2 35897 1a8eA 329 4.23e+01 c.94.1.2 35888 1n84A 331 4.25e+01 c.94.1.2 85389 2i5wA 315 4.27e+01 a.96.1.3,d.129.1.2 137069,137070 2g2cA 167 4.28e+01 c.57.1.1 134535 2d4oA 141 4.28e+01 1q1gA 276 4.29e+01 c.56.2.1 95574 2uygA 149 4.31e+01 1jqfA 334 4.31e+01 c.94.1.2 67086 2f4mB 61 4.39e+01 a.189.1.1 132931 1n7wA 331 4.39e+01 c.94.1.2 85378 1d3kA 329 4.42e+01 1nnt c.94.1.2 35889 1yqkA 319 4.49e+01 a.96.1.3,d.129.1.2 123889,123890 1ryoA 327 4.52e+01 c.94.1.2 98108 1yqrA 319 4.53e+01 a.96.1.3,d.129.1.2 123897,123898 2nobA 325 4.58e+01 a.96.1.3,d.129.1.2 138403,138404 2noiA 325 4.60e+01 1tljA 213 4.63e+01 d.282.1.1 107126 2nofA 325 4.68e+01 a.96.1.3,d.129.1.2 138407,138408 1fyaA 193 4.72e+01 1derA c.8.5.1 30774 1dtgA 334 4.73e+01 1nnt c.94.1.2 35896 1fqeA 331 4.84e+01 1nnt c.94.1.2 59988 2e0zA 345 4.84e+01 2q4cA 317 4.86e+01 a.65.1.1 139843 1fy9A 193 4.89e+01 1derA c.8.5.1 30779 2yyvA 227 4.90e+01 1lqcA 56 5.06e+01 a.35.1.5 17109 2nvpA 435 5.16e+01 1iomA 377 5.19e+01 a.103.1.1 83698 2nwuA 155 5.19e+01 1vkzA 412 5.26e+01 b.84.2.1,c.30.1.1,d.142.1.2 108698,108699,108700 1bgeA 175 5.34e+01 1bgc a.26.1.1 16823 1jkoC 52 5.35e+01 a.4.1.2 66809 2jt1A 77 5.39e+01 1vc4A 254 5.50e+01 c.1.2.4 100557 1r8dA 109 5.69e+01 a.6.1.3 104841 1ku9A 152 5.70e+01 a.4.5.36 77544 1grlA 548 5.71e+01 a.129.1.1,c.8.5.1,d.56.1.1 19487,30816,38935 2r0rA 85 5.73e+01 2fncA 381 5.75e+01 1oelA 547 6.07e+01 1derA a.129.1.1,c.8.5.1,d.56.1.1 19452,30781,38900 1bf2A 750 6.21e+01 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 3begA 381 6.37e+01 1cjgA 62 6.54e+01 1pru a.35.1.5 17112 1l1mA 62 6.55e+01 a.35.1.5 73474 2d1sA 548 6.57e+01 2iecA 131 6.59e+01 d.316.1.1 137300 2d1tA 548 6.60e+01 2czdA 208 6.73e+01 c.1.2.3 131045 1mkmA 249 6.78e+01 a.4.5.33,d.110.2.2 79242,79243 2o7uA 337 6.80e+01 7aatA 401 6.88e+01 1ajsA c.67.1.1 34250 1akaA 401 6.97e+01 1ajsA c.67.1.1 34258 1wakA 397 7.02e+01 1ma1A 205 7.12e+01 a.2.11.1,d.44.1.1 74609,74610 1ulyA 192 7.16e+01 a.4.5.58 113297 1zt2A 330 7.25e+01 d.264.1.1 125624 1y10A 407 7.25e+01 2qocA 344 7.40e+01 2qolA 373 7.41e+01 2qo9A 373 7.44e+01 1ae7A 119 7.45e+01 a.133.1.2 19553 2qodA 373 7.46e+01 2qofA 373 7.47e+01 2qoiA 373 7.48e+01 3sc2B 152 7.48e+01 1whtB 1w4xA 542 7.58e+01 c.3.1.5,c.3.1.5 109171,109172 2qokA 373 7.63e+01 1whsB 153 7.63e+01 1whtB 2jpiA 118 7.70e+01 3cinA 394 7.77e+01 1jnfA 676 7.78e+01 1cb6A c.94.1.2,c.94.1.2 63196,63197 1jcmP 259 7.87e+01 c.1.2.4 71633 1bcsB 160 7.88e+01 1whtB