# List of top-scoring protein chains for t04-100-30-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 2cyeA 133 4.53e-12 1s5uA 138 8.31e-12 d.38.1.1 98573 1njkA 156 3.68e-11 d.38.1.1 85818 1z54A 132 3.92e-11 2av9A 147 1.59e-10 2aliA 158 6.44e-10 2gf6A 135 9.41e-10 1yliA 153 2.93e-09 1vpmA 169 4.43e-09 1lo7A 141 6.05e-09 d.38.1.1 74144 1bvqA 141 6.42e-09 1bvqA d.38.1.1 38542 2essA 248 1.51e-07 2gvhA 288 4.38e-07 2h4uA 145 2.81e-06 1u1zA 168 2.99e-05 d.38.1.6 107602 1j1yA 136 3.74e-05 d.38.1.5 90776 1wluA 136 4.58e-05 2fs2A 151 7.23e-05 1psuA 140 7.72e-05 d.38.1.5 88285 1zkiA 133 8.19e-05 1ixlA 131 1.74e-04 d.38.1.5 90717 2b3nA 159 2.82e-04 2b6eA 146 3.92e-04 1o0iA 138 4.22e-04 d.38.1.5 86532 1iq6A 134 1.69e-03 d.38.1.4 76755 2cwzA 141 3.38e-03 1z6bA 154 3.39e-03 1q4uA 151 3.96e-03 d.38.1.5 95828 1c8uA 285 4.06e-03 1c8uA d.38.1.3,d.38.1.3 38547,38548 1vh5A 148 6.85e-03 d.38.1.5 100642 1t82A 155 9.68e-03 d.38.1.5 106639 1sh8A 154 8.26e-02 d.38.1.5 105549 1yocA 147 2.28e-01 1tbuA 118 3.37e-01 2bi0A 337 5.88e-01 1zxkA 98 1.39e+00 1f8rA 498 2.57e+00 1f8rA c.3.1.2,d.16.1.5 30410,37974 1vjzA 341 3.08e+00 c.1.8.3 100838 1pn2A 280 3.13e+00 d.38.1.4,d.38.1.4 94930,94931 1jeoA 180 3.42e+00 c.80.1.3 66611 1zxfA 155 3.53e+00 1f3mA 80 3.68e+00 1f3mA j.66.1.1 46358 1m3sA 186 3.93e+00 c.80.1.3 78573 1j5uA 136 5.35e+00 d.208.1.1 71584 2bm3A 166 5.61e+00 1ieaA 192 6.15e+00 1iakA b.1.1.2,d.19.1.1 21631,38205 2b59A 187 6.46e+00 1mxmA 254 6.84e+00 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1e8yA 966 8.23e+00 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1u7kA 131 8.43e+00 1fm0D 81 8.73e+00 1fmaD d.15.3.1 37642 1spgB 147 9.00e+00 1cg5B a.1.1.2 15588 1z2iA 358 1.07e+01 1aihA 170 1.16e+01 1aihA d.163.1.1 42149 2arsA 262 1.22e+01 1te5A 257 1.31e+01 d.153.1.1 106795 1txqA 93 1.37e+01 1k77A 260 1.44e+01 c.1.15.5 72096 1hbq 183 1.49e+01 1aqb b.60.1.1 27078 1w66A 232 1.51e+01 2ap1A 327 1.56e+01 1e3aA 260 1.66e+01 1ajqA d.153.1.2 41838 1aqb 183 1.66e+01 1aqb b.60.1.1 27084 2bnkA 67 1.79e+01 1vcaA 202 1.89e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1hjxA 362 1.90e+01 c.1.8.5,d.26.3.1 83512,83513 1ox0A 430 1.90e+01 c.95.1.1,c.95.1.1 87495,87496 1kt6A 183 1.94e+01 b.60.1.1 84466 1d3yA 301 1.98e+01 1d3yA e.12.1.1 43252 1jhfA 202 2.09e+01 a.4.5.2,b.87.1.1 63057,63058 1zvnA 99 2.09e+01 2ffjA 300 2.11e+01 1oe4A 247 2.16e+01 c.18.1.3 86895 1hr0W 71 2.23e+01 1ah9 b.40.4.5 25329 2a72A 146 2.28e+01 2c8mA 262 2.29e+01 2fi9A 128 2.30e+01 2b7uA 257 2.33e+01 8fabA 212 2.33e+01 8fabA b.1.1.1,b.1.1.2 19772,20882 2c5rA 67 2.33e+01 1ug3A 339 2.38e+01 1u8fO 335 2.39e+01 1iqzA 81 2.43e+01 d.58.1.4 66281 1tyjA 170 2.47e+01 1nnxA 109 2.51e+01 b.40.10.1 92013 2f4lA 297 2.53e+01 1n9lA 109 2.57e+01 d.110.3.6 85468 1owqA 361 2.60e+01 c.1.8.5,d.26.3.1 104041,104042 1yoeA 322 2.64e+01 2as0A 396 2.66e+01 1q8rA 120 2.69e+01 d.79.6.1 96225 1vkkA 154 2.74e+01 d.109.1.2 108669 1cwvA 492 2.84e+01 1cwvA b.1.14.1,b.1.14.1,b.1.14.1,b.1.14.1,d.169.1.3 22373,22374,22375,22376,42442 1gkzA 388 2.88e+01 a.29.5.1,d.122.1.4 65268,65269 1nlbH 218 2.95e+01 b.1.1.1,b.1.1.2 80621,80622 1xn8A 131 2.97e+01 1jbeA 128 3.00e+01 3chy c.23.1.1 62845 1se8A 301 3.02e+01 b.40.4.3 105448 1exrA 148 3.05e+01 1cll a.39.1.5 17299 1reoA 486 3.06e+01 c.3.1.2,d.16.1.5 97325,97326 1g87A 614 3.10e+01 a.102.1.2,b.2.2.2 83275,83276 1v93A 296 3.23e+01 c.1.23.1 100532 1pp7U 131 3.23e+01 a.4.5.44 94973 2c5uA 375 3.29e+01 1ztsA 139 3.31e+01 1oglA 283 3.35e+01 a.204.1.1 92922 1mo7A 213 3.36e+01 d.220.1.1 85028 1xyiA 66 3.41e+01 1su4A 994 3.42e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1vr5A 547 3.43e+01 1akhA 61 3.43e+01 1akhA a.4.1.1 15980 2f42A 179 3.43e+01 1azpA 66 3.45e+01 1azpA b.34.13.1 37467 1aohA 147 3.45e+01 1aohA b.2.2.2 22401 1zmdA 474 3.45e+01 1z2lA 423 3.50e+01 3chy 128 3.67e+01 3chy c.23.1.1 31038 2cu3A 64 3.73e+01 1q3iA 214 3.78e+01 d.220.1.1 104524 1n0wB 35 3.87e+01 j.97.1.1 79773 1xx6A 191 3.89e+01 1ospL 214 3.91e+01 32c2A b.1.1.1,b.1.1.2 20116,21146 1b8aA 438 3.94e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 2db9A 149 4.00e+01 1v8gA 329 4.00e+01 a.46.2.1,c.27.1.1 100505,100506 1s9aA 257 4.02e+01 b.3.6.1 105379 1uebA 184 4.07e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1gk9A 260 4.13e+01 d.153.1.2 65246 2g1lA 104 4.14e+01 1jkoC 52 4.15e+01 a.4.1.2 66809 1e2wA 251 4.21e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 1s4kA 120 4.22e+01 a.35.1.6 105254 2rhe 114 4.23e+01 8fabA b.1.1.1 20523 2a38A 194 4.26e+01 1pkp 150 4.29e+01 1pkp d.14.1.1,d.50.1.2 37551,38787 1cmcA 104 4.30e+01 1cmbA a.43.1.5 17462 1mjuL 219 4.30e+01 b.1.1.1,b.1.1.2 91304,91305 2aw4P 114 4.31e+01 1smoA 119 4.38e+01 b.1.1.1 105764 2h3jA 75 4.39e+01 1cmbA 104 4.43e+01 1cmbA a.43.1.5 17460 1l5pA 93 4.44e+01 d.15.4.1 73598 1a6wH 120 4.51e+01 1mfa b.1.1.1 20253 1tf4A 605 4.61e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1oahA 519 4.61e+01 a.138.1.3 86736 2aabL 218 4.61e+01 1octC 156 4.62e+01 1au7A a.4.1.1,a.35.1.1 15991,17017 1ww7A 160 4.63e+01 1eulA 994 4.66e+01 1eulA 1w9yA 319 4.80e+01 1a7qL 106 4.82e+01 8fabA b.1.1.1 19954 1mkeA 152 4.85e+01 b.55.1.4 79231 1i1jA 108 4.87e+01 1i1jA b.34.2.1 61531 1ig5A 75 4.92e+01 4icb a.39.1.1 62363 1vj1A 363 4.92e+01 b.35.1.2,c.2.1.1 100794,100795 1hq1A 105 4.94e+01 1dulA a.36.1.1 17120 1v64A 108 4.96e+01 a.21.1.1 108392 1nszA 347 4.99e+01 b.30.5.4 80724 1myn 44 5.08e+01 1gpt g.3.7.4 44172 2ct9A 208 5.11e+01 1oaqH 121 5.11e+01 b.1.1.1 92707 1ywsA 82 5.12e+01 1aj8A 371 5.14e+01 1aj8A a.103.1.1 18900 1iz6A 138 5.17e+01 b.34.5.2,b.40.4.5 76976,76977 1s7iA 124 5.21e+01 d.58.4.9 105353 1rec 201 5.22e+01 1rec a.39.1.5 17326 1uzxA 169 5.29e+01 d.20.1.2 100238 1e3oC 160 5.33e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 6paxA 133 5.38e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1omrA 201 5.39e+01 a.39.1.5 93349 1vg8A 207 5.40e+01 c.37.1.8 108606 2a3qA 170 5.41e+01 1je6A 275 5.45e+01 b.1.1.2,d.19.1.1 71638,71639 1s69A 124 5.47e+01 a.1.1.1 105305 1dzkA 157 5.48e+01 1obpA b.60.1.1 27096 1k78A 149 5.57e+01 a.4.1.5,a.4.1.5 68255,68256 1rz1A 161 5.57e+01 b.45.1.2 98124 1gmlA 178 5.66e+01 c.8.5.2 70273 2aioA 269 5.79e+01 2bdvA 231 5.80e+01 1yruB 74 5.83e+01 1paz 123 5.90e+01 1bqk b.6.1.1 22878 2booA 247 5.92e+01 1yopA 83 5.95e+01 1tuoA 464 6.08e+01 1txyA 104 6.14e+01 1f6fB 210 6.17e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 1zw8A 64 6.19e+01 1bwwA 109 6.23e+01 8fabA b.1.1.1 20518 1q7lA 198 6.24e+01 c.56.5.4 96044 1js8A 394 6.28e+01 a.86.1.1,b.112.1.1 67219,67220 1widA 130 6.32e+01 1n3jA 119 6.36e+01 b.85.7.2 79963 1rzfL 213 6.36e+01 b.1.1.1,b.1.1.2 98152,98153 1y8aA 332 6.42e+01 2as9A 210 6.48e+01 2bhoA 130 6.50e+01 1aquA 297 6.53e+01 1aquA c.37.1.5 31942 2cwaA 263 6.56e+01 1tqyA 424 6.59e+01 c.95.1.1,c.95.1.1 107245,107246 1wwuA 99 6.61e+01 2bsjA 133 6.65e+01 1v1qA 134 6.83e+01 1p6pA 125 6.90e+01 b.60.1.2 87839 2cwpA 112 7.02e+01 1nkqA 259 7.07e+01 d.177.1.1 103862 1bjmA 216 7.08e+01 8fabA b.1.1.1,b.1.1.2 20524,21460 1wocA 103 7.13e+01 1ymmA 191 7.14e+01 1v6tA 255 7.24e+01 1mqkL 120 7.39e+01 b.1.1.1 85054 1neu 124 7.40e+01 1neu b.1.1.1 19704 1y6hA 177 7.45e+01 1e19A 314 7.47e+01 1b7bA c.73.1.1 34967 1wf3A 301 7.49e+01 1opy 131 7.49e+01 1opy d.17.4.3 38113 1r6lA 239 7.52e+01 d.14.1.4,d.101.1.1 97153,97154 2azqA 311 7.66e+01 1lm6A 215 7.81e+01 d.167.1.1 84628 1mc0A 368 7.83e+01 d.110.2.1,d.110.2.1 78937,78938 1bsmA 201 7.83e+01 1avmA a.2.11.1,d.44.1.1 15780,38743 1ktjA 129 7.96e+01 b.1.18.7 72974 1zanL 214 7.96e+01 1forL 210 7.99e+01 8fabA b.1.1.1,b.1.1.2 19988,21044 1avmA 201 8.00e+01 1avmA a.2.11.1,d.44.1.1 15782,38745 1n8vA 112 8.02e+01 a.118.21.1 85457 1hcrA 52 8.02e+01 1hcrA a.4.1.2 16020 1n4xH 120 8.04e+01 b.1.1.1 85324 1dmmA 131 8.05e+01 1opy d.17.4.3 38114 1g7jA 107 8.05e+01 32c2A b.1.1.1 19932 1j6oA 268 8.15e+01 c.1.9.12 77088 4icb 76 8.17e+01 4icb a.39.1.1 17145 1ka2A 499 8.19e+01 d.92.1.5 77305 1wdeA 294 8.24e+01 1uxzA 131 8.24e+01 b.18.1.10 100170 1z5bA 469 8.25e+01 1dmhA 311 8.42e+01 1dmhA b.3.6.1 22633 1a2yA 107 8.43e+01 8fabA b.1.1.1 19926 2aieP 203 8.47e+01 2cpgA 45 8.48e+01 2cpgA a.43.1.3 17455 1knwA 425 8.48e+01 b.49.2.3,c.1.6.1 90969,90970 1gxrA 337 8.50e+01 b.69.4.1 70722 1xo8A 151 8.51e+01 1j09A 468 8.58e+01 a.97.1.1,c.26.1.1 77025,77026 1d0yA 761 8.61e+01 1lvk b.34.3.1,c.37.1.9 24581,32178 1s7jA 262 8.61e+01 d.21.1.2 98647 2gtqA 867 8.62e+01 2fd5A 180 8.62e+01 1smlA 269 8.63e+01 1smlA d.157.1.1 42053 2bkdN 134 8.64e+01 1jyaA 130 8.65e+01 d.198.1.1 67453 1gu7A 364 8.71e+01 b.35.1.2,c.2.1.1 83321,83322 1luzA 88 8.72e+01 b.40.4.5 74271 1kshB 152 8.72e+01 b.1.18.8 72915 1t4wA 196 8.97e+01 b.2.5.2 106427 2f3yA 148 8.98e+01 2ftrA 108 8.98e+01