# List of top-scoring protein chains for T0265.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.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 1lj9A 144 1.23e-08 a.4.5.28 78035 1jgsA 138 2.88e-07 a.4.5.28 66683 1lnwA 147 3.19e-07 a.4.5.28 78104 1ku9A 152 4.36e-07 a.4.5.36 77544 1s3jA 155 8.04e-07 a.4.5.28 -227 1q1hA 110 6.29e-06 unknown_sccs -262 1i1gA 141 2.16e-05 a.4.5.32 65982 d.58.4.2 65983 1r1tA 122 1.10e-04 1r22A 122 1.37e-04 1ub9A 100 1.41e-04 a.4.5.28 -231 1ri7A 171 1.70e-04 a.4.5.32 -224 d.58.4.2 -9966 1mkmA 249 1.80e-04 a.4.5.33 79242 d.110.2.2 79243 1r1uA 106 2.25e-04 1hsjA 487 2.32e-04 4mbp a.4.5.28 61237 c.94.1.1 61238 1fzpB 123 3.49e-03 1fznD a.4.5.28 19008 1on1A 142 3.91e-03 a.4.5.24 87099 a.76.1.1 87100 1on2A 142 4.01e-03 a.4.5.24 87103 a.76.1.1 87104 1ft9A 222 5.81e-03 1ft9A a.4.5.4 16107 b.82.3.1 28131 1okrA 123 7.53e-03 unknown_sccs -235 1sd6A 123 7.55e-03 unknown_sccs -237 1p4xA 250 1.04e-02 a.4.5.28 87784 a.4.5.28 87785 1o3sA 200 3.05e-02 a.4.5.4 86609 b.82.3.2 86610 1o5lA 213 3.85e-02 b.82.3.2 -4915 1i6xA 209 4.02e-02 a.4.5.4 83673 b.82.3.2 83674 1hw5A 210 4.05e-02 2cgpA a.4.5.4 16098 b.82.3.2 28137 1i5zA 209 4.05e-02 a.4.5.4 83669 b.82.3.2 83670 1g6nA 210 4.06e-02 2cgpA a.4.5.4 16100 b.82.3.2 28139 1o3tA 200 4.07e-02 a.4.5.4 86611 b.82.3.2 86612 1cgpA 205 4.34e-02 a.4.5.4 16096 b.82.3.2 28135 1bw6A 56 5.39e-02 1bw6A a.4.1.7 16052 1ruoA 209 6.14e-02 2cgpA a.4.5.4 16105 b.82.3.2 28144 1b1bA 140 6.20e-02 1bi0 a.4.5.24 16215 a.76.1.1 18421 1f5tA 121 6.56e-02 1bi0 a.4.5.24 16203 a.76.1.1 18409 1fx7A 230 8.11e-02 1bi0 a.4.5.24 60088 a.76.1.1 60089 b.34.1.2 60090 1je8A 82 1.08e-01 a.4.6.2 77108 1hlvA 131 1.09e-01 a.4.1.7 65854 a.4.1.7 65855 1bia 321 1.20e-01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 6paxA 133 1.22e-01 6paxA a.4.1.5 64758 a.4.1.5 64759 1g3tA 226 1.29e-01 a.4.5.24 65127 a.76.1.1 65128 b.34.1.2 65129 2dtr 226 1.33e-01 1bi0 a.4.5.24 16193 a.76.1.1 18399 b.34.1.2 24450 1p92A 226 1.33e-01 1g3yA 226 1.34e-01 a.4.5.24 65136 a.76.1.1 65137 b.34.1.2 65138 2tdx 226 1.34e-01 1bi0 a.4.5.24 16201 a.76.1.1 18407 1tbxA 99 1.36e-01 1c0wA 225 1.37e-01 1bi0 a.4.5.24 16211 a.76.1.1 18417 b.34.1.2 24455 1k78A 149 1.63e-01 a.4.1.5 68255 a.4.1.5 68256 1s7oA 113 1.64e-01 1fwzA 226 1.69e-01 a.4.5.24 60077 a.76.1.1 60078 b.34.1.2 60079 1e2xA 243 1.82e-01 1e2xA a.4.5.6 16113 a.78.1.1 18443 1hw1A 239 1.82e-01 1e2xA a.4.5.6 16111 a.78.1.1 18441 1j75A 67 2.07e-01 a.4.5.19 62673 1a04A 215 2.20e-01 1a04A a.4.6.2 16234 c.23.1.1 31089 1qgpA 77 2.49e-01 1qbjA a.4.5.19 16158 1lea 84 2.58e-01 1lea a.4.5.2 16085 1j5yA 187 2.60e-01 a.4.5.1 71592 d.94.2.1 71593 1qbjA 81 2.64e-01 1qbjA a.4.5.19 16155 1qzzA 374 3.13e-01 a.4.5.29 -277 c.66.1.12 -8045 1p6rA 82 3.48e-01 unknown_sccs -245 1dpuA 99 4.04e-01 1dpuA a.4.5.16 16150 1jhfA 202 4.14e-01 a.4.5.2 63057 b.87.1.1 63058 1jhhA 202 4.48e-01 a.4.5.2 63060 b.87.1.1 63061 1fseA 74 4.63e-01 1fseA a.4.6.2 60000 1jhgA 101 5.13e-01 1jhgA a.4.12.1 19009 1a6i 217 6.34e-01 2tct a.4.1.9 16066 a.121.1.1 19243 1qpiA 203 6.41e-01 2tct a.4.1.9 16072 a.121.1.1 19249 1bjz 207 6.49e-01 2tct a.4.1.9 16065 a.121.1.1 19242 2tct 207 6.49e-01 2tct a.4.1.9 16063 a.121.1.1 19240 2trt 217 7.06e-01 2tct a.4.1.9 16064 a.121.1.1 19241 1in7A 334 7.45e-01 1hqcA a.4.5.11 62603 c.37.1.20 62604 1in8A 334 7.47e-01 1hqcA a.4.5.11 62605 c.37.1.20 62606 1j7kA 334 7.47e-01 1hqcA a.4.5.11 62695 c.37.1.20 62696 1in4A 334 7.47e-01 1hqcA a.4.5.11 62597 c.37.1.20 62598 1in5A 334 7.47e-01 1hqcA a.4.5.11 62599 c.37.1.20 62600 1in6A 334 7.81e-01 1hqcA a.4.5.11 62601 c.37.1.20 62602 1pdnC 128 8.54e-01 6paxA a.4.1.5 16047 1uthB 315 8.79e-01 1uthA 315 8.79e-01 1utbB 315 8.85e-01 1utbA 315 8.88e-01 1rcsA 105 8.99e-01 1jhgA a.4.12.1 19025 2wrpR 107 9.00e-01 1jhgA a.4.12.1 19010 3wrp 108 9.01e-01 1jhgA a.4.12.1 19015 1troA 108 9.02e-01 1jhgA a.4.12.1 19011 1trrA 107 9.03e-01 1jhgA a.4.12.1 19017 1mzbA 136 1.10e+00 unknown_sccs -266 1oyiA 82 1.23e+00 a.4.5.19 -292 1ixcA 294 1.45e+00 a.4.5.37 83764 c.94.1.1 83765 1bjaA 95 1.52e+00 1bjaA a.4.5.9 16122 1i1sA 96 1.53e+00 1bjaA a.4.5.9 16124 1lvaA 258 1.56e+00 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1vz0A 230 1.85e+00 1g2hA 61 2.04e+00 1g2hA unknown_sccs 60224 1lccA 51 2.06e+00 1pru a.35.1.5 17110 1l1mA 62 2.67e+00 a.35.1.5 73474 1lqc 56 2.71e+00 1pru a.35.1.5 17109 1res 43 2.76e+00 1ret a.4.1.2 16023 1mgtA 174 2.80e+00 1mgtA a.4.2.1 16078 c.55.7.1 33753 1cjgA 62 2.96e+00 1pru a.35.1.5 17112 1whsA 255 3.08e+00 1ivyA c.69.1.5 34649 3sc2A 259 3.09e+00 1ivyA c.69.1.5 34648 1whtA 256 3.10e+00 1ivyA c.69.1.5 34646 1bcsA 263 3.15e+00 1ivyA c.69.1.5 34647 1mj0A 166 3.62e+00 k.37.1.1 79174 1pru 56 3.74e+00 1pru a.35.1.5 17104 1al3 324 4.08e+00 1al3 c.94.1.1 35835 1hqcA 324 4.21e+00 1hqcA a.4.5.11 16127 c.37.1.20 32424 1ldkB 366 4.41e+00 a.4.5.34 73852 e.40.1.1 73853 1l0oC 243 4.58e+00 a.4.13.2 73405 1ua4A 455 4.61e+00 c.72.1.3 -8416 1ixsB 318 5.22e+00 a.4.5.11 76933 c.37.1.20 76934 1ixrC 312 5.52e+00 a.4.5.11 76930 c.37.1.20 76931 1fnnA 389 6.08e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1ofhA 310 6.54e+00 c.37.1.20 86948 1bdg 451 6.55e+00 1qhaA c.55.1.3 33461 c.55.1.3 33462 1uxc 65 6.63e+00 1uxc a.35.1.5 17119 1g41A 444 6.67e+00 1do0A c.37.1.20 32450 1or7A 194 7.47e+00 a.4.13.2 87332 a.177.1.1 87333 1lliA 92 8.10e+00 1lmb3 a.35.1.2 17025 1r7jA 95 8.47e+00 1p4wA 99 8.50e+00 a.4.6.2 87783 1umqA 81 8.56e+00 unknown_sccs -203 1sq8A 64 8.67e+00 1aisB 200 9.19e+00 1aisB a.74.1.2 18384 a.74.1.2 18385 1d3uB 201 9.21e+00 1aisB a.74.1.2 18386 a.74.1.2 18387 1lwuC 323 9.64e+00 d.171.1.1 74312 h.1.8.1 74313 1n73C 330 9.74e+00 d.171.1.1 80217 h.1.8.1 80218 1p85K 136 9.80e+00 i.1.1.1 87880 1b0nA 111 9.81e+00 1b0nA a.34.1.1 17001 a.35.1.3 17064 1do0A 442 1.04e+01 1do0A c.37.1.20 32432 1g4aE 443 1.04e+01 1do0A c.37.1.20 32444 1e94E 449 1.05e+01 1do0A c.37.1.20 32442 1w2wA 211 1.06e+01 1i60A 278 1.07e+01 c.1.15.4 71118 1xxaA 78 1.12e+01 1xxaA d.74.2.1 39700 1bj4A 470 1.15e+01 1bj4A c.67.1.4 34479 1dxrM 323 1.17e+01 6prcM f.26.1.1 43432 1r71A 178 1.21e+01 1ldjA 760 1.21e+01 a.4.5.34 73847 a.118.17.1 73848 e.40.1.1 73849 1mj9A 278 1.35e+01 d.108.1.1 79190 1efaA 333 1.37e+01 1tlfA a.35.1.5 17106 c.93.1.1 35691 1cf7B 95 1.37e+01 1cf7B a.4.5.17 16152 1jyfA 349 1.40e+01 c.93.1.1 67456 1jyeA 349 1.41e+01 c.93.1.1 67455 1ic8A 194 1.42e+01 a.4.1.1 76740 a.35.1.1 76741 1mjaA 278 1.44e+01 d.108.1.1 79191 1nndA 255 1.44e+01 e.8.1.2 -11924 1i6jA 256 1.44e+01 e.8.1.2 61845 1n4lA 255 1.44e+01 e.8.1.2 85323 1qajA 259 1.45e+01 1mml e.8.1.2 43016 1mml 265 1.46e+01 1mml e.8.1.2 43015 1p99A 295 1.49e+01 c.94.1.1 -8697 1j0rA 122 1.49e+01 a.4.5.7 -257 1lbiA 360 1.51e+01 1tlfA c.93.1.1 35694 1bm9A 122 1.51e+01 1bm9A a.4.5.7 16116 1i6uA 130 1.54e+01 d.140.1.1 61850 1ftrA 296 1.65e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1fy7A 278 1.65e+01 1fy7A d.108.1.1 40817 1mjbA 278 1.67e+01 d.108.1.1 79192 1omiA 248 1.76e+01 a.4.5.4 87079 b.82.3.3 87080 1dwkA 156 1.79e+01 1dw9A a.35.1.4 17075 d.72.1.1 39606 1t95A 240 1.82e+01 1b9mA 265 1.83e+01 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1o7lA 262 1.84e+01 a.4.5.8 81147 b.40.6.2 81148 b.40.6.2 81149 1p9qC 256 1.85e+01 1jjoC 261 1.87e+01 1pk0A 507 1.91e+01 e.41.1.1 -11979 1g3qA 237 1.91e+01 1hyqA c.37.1.10 60237 1ky8A 501 1.92e+01 c.82.1.1 77628 1k8tA 510 1.92e+01 e.41.1.1 68316 1ejiA 478 1.98e+01 1bj4A c.67.1.4 34475 1cj0A 470 2.08e+01 1bj4A c.67.1.4 34473 1k0rA 366 2.11e+01 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1ls3A 483 2.16e+01 c.67.1.4 78172 1rvuA 483 2.16e+01 1jj7A 260 2.17e+01 c.37.1.12 63114 1rv3A 483 2.19e+01 3ertA 261 2.21e+01 3erdA a.123.1.1 19292 1l2iA 261 2.23e+01 a.123.1.1 73503 1f2rC 87 2.26e+01 1c9fA d.15.2.1 37640 1a52A 258 2.26e+01 3erdA a.123.1.1 19296 1gdtA 183 2.26e+01 2rslA a.4.1.2 16021 c.53.1.1 33348 1c9fA 90 2.27e+01 1c9fA d.15.2.1 37639 1gwqA 248 2.28e+01 a.123.1.1 76366 1qkuA 250 2.29e+01 3erdA a.123.1.1 19306 1errA 253 2.32e+01 3erdA a.123.1.1 19298 1t56A 216 2.32e+01 1uomA 254 2.35e+01 a.123.1.1 88497 1gjjA 168 2.37e+01 a.140.1.1 83291 a.140.1.1 83292 1g50A 247 2.38e+01 a.123.1.1 65149 1pcgA 244 2.42e+01 a.123.1.1 -1665 1gwrA 245 2.42e+01 a.123.1.1 76368 1qktA 248 2.45e+01 3erdA a.123.1.1 19295 1kftA 78 2.45e+01 a.60.2.3 77375 1qorA 327 2.48e+01 1qorA b.35.1.2 24766 c.2.1.1 29782 1g5gA 481 2.55e+01 f.12.1.1 65155 h.3.2.1 65156 1nqzA 194 2.55e+01 d.113.1.1 86077 1rw3A 455 2.56e+01 1m2zA 257 2.56e+01 a.123.1.1 84768 1jj2O 148 2.58e+01 1ffkM a.94.1.1 63100 1oj7A 408 2.60e+01 1dvkA 173 2.61e+01 1dvkA a.72.1.1 18319 1sj0A 248 2.62e+01 a.123.1.1 -1667 1rp3A 239 2.66e+01 a.4.13.1 -326 a.4.13.2 -334 a.177.1.1 -1490 1h9fA 57 2.68e+01 1h9fA a.140.1.1 60826 1nhzA 280 2.71e+01 a.123.1.1 85727 1h6zA 913 2.84e+01 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1ir1S 123 2.93e+01 d.73.1.1 71290 1oq1A 223 2.95e+01 unknown_sccs -3455 1e19A 314 2.97e+01 1b7bA c.73.1.1 34967 1a06 332 2.99e+01 1tkiA d.144.1.7 41634 1fg7A 356 3.02e+01 1gewA c.67.1.1 59819 1c75A 71 3.03e+01 451c a.3.1.1 15796 8rucI 123 3.06e+01 1rboC d.73.1.1 39629 1fehA 574 3.06e+01 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1squA 155 3.07e+01 unknown_sccs -10229 1jkoC 52 3.12e+01 a.4.1.2 66809 1b6sA 355 3.17e+01 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1b6rA 355 3.18e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1s1iP 142 3.29e+01 1l3lA 234 3.32e+01 a.4.6.2 73541 d.110.5.1 73542 1ri5A 298 3.33e+01 unknown_sccs -8063 1uhnA 189 3.36e+01 a.39.1.5 -853 1m4iA 181 3.37e+01 d.108.1.1 74457 1dwuA 213 3.42e+01 1cjsA e.24.1.1 43355 1a6f 119 3.47e+01 1a6f d.14.1.2 37564 1cjwA 166 3.49e+01 1cjwA d.108.1.1 40818 1dgjA 907 3.49e+01 1alo a.56.1.1 17909 d.15.4.2 37694 d.41.1.1 38585 d.133.1.1 41415 1d4dA 572 3.49e+01 1qjdA a.138.1.3 19702 c.3.1.4 30439 d.168.1.1 42322 1d4cA 572 3.51e+01 1qjdA a.138.1.3 19698 c.3.1.4 30435 d.168.1.1 42318 1b6bA 174 3.59e+01 1cjwA d.108.1.1 40819 2r63 63 3.64e+01 1r69 a.35.1.2 17036 1ichA 112 3.68e+01 a.77.1.2 71182 1du6A 64 3.70e+01 1akhA a.4.1.1 16002 1lmb3 92 3.72e+01 1lmb3 1r63 63 3.74e+01 1r69 a.35.1.2 17035 1ako 268 3.75e+01 1ako d.151.1.1 41779 1q1rA 431 3.76e+01 c.3.1.5 -6048 c.3.1.5 -6049 d.87.1.1 -10502 1o82A 70 3.77e+01 a.64.2.1 -1084 1gm6A 175 3.81e+01 b.60.1.1 70272 1kopA 223 3.83e+01 2cba b.74.1.1 27966 1uok 558 3.83e+01 1uok b.71.1.1 27801 c.1.8.1 28788 1rioA 98 3.87e+01 a.35.1.2 -792 1q06A 135 3.93e+01 a.6.1.3 -375 1dgnA 89 3.94e+01 1dgnA a.77.1.3 18436 1g1xB 88 3.99e+01 1a32 a.16.1.2 16393 1fkaO 89 4.00e+01 i.1.1.3 45858