# List of top-scoring protein chains for t2k-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 1bfeA 119 4.49e-15 1pdr b.36.1.1 24775 2fe5A 94 5.08e-15 2fcfA 103 8.85e-15 1tp5A 119 8.97e-15 1be9A 119 9.17e-15 1pdr b.36.1.1 24774 1qavA 90 1.24e-14 1qauA b.36.1.1 24777 1g9oA 91 1.79e-14 1pdr b.36.1.1 60400 1i92A 91 2.22e-14 1pdr b.36.1.1 61990 1pdr 99 2.49e-14 1pdr b.36.1.1 24771 1n7eA 97 4.70e-14 b.36.1.1 91691 1n7fA 97 5.69e-14 b.36.1.1 91692 1ihjA 98 9.25e-14 1pdr b.36.1.1 62382 1l6oA 95 1.05e-12 b.36.1.1 84534 2f0aA 98 1.15e-12 1q3oA 109 1.56e-12 b.36.1.1 95700 1qauA 112 2.01e-12 1qauA b.36.1.1 24779 1qavB 115 2.18e-12 1qauA b.36.1.1 24780 1mfgA 95 2.63e-12 b.36.1.1 79043 1kwaA 88 2.73e-12 1kwaA b.36.1.1 24772 1wf7A 103 3.42e-12 1b8qA 127 3.84e-12 1qauA b.36.1.1 24781 1v5lA 103 4.49e-12 b.36.1.1 108378 1kwaB 88 6.42e-12 1kwaA b.36.1.1 24773 1nf3C 128 9.59e-12 b.36.1.1 85596 1i16 130 2.69e-11 1i16 b.36.1.2 24787 1n99A 166 8.87e-11 b.36.1.1,b.36.1.1 85459,85460 2f5yA 91 9.60e-11 1m5zA 91 3.07e-10 b.36.1.1 78676 1r6jA 82 8.35e-10 b.36.1.1 97151 1nteA 82 1.12e-09 b.36.1.1 86163 1fc6A 388 6.40e-08 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 7.14e-06 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 1.91e-05 1ky9B 448 3.49e-05 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 1ky9A 448 6.11e-05 b.36.1.4,b.47.1.1 73198,73199 1sotA 320 2.17e-04 b.36.1.4,b.47.1.1 105852,105853 1y8tA 324 5.85e-03 1fm0E 150 5.29e-01 1fmaE d.41.5.1 38629 1fmaE 150 5.82e-01 1fmaE d.41.5.1 38630 1db3A 372 8.60e-01 1db3A c.2.1.2 29813 1gph1 465 9.95e-01 1ecfB 1ao0A 459 1.56e+00 1ecfB c.61.1.1,d.153.1.1 34049,41816 2bh4X 134 1.56e+00 2a6tA 271 1.95e+00 1diiC 80 1.96e+00 1diiC a.3.1.1 15925 7reqB 637 2.13e+00 1reqB c.1.19.1,c.23.6.1 29617,31244 1a6f 119 2.18e+00 1a6f d.14.1.2 37564 1reqB 637 2.45e+00 1reqB c.1.19.1,c.23.6.1 29621,31248 1wveC 80 2.48e+00 1cis 66 2.62e+00 2sniI k.1.1.1 46375 1reqD 637 2.71e+00 1reqB c.1.19.1,c.23.6.1 29623,31250 2d4pA 141 2.76e+00 1cot 129 2.93e+00 1ycc a.3.1.1 15899 1p99A 295 3.31e+00 c.94.1.1 94384 1lw6I 64 3.47e+00 d.40.1.1 74294 1t6t1 118 4.37e+00 1coaI 64 5.22e+00 2sniI d.40.1.1 38574 2sniI 83 5.39e+00 2sniI d.40.1.1 38573 1to2I 64 5.44e+00 1zn8A 180 5.63e+00 1oroA 213 5.75e+00 1opr c.61.1.1 34093 1d6tA 117 5.84e+00 1a6f d.14.1.2 37565 1vpqA 273 6.76e+00 1dxrH 258 7.60e+00 6prcH b.41.1.1,f.23.10.1 25456,43433 1jjtA 228 7.92e+00 1a7tA d.157.1.1 63139 1kw4A 89 7.92e+00 a.60.1.2 73077 6prcH 258 8.28e+00 6prcH b.41.1.1,f.23.10.1 25457,43436 1l3iA 192 8.32e+00 c.66.1.22 77676 1axiA 191 8.64e+00 1huw a.26.1.1 16832 1prcH 259 8.65e+00 6prcH b.41.1.1,f.23.10.1 25460,43445 1xewY 172 8.83e+00 1hkvA 453 9.51e+00 b.49.2.3,c.1.6.1 83559,83560 1a22A 180 1.01e+01 1huw a.26.1.1 16833 1ot1A 686 1.07e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87392,87393,87394,87395 1oxxK 353 1.15e+01 b.40.6.3,c.37.1.12 93715,93716 155c 135 1.21e+01 1ycc a.3.1.1 15900 1opr 213 1.23e+01 1opr c.61.1.1 34091 2bw3A 534 1.34e+01 1rz2A 254 1.35e+01 b.100.1.1 105130 1xv5A 401 1.39e+01 1koe 172 1.63e+01 1koe d.169.1.5 42448 1cq3A 233 1.63e+01 1cq3A b.27.1.1 23923 1sw5A 275 1.66e+01 c.94.1.1 106069 1uc2A 481 1.68e+01 d.261.1.1 99161 1oxsC 353 1.68e+01 b.40.6.3,c.37.1.12 87519,87520 1kk1A 410 1.73e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1sw5B 275 1.74e+01 c.94.1.1 106070 1ujqA 305 1.75e+01 c.1.12.7 99463 1l1dA 152 1.81e+01 b.88.1.3 73452 1r62A 160 1.97e+01 d.122.1.3 104816 1yjmA 110 1.97e+01 1r13A 148 2.05e+01 d.169.1.1,h.1.1.1 96782,96783 1x6vA 630 2.07e+01 1shwA 138 2.13e+01 b.6.1.5 105562 1usyA 275 2.17e+01 1bx4A 345 2.17e+01 1bx4A c.72.1.1 34935 1t3qB 788 2.18e+01 d.41.1.1,d.133.1.1 106369,106370 1hssA 124 2.24e+01 1bea a.52.1.2 17819 1bxeA 113 2.25e+01 1bxeA d.55.1.1 38898 1lh0A 213 2.26e+01 c.61.1.1 73896 1yg9A 330 2.29e+01 1viuA 203 2.32e+01 d.113.1.1 100771 1shxA 138 2.33e+01 1h05A 146 2.37e+01 c.23.13.1 76433 1js8A 394 2.48e+01 a.86.1.1,b.112.1.1 67219,67220 3tmkA 216 2.51e+01 3tmkA c.37.1.1 31920 1i4jA 110 2.53e+01 d.55.1.1 76734 1or7A 194 2.58e+01 a.4.13.2,a.177.1.1 87332,87333 1cxlA 686 2.58e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21829,22498,27736,28723 2cc0A 195 2.62e+01 1nmeA 146 2.75e+01 c.17.1.1 85874 2brfA 110 2.77e+01 1qo0D 196 2.77e+01 1qo0D c.23.1.3 31125 2c9wA 169 2.81e+01 1zhvA 134 2.98e+01 1ypcI 64 3.05e+01 2sniI d.40.1.1 38570 2f7fA 494 3.08e+01 1ciqA 40 3.15e+01 2sniI d.40.1.1 38576 1k4iA 233 3.15e+01 d.115.1.2 72056 1vekA 84 3.17e+01 1h6kA 757 3.29e+01 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 1al6 437 3.29e+01 1csh a.103.1.1 18885 1k4mA 213 3.31e+01 c.26.1.3 77258 1jjeA 222 3.34e+01 1a7tA d.157.1.1 63117 1z3eB 73 3.38e+01 1p1jA 533 3.38e+01 c.2.1.3,d.81.1.3 87687,87688 1d3cA 686 3.52e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1vlaA 150 3.68e+01 d.227.1.2 108735 1uh5A 329 3.69e+01 c.2.1.2 107840 1ujxA 119 3.75e+01 b.26.1.2 99473 1rypL 212 3.75e+01 d.153.1.4 41880 1jvwA 167 3.78e+01 d.26.1.1 71907 2f51A 118 3.83e+01 1iyu 79 3.86e+01 1iyu b.84.1.1 28227 1csh 435 3.91e+01 1csh a.103.1.1 18880 1pauA 147 3.96e+01 1pauA c.17.1.1 30994 1fxrA 64 4.12e+01 1fxd d.58.1.4 38993 1ifyA 49 4.13e+01 a.5.2.1 71207 1ju5A 109 4.20e+01 d.93.1.1 77173 1bw4 125 4.22e+01 1bw4 b.52.1.2 26900 1unkA 87 4.28e+01 1cei a.28.2.1 16935 1g65K 211 4.53e+01 d.153.1.4 41907 1g7sA 594 4.57e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1g7tA 594 4.59e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25714,25715,31033,32148 2gpr 154 4.63e+01 1gpr b.84.3.1 28269 2ampA 304 4.64e+01 1t9iA 163 4.74e+01 1ml8A 134 4.77e+01 d.227.1.2 85013 1qbiA 454 4.86e+01 1c9uA b.68.2.1 27619 1yz7A 188 4.86e+01 1wkvA 389 4.92e+01 1wwkA 307 4.99e+01 2cw8A 537 5.02e+01 1amz 435 5.06e+01 1csh a.103.1.1 18884 1n0qA 93 5.10e+01 k.37.1.1 79754 2dhqA 146 5.14e+01 2dhqA c.23.13.1 31382 1jkiA 533 5.16e+01 c.2.1.3,d.81.1.3 71704,71705 2tmkA 216 5.21e+01 3tmkA c.37.1.1 31928 1y0bA 197 5.22e+01 1h3gA 601 5.34e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1fxlA 167 5.39e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1bw3 125 5.46e+01 1bw4 b.52.1.2 26899 1avaC 181 5.47e+01 1avaC b.42.4.1 25604 1irsA 112 5.49e+01 1qqgA b.55.1.2 26991 1z1dA 103 5.49e+01 1qqgA 264 5.50e+01 1qqgA b.55.1.2,b.55.1.2 26987,26988 1cruA 454 5.51e+01 1c9uA b.68.2.1 27617 1vj0A 380 5.69e+01 b.35.1.2,c.2.1.1 100786,100787 1b4aA 149 5.69e+01 1b4aA a.4.5.3,d.74.2.1 16088,39721 1eu1A 780 5.73e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1w30A 201 5.85e+01 1vdmA 153 5.91e+01 1dpuA 99 5.91e+01 1dpuA a.4.5.16 16150 1bp3A 191 5.91e+01 1huw a.26.1.1 16838 2f5tX 233 5.92e+01 1mq7A 154 5.94e+01 b.85.4.1 79404 1lvoA 302 6.03e+01 b.47.1.4 74284 1uzcA 71 6.06e+01 a.159.2.1 100222 1g5tA 196 6.12e+01 1g5rA c.37.1.11 32366 2ahqA 76 6.15e+01 1h2vC 771 6.19e+01 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 1mkmA 249 6.33e+01 a.4.5.33,d.110.2.2 79242,79243 1l7bA 92 6.40e+01 c.15.1.2 91053 2ccmA 191 6.42e+01 1z3eA 132 6.47e+01 1c9uA 454 6.47e+01 1c9uA b.68.2.1 27623 1zckA 154 6.48e+01 1rss 151 6.49e+01 1rss a.75.1.1 18392 1rutX 188 6.49e+01 1xo5A 183 6.56e+01 1p9uA 302 6.57e+01 b.47.1.4 88001 1g7rA 594 6.59e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25716,25717,31034,32149 1cp3A 277 6.71e+01 1pauA c.17.1.1 30992 1evlA 401 6.85e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1d4vB 163 6.86e+01 1d4vB b.22.1.1 23884 1kcxA 518 6.88e+01 b.92.1.3,c.1.9.6 90953,90954 2gn4A 344 6.94e+01 1d1nA 99 7.09e+01 1d1nA b.43.3.1 25718 1dg6A 191 7.14e+01 1d4vB b.22.1.1 23883 1wqsA 173 7.15e+01 1yeyA 444 7.18e+01 1idk 359 7.21e+01 1qcxA b.80.1.2 28025 1id3B 102 7.21e+01 a.22.1.1 66113 2bsyA 278 7.26e+01 2bshA 125 7.29e+01 2bhoA 130 7.31e+01 2b4aA 138 7.34e+01 1fxkC 133 7.45e+01 1fxkC a.2.5.1 15702 1rwrA 301 7.46e+01 b.80.1.11 97990 1wvhA 134 7.52e+01 1x24A 180 7.55e+01 1aii 323 7.62e+01 1avc a.65.1.1 18150 1gjjA 168 7.66e+01 a.140.1.1,a.140.1.1 83291,83292 1i9aA 182 7.73e+01 1i9aA d.113.1.2 62082 1rxdA 159 7.77e+01 1zh1A 163 7.82e+01 1cei 94 7.85e+01 1cei a.28.2.1 16939 1j5eK 129 8.01e+01 c.55.4.1 71554 1txnA 328 8.02e+01 1jkfA 533 8.07e+01 c.2.1.3,d.81.1.3 71700,71701 1sixA 174 8.17e+01 b.85.4.1 98892 1e2b 106 8.22e+01 1iibA c.44.2.1 32650 1yg2A 179 8.23e+01 1rrmA 386 8.34e+01 e.22.1.2 105081 1dd6A 228 8.37e+01 1a7tA d.157.1.1 42054 2axcA 264 8.43e+01 1qw2A 102 8.71e+01 d.249.1.1 96456 1pueE 89 8.75e+01 1awcA a.4.5.21 16165 1jqnA 883 8.76e+01 c.1.12.3 77159 1iq0A 592 8.78e+01 a.27.1.1,c.26.1.1,d.67.2.1 66257,66258,66259 1vc4A 254 8.99e+01 c.1.2.4 100557 1r6xA 395 9.00e+01 b.122.1.3,c.26.1.5 97167,97168