# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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 2fneA 117 1.37e-12 2fe5A 94 4.94e-12 1bfeA 119 1.58e-11 1pdr b.36.1.1 24775 1pdr 99 1.71e-11 1pdr b.36.1.1 24771 1tp5A 119 2.05e-11 1be9A 119 2.98e-11 1pdr b.36.1.1 24774 2fcfA 103 4.72e-11 1i92A 91 5.76e-11 1pdr b.36.1.1 61990 1g9oA 91 6.10e-11 1pdr b.36.1.1 60400 1qavA 90 9.06e-11 1qauA b.36.1.1 24777 1n7eA 97 1.34e-10 b.36.1.1 91691 1ihjA 98 2.62e-10 1pdr b.36.1.1 62382 1q3oA 109 2.91e-10 b.36.1.1 95700 2h2bA 107 4.31e-10 1n7fA 97 5.74e-10 b.36.1.1 91692 1l6oA 95 9.50e-10 b.36.1.1 84534 2h3lA 103 1.31e-09 1mfgA 95 1.38e-09 b.36.1.1 79043 2f0aA 98 2.07e-09 1i16 130 2.20e-09 1i16 b.36.1.2 24787 1nf3C 128 3.49e-09 b.36.1.1 85596 1v5lA 103 3.50e-09 b.36.1.1 108378 1wf7A 103 3.68e-09 1qauA 112 4.57e-09 1qauA b.36.1.1 24779 1qavB 115 7.40e-09 1qauA b.36.1.1 24780 1b8qA 127 1.18e-08 1qauA b.36.1.1 24781 1n99A 166 1.25e-08 b.36.1.1,b.36.1.1 85459,85460 1kwaA 88 1.43e-08 1kwaA b.36.1.1 24772 1m5zA 91 2.88e-08 b.36.1.1 78676 1kwaB 88 5.84e-08 1kwaA b.36.1.1 24773 2f5yA 91 8.59e-08 1r6jA 82 2.49e-06 b.36.1.1 97151 1nteA 82 3.09e-06 b.36.1.1 86163 1fc6A 388 1.44e-05 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 1.35e-04 b.36.1.4,b.47.1.1 73834,73835 1ky9B 448 2.68e-04 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 1te0A 318 4.27e-04 1ky9A 448 7.84e-04 b.36.1.4,b.47.1.1 73198,73199 1sotA 320 4.22e-03 b.36.1.4,b.47.1.1 105852,105853 1y8tA 324 2.29e-01 2bh4X 134 2.27e+00 2a6tA 271 3.61e+00 1db3A 372 4.41e+00 1db3A c.2.1.2 29813 1bx4A 345 6.35e+00 1bx4A c.72.1.1 34935 1koe 172 7.17e+00 1koe d.169.1.5 42448 2d4pA 141 9.18e+00 1cot 129 9.98e+00 1ycc a.3.1.1 15899 1cis 66 1.06e+01 2sniI k.1.1.1 46375 1kw4A 89 1.30e+01 a.60.1.2 73077 2aqwA 332 1.51e+01 1t3qB 788 1.51e+01 d.41.1.1,d.133.1.1 106369,106370 1rypL 212 1.53e+01 d.153.1.4 41880 1ah1 129 1.54e+01 1ah1 b.1.1.1 20652 1g65K 211 1.83e+01 d.153.1.4 41907 2sniI 83 1.86e+01 2sniI d.40.1.1 38573 1jhfA 202 1.88e+01 a.4.5.2,b.87.1.1 63057,63058 2h03A 291 2.07e+01 1d6tA 117 2.11e+01 1a6f d.14.1.2 37565 2cc0A 195 2.19e+01 3sxlA 184 2.32e+01 1b7fA d.58.7.1,d.58.7.1 39173,39174 1rm6A 769 2.34e+01 1dpuA 99 2.37e+01 1dpuA a.4.5.16 16150 1viuA 203 2.39e+01 d.113.1.1 100771 1fxlA 167 2.40e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1p99A 295 2.51e+01 c.94.1.1 94384 1b7fA 168 2.55e+01 1b7fA d.58.7.1,d.58.7.1 39169,39170 1z1dA 103 2.56e+01 2brfA 110 2.60e+01 1lkkA 105 2.68e+01 1lckA d.93.1.1 40412 1a3lH 218 2.76e+01 1mfa b.1.1.1,b.1.1.2 20241,21253 1bp3A 191 2.79e+01 1huw a.26.1.1 16838 1txnA 328 2.83e+01 1jjtA 228 2.87e+01 1a7tA d.157.1.1 63139 1coaI 64 2.97e+01 2sniI d.40.1.1 38574 1p35A 299 3.00e+01 1p35A b.28.1.1 23925 2ajuH 219 3.07e+01 2axcA 264 3.10e+01 1h3qA 140 3.12e+01 d.110.4.3 76652 1l1dA 152 3.16e+01 b.88.1.3 73452 2aa4A 289 3.19e+01 1f3z 161 3.24e+01 1gpr b.84.3.1 28273 35c8H 217 3.31e+01 8fabA b.1.1.1,b.1.1.2 20297,21289 1j08A 226 3.32e+01 c.47.1.2,c.47.1.2 83855,83856 2fe7A 166 3.35e+01 1t6t1 118 3.38e+01 1qo0D 196 3.44e+01 1qo0D c.23.1.3 31125 1sw5A 275 3.55e+01 c.94.1.1 106069 1lcjA 109 3.61e+01 1qadA d.93.1.1 40414 1pueE 89 3.72e+01 1awcA a.4.5.21 16165 2sxl 88 3.74e+01 1b7fA d.58.7.1 39179 1a6f 119 3.76e+01 1a6f d.14.1.2 37564 1rurH 218 3.82e+01 b.1.1.1,b.1.1.2 97879,97880 1ggrA 168 3.84e+01 1gpr b.84.3.1 28279 1hl6A 165 3.89e+01 d.58.7.1 83609 1dg6A 191 3.96e+01 1d4vB b.22.1.1 23883 1glaF 168 3.97e+01 1gpr b.84.3.1 28274 1se8A 301 3.98e+01 b.40.4.3 105448 1a8l 226 4.03e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1rl4A 188 4.05e+01 d.167.1.1 97636 2hc1A 291 4.07e+01 2gwnA 452 4.15e+01 1x6vA 630 4.20e+01 1wvhA 134 4.33e+01 1i8lC 126 4.34e+01 1ah1 b.1.1.1 61974 1vpqA 273 4.44e+01 1r13A 148 4.57e+01 d.169.1.1,h.1.1.1 96782,96783 1eb0A 147 4.67e+01 b.107.1.1,d.58.38.1 64890,64891 1an0A 190 4.67e+01 1ctqA c.37.1.8 32066 1bxeA 113 4.75e+01 1bxeA d.55.1.1 38898 1earA 147 4.75e+01 b.107.1.1,d.58.38.1 64875,64876 1cv8 174 4.91e+01 1cv8 d.3.1.1 37089 1dax 64 4.92e+01 1fxd d.58.1.4 38996 1jzxK 205 5.02e+01 i.1.1.2 67885 1z6nA 167 5.06e+01 1lw6I 64 5.11e+01 d.40.1.1 74294 1xdyA 298 5.15e+01 1kgsA 225 5.20e+01 a.4.6.1,c.23.1.1 68596,68597 1qbiA 454 5.20e+01 1c9uA b.68.2.1 27619 1fxrA 64 5.20e+01 1fxd d.58.1.4 38993 1a22A 180 5.21e+01 1huw a.26.1.1 16833 1r6xA 395 5.23e+01 b.122.1.3,c.26.1.5 97167,97168 1to2I 64 5.25e+01 2coaA 125 5.45e+01 1unkA 87 5.45e+01 1cei a.28.2.1 16935 1hztA 190 5.51e+01 1i9aA d.113.1.2 61459 1cei 94 5.53e+01 1cei a.28.2.1 16939 1g8sA 230 5.54e+01 c.66.1.3 90507 2b4aA 138 5.56e+01 1y7rA 133 5.64e+01 1xewY 172 5.71e+01 1yhuB 144 5.76e+01 1gbs 185 5.79e+01 153l d.2.1.5 36986 1a4rA 191 5.82e+01 1ctqA c.37.1.8 32063 1pk1B 89 5.83e+01 1ai1H 221 5.94e+01 1igtB b.1.1.1,b.1.1.2 19883,20979 1dfd 64 6.03e+01 1fxd d.58.1.4 38995 1yjmA 110 6.11e+01 1wqsA 173 6.12e+01 155c 135 6.12e+01 1ycc a.3.1.1 15900 1evlA 401 6.15e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 153l 185 6.18e+01 153l d.2.1.5 36984 1nlbH 218 6.18e+01 b.1.1.1,b.1.1.2 80621,80622 7reqB 637 6.19e+01 1reqB c.1.19.1,c.23.6.1 29617,31244 1lckA 175 6.28e+01 1lckA b.34.2.1,d.93.1.1 24552,40421 1sw5B 275 6.28e+01 c.94.1.1 106070 1nwbA 124 6.42e+01 b.124.1.1 86296 1vgmA 378 6.58e+01 1cruA 454 6.63e+01 1c9uA b.68.2.1 27617 2cu1A 103 6.64e+01 1ae6H 218 6.65e+01 1igtB b.1.1.1,b.1.1.2 20211,21223 1ql3A 99 6.68e+01 1ycc a.3.1.1 15822 2ccmA 191 6.82e+01 2c27A 315 6.86e+01 2a77H 222 6.92e+01 1ga1A 372 6.95e+01 1ga1A c.41.1.2 32557 1irsA 112 6.97e+01 1qqgA b.55.1.2 26991 1fbnA 230 7.03e+01 1fbnA c.66.1.3 34181 1xwsA 313 7.06e+01 1ga6A 372 7.13e+01 1ga1A c.41.1.2 32556 1c9uA 454 7.13e+01 1c9uA b.68.2.1 27623 1gky 187 7.21e+01 1gky c.37.1.1 31839 1ialA 453 7.27e+01 1bk5A a.118.1.1 19116 1x84A 189 7.28e+01 1xo5A 183 7.36e+01 1wbiA 129 7.39e+01 1reqB 637 7.40e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 6paxA 133 7.54e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1reqD 637 7.55e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 1lnzA 342 7.59e+01 b.117.1.1,c.37.1.8 78112,78113 1f7wA 144 7.69e+01 1f46A d.129.4.1 59679 1hyxH 224 7.70e+01 1igtB b.1.1.1,b.1.1.2 20167,21191 2iu4A 336 7.75e+01 1ujxA 119 7.87e+01 b.26.1.2 99473 1d4vB 163 7.87e+01 1d4vB b.22.1.1 23884 2f1wA 158 7.94e+01 1jy1A 464 7.96e+01 d.136.1.3,d.136.1.3 67438,67439 1wveC 80 8.00e+01 1afvH 220 8.09e+01 1mfa b.1.1.1,b.1.1.2 20131,21161 1i9aA 182 8.19e+01 1i9aA d.113.1.2 62082 2bikB 313 8.35e+01 2cyjA 118 8.42e+01 1mjc 69 8.54e+01 1mjc b.40.4.5 25319 1ifyA 49 8.58e+01 a.5.2.1 71207 1jj2L 194 8.64e+01 1ffkI d.12.1.2 63097 1i4jA 110 8.65e+01 d.55.1.1 76734 1ex7A 186 8.66e+01 1gky c.37.1.1 59537 1iz5A 249 8.69e+01 d.131.1.2,d.131.1.2 83834,83835 1qw2A 102 8.73e+01 d.249.1.1 96456 1k1gA 131 8.75e+01 d.51.1.1 68015 2bsjA 133 8.89e+01