# List of top-scoring protein chains for 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 2zwmA 130 1.76e-23 3f6pA 120 3.25e-23 1mvoA 136 4.29e-23 c.23.1.1 79513 1b00A 127 1.51e-22 3chy c.23.1.1 31122 1zesA 125 1.62e-22 c.23.1.1 124994 2a9oA 120 2.38e-22 c.23.1.1 126444 2gwrA 238 1.24e-21 2jb9A 127 1.39e-21 2jbaB 127 2.62e-21 2jbaA 127 2.77e-21 2wb4A 459 9.38e-21 1w25A 459 1.02e-20 c.23.1.1 114090 c.23.1.1 114091 d.58.29.2 114092 2oqrA 230 3.05e-20 3gt7A 154 2.01e-19 1kgsA 225 2.42e-19 a.4.6.1 68596 c.23.1.1 68597 1zh2A 121 4.75e-19 c.23.1.1 125069 3dgfC 122 5.82e-19 1ys7A 233 5.95e-19 a.4.6.1 123961 c.23.1.1 123962 1xhfA 123 9.80e-19 c.23.1.1 122003 3gl9A 122 1.03e-18 2pl1A 121 2.03e-17 c.23.1.1 149610 1zgzA 122 3.19e-17 c.23.1.1 125065 3fgzA 128 1.81e-16 3c3mA 138 2.06e-16 3f7nA 128 2.26e-16 3eq2A 394 2.44e-16 2qzjA 136 2.64e-16 1dc7A 124 4.27e-16 1dbwA c.23.1.1 31093 3fftA 128 4.50e-16 3a0uA 116 5.58e-16 3a10A 116 5.83e-16 3ffxA 128 7.07e-16 1mb3A 124 8.12e-16 c.23.1.1 78907 2jvkA 132 8.95e-16 3ffwA 128 9.24e-16 1p2fA 220 1.00e-15 a.4.6.1 87720 c.23.1.1 87721 2jvjA 132 1.03e-15 3h1gA 129 1.04e-15 1srrA 124 1.08e-15 1dz3A c.23.1.1 31110 1ab5A 125 1.28e-15 3chy c.23.1.1 31056 1natA 124 1.31e-15 c.23.1.1 31113 3cg4A 142 1.45e-15 2chyA 128 1.46e-15 c.23.1.1 31081 1f51E 119 1.58e-15 1dz3A c.23.1.1 31114 2chfA 128 1.58e-15 c.23.1.1 31079 2fmkA 129 1.59e-15 c.23.1.1 133777 2jviA 132 1.63e-15 1ab6A 125 1.65e-15 3chy c.23.1.1 31054 1ymvA 129 2.05e-15 c.23.1.1 31045 3gwgA 129 2.23e-15 1d4zA 128 2.40e-15 3chy c.23.1.1 31047 1jbeA 128 2.41e-15 3chy c.23.1.1 62845 1kmiY 129 2.42e-15 c.23.1.1 72751 1cyeA 129 2.42e-15 c.23.1.1 31077 1mihA 129 2.71e-15 c.23.1.1 84975 2ftkE 124 3.32e-15 c.23.1.1 134069 1ymuA 130 3.51e-15 3chy c.23.1.1 31066 1s8nA 205 4.96e-15 c.23.1.1 105374 5chyA 128 6.04e-15 c.23.1.1 31050 1e6kA 130 6.49e-15 3chy c.23.1.1 59306 3crnA 132 6.69e-15 1c4wA 128 7.99e-15 3chy c.23.1.1 31046 1zdmA 129 8.00e-15 c.23.1.1 124941 1udrA 129 9.81e-15 3chy c.23.1.1 31041 1ehcA 128 9.93e-15 c.23.1.1 31053 1zy2A 150 1.05e-14 c.23.1.1 125811 1e6lA 127 1.17e-14 3chy c.23.1.1 59307 3h1fA 129 1.19e-14 3jteA 143 1.32e-14 1e6mA 128 1.36e-14 3chy c.23.1.1 31039 2ayzA 133 1.44e-14 c.23.1.1 127577 2ayxA 254 1.52e-14 c.23.1.1 127574 c.23.1.6 127575 1vlzA 128 1.73e-14 3chy c.23.1.1 31048 3lteA 132 2.18e-14 3i5aA 334 2.46e-14 2zayA 147 2.49e-14 1u8tA 128 2.52e-14 c.23.1.1 113192 3cfyA 137 2.62e-14 3breA 358 2.77e-14 3eodA 130 4.11e-14 6chyA 128 4.50e-14 3chy c.23.1.1 31062 2id7A 128 6.11e-14 1zitA 121 7.21e-14 1p6qA 129 7.46e-14 c.23.1.1 104074 1tmyA 120 7.97e-14 c.23.1.1 31083 1heyA 128 9.30e-14 c.23.1.1 31061 1u0sY 118 9.32e-14 c.23.1.1 107566 3hdgA 137 1.26e-13 2id9A 128 1.61e-13 1dz3A 130 2.32e-13 1dz3A c.23.1.1 31105 1yioA 208 2.62e-13 a.4.6.2 123326 c.23.1.1 123327 1a04A 215 2.79e-13 1a04A a.4.6.2 16234 c.23.1.1 31089 1l5zA 155 3.13e-13 c.23.1.1 77722 1qkkA 155 3.29e-13 1dbwA c.23.1.1 31104 1ny5A 387 3.44e-13 c.23.1.1 92317 c.37.1.20 92318 2qxyA 142 3.54e-13 3cnbA 143 1.70e-12 3lufA 259 1.85e-12 1dbwA 126 3.83e-12 1dbwA c.23.1.1 31095 3dzdA 368 4.52e-12 3cz5A 153 5.06e-12 1k68A 140 5.13e-12 c.23.1.1 90943 3cu5A 141 7.17e-12 3hebA 152 9.48e-12 1k66A 149 9.95e-12 c.23.1.1 90941 2nt4A 127 1.60e-11 2gkgA 127 1.79e-11 1i3cA 149 2.10e-11 c.23.1.1 71112 1jlkA 147 2.11e-11 c.23.1.1 71727 2r25B 133 2.15e-11 c.23.1.1 151530 1oxkB 134 2.29e-11 c.23.1.1 93691 2jk1A 139 3.34e-11 3c97A 140 3.38e-11 3khtA 144 5.61e-11 3cg0A 140 5.82e-11 3hdvA 136 6.88e-11 2vuhB 139 1.04e-10 2nt3A 127 1.58e-10 3hzhA 157 1.61e-10 3hv2A 153 1.86e-10 3c3wA 225 2.23e-10 3b2nA 133 2.30e-10 3grcA 140 2.72e-10 3h5iA 140 3.13e-10 2qr3A 140 3.51e-10 3f6cA 134 3.79e-10 3eulA 152 3.89e-10 3kcnA 151 5.75e-10 1a2oA 349 5.93e-10 1chd c.23.1.1 31120 c.40.1.1 32479 2rjnA 154 1.75e-09 3luaA 140 1.87e-09 3kyjB 145 3.56e-09 2qsjA 154 4.08e-09 3cwoX 237 5.54e-09 2qvgA 143 6.64e-09 3kyiB 145 1.24e-08 2qv0A 143 2.39e-08 3i42A 127 5.28e-08 3eqzA 135 5.72e-08 2plnA 137 7.63e-08 2hqoA 123 8.97e-08 2hqrA 223 1.16e-07 1dcfA 136 2.64e-07 1dcfA c.23.1.2 31124 2j48A 119 3.46e-07 3ilhA 146 1.73e-06 2rdmA 132 4.55e-06 2b4aA 138 1.51e-04 c.23.1.1 127817 3ktoA 136 1.81e-04 3hx8A 129 5.01e-01 1wv9A 94 1.83e+00 3jvvA 356 2.01e+00 1h5yA 253 2.37e+00 c.1.2.1 65638 3ez7A 398 2.61e+00 3ez2A 398 2.63e+00 1texA 287 2.65e+00 c.37.1.5 106818 2mobA 138 3.30e+00 1ckv d.137.1.1 41453 3giuA 215 3.78e+00 2gmnA 274 3.86e+00 d.157.1.1 147132 2w7qA 204 5.09e+00 1tygA 253 6.65e+00 c.1.31.1 107454 1xm3A 264 6.67e+00 c.1.31.1 115461 2jqoA 108 7.00e+00 3hi7A 731 7.10e+00 2j7pD 283 7.74e+00 a.24.13.1 138123 c.37.1.10 138124 2iylD 284 7.76e+00 a.24.13.1 137801 c.37.1.10 137802 1nx9A 652 7.97e+00 b.18.1.13 92285 c.69.1.21 92286 3d48R 211 8.00e+00 b.1.2.1 157289 b.1.2.1 157290 2b9vA 652 8.05e+00 b.18.1.13 128199 c.69.1.21 128200 1ryyA 652 8.05e+00 b.18.1.13 118821 c.69.1.21 118822 2f9yA 339 8.06e+00 c.14.1.4 133178 1bp3B 211 8.22e+00 1axiB b.1.2.1 22031 b.1.2.1 22032 1r5tA 142 8.34e+00 c.97.1.1 104812 2d7jA 209 8.68e+00 1okkD 303 8.80e+00 a.24.13.1 93261 c.37.1.10 93262 2q9cA 304 8.82e+00 1rj9A 304 8.87e+00 a.24.13.1 97553 c.37.1.10 97554 1suiA 247 9.22e+00 c.66.1.1 119049 2ht6A 174 9.35e+00 1wl8A 189 9.48e+00 c.23.16.1 120997 2cjwA 192 9.66e+00 2j289 430 9.70e+00 1tifA 78 9.81e+00 d.15.8.1 37836 3ezfA 403 9.93e+00 2bkaA 242 1.00e+01 c.2.1.2 128666 5mdhA 333 1.00e+01 1bmdA c.2.1.5 30126 d.162.1.1 42093 4mdhA 334 1.00e+01 1bmdA c.2.1.5 30128 d.162.1.1 42095 1qv9A 283 1.05e+01 c.127.1.1 96356 1s2oA 244 1.08e+01 c.108.1.10 118846 1k8qA 377 1.12e+01 c.69.1.6 72177 2w6rA 266 1.15e+01 3drnA 161 1.15e+01 1vlaA 150 1.20e+01 d.227.1.2 108735 2qkiC 343 1.23e+01 2qs9A 194 1.24e+01 1w9sA 142 1.25e+01 b.18.1.10 114416 1mwyA 73 1.26e+01 d.58.17.1 79616 2rg8A 165 1.27e+01 1s6wA 21 1.32e+01 j.3.1.8 112043 2cvhA 220 1.32e+01 1fi6A 92 1.38e+01 1iq3A a.39.1.6 59849 3lgaA 253 1.43e+01 3lhdA 253 1.43e+01 2yz2A 266 1.45e+01 3mb5A 255 1.46e+01 3hojA 248 1.47e+01 3giyA 380 1.48e+01 1p4cA 380 1.49e+01 c.1.4.1 94100 2g3yA 211 1.50e+01 c.37.1.8 134574 2jhpA 644 1.50e+01 3ffsA 400 1.51e+01 1x66A 98 1.54e+01 2ekcA 262 1.55e+01 3dhwA 217 1.56e+01 f.58.1.1 157727 3khjA 361 1.62e+01 2qi2A 347 1.62e+01 b.38.4.1 150800 c.55.4.2 150801 d.79.3.2 150802 2gjlA 328 1.67e+01 1x3xA 82 1.68e+01 3labA 217 1.69e+01 2edeA 114 1.80e+01 2forA 323 1.91e+01 3b8aX 485 1.91e+01 2flqA 375 1.95e+01 1edgA 380 2.00e+01 c.1.8.3 28807 2dm6A 333 2.00e+01 b.35.1.2 131567 c.2.1.1 131568 2zu6B 307 2.02e+01 2hr0B 915 2.03e+01 2i07B 915 2.03e+01 2j01J 173 2.06e+01 3ms5A 388 2.07e+01 3e8xA 236 2.08e+01 1e51A 330 2.09e+01 1b4kA c.1.10.3 59254 1pv8A 330 2.09e+01 c.1.10.3 95155 1id1A 153 2.11e+01 1id1A c.2.1.9 62286 1mioA 533 2.12e+01 1qguA c.92.2.3 35601 3cbyA 108 2.14e+01 1p1mA 406 2.16e+01 b.92.1.4 87696 c.1.9.9 87697 3cbxA 105 2.16e+01 3eijA 321 2.17e+01 3h3lA 241 2.18e+01 1j6pA 418 2.18e+01 b.92.1.4 77089 c.1.9.9 77090 1rc6A 261 2.21e+01 b.82.1.11 97287 1wbbA 800 2.21e+01 a.113.1.1 120837 c.37.1.12 120838 c.55.6.1 120839 d.75.2.1 120840 2c3zA 222 2.27e+01 3h77A 359 2.28e+01 2dgdA 223 2.31e+01 1a53A 247 2.32e+01 c.1.2.4 28564 1julA 248 2.32e+01 c.1.2.4 28566 3d1pA 139 2.33e+01 2nrqA 159 2.39e+01 d.77.1.2 148380 1wbdA 800 2.39e+01 a.113.1.1 120841 c.37.1.12 120842 c.55.6.1 120843 d.75.2.1 120844 2ytuA 128 2.39e+01 2qikA 285 2.41e+01 2v36A 376 2.42e+01 3a75A 384 2.44e+01 3h78A 359 2.46e+01 2otuA 115 2.53e+01 2qx2A 344 2.54e+01 2gsgA 116 2.57e+01 3btnA 448 2.58e+01 3bg9A 718 2.58e+01 3llvA 141 2.59e+01 3bg3A 718 2.62e+01 1m1jA 491 2.64e+01 h.1.8.1 74369 1l7qA 574 2.65e+01 b.18.1.13 77791 c.69.1.21 77792 2czdA 208 2.66e+01 c.1.2.3 131045 2a73B 991 2.66e+01 1rqjA 299 2.66e+01 a.128.1.1 97744 1wb9A 800 2.68e+01 a.113.1.1 120833 c.37.1.12 120834 c.55.6.1 120835 d.75.2.1 120836 1rqiA 300 2.68e+01 a.128.1.1 97742 1ei3A 491 2.69e+01 i.9.1.1 46001 1ju3A 583 2.70e+01 b.18.1.13 67300 c.69.1.21 67301 1fm2B 520 2.71e+01 1fm2B 3k0sA 799 2.72e+01 3i2iA 587 2.74e+01 3i2kA 587 2.74e+01 3i2fA 587 2.75e+01 3i2gA 587 2.75e+01 3i2hA 587 2.76e+01 3idaA 587 2.77e+01 1e3mA 800 2.78e+01 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 1ng9A 800 2.78e+01 a.113.1.1 80480 c.37.1.12 80481 c.55.6.1 80482 d.75.2.1 80483 1s1hB 185 2.78e+01 i.1.1.1 105155 1iukA 140 2.81e+01 c.2.1.8 83712 2fmuA 248 2.81e+01 c.2.1.2 133795 1sxeA 97 2.84e+01 a.60.1.1 106080 3jyvB 193 2.90e+01 3lhsA 296 2.93e+01 3eixA 296 2.93e+01 1c17M 177 2.93e+01 1c17M f.18.1.1 43648 3i65A 415 2.93e+01 1r3nA 462 2.98e+01 c.56.5.4 96945 d.58.19.1 96946 1r43A 463 2.98e+01 c.56.5.4 96969 d.58.19.1 96970 3hgjA 349 3.00e+01 2advC 500 3.05e+01 3h76A 359 3.07e+01 2vl1A 474 3.08e+01 1gk1B 522 3.12e+01 3muxA 251 3.12e+01 2ae5B 528 3.13e+01 2ae4B 528 3.13e+01 3jtqB 528 3.13e+01 2qn6A 414 3.14e+01 b.43.3.1 150911 b.44.1.1 150912 c.37.1.8 150913 2ahoA 414 3.14e+01 b.43.3.1 126767 b.44.1.1 126768 c.37.1.8 126769 3i1fA 415 3.15e+01 1qpoA 284 3.16e+01 1qpoA c.1.17.1 29561 d.41.2.1 38597 2idaA 102 3.16e+01 g.44.1.5 147626 1l7rA 574 3.17e+01 b.18.1.13 77793 c.69.1.21 77794 2ae3B 528 3.17e+01 1or0B 528 3.19e+01 3m6yA 275 3.21e+01 2v8vA 474 3.21e+01 1nwbA 124 3.25e+01 b.124.1.1 86296 2v3aA 384 3.26e+01 3l4jA 758 3.27e+01 1aogA 485 3.30e+01 3grs c.3.1.5 30517 c.3.1.5 30518 d.87.1.1 40190 1bzlA 486 3.30e+01 3grs c.3.1.5 30521 c.3.1.5 30522 d.87.1.1 40192 1gxfA 492 3.32e+01 c.3.1.5 90527 c.3.1.5 90528 d.87.1.1 90529 2gk3A 256 3.36e+01 c.23.16.9 147123 1kkeA 210 3.40e+01 b.21.1.2 68670 b.83.1.2 68669 1di6A 195 3.41e+01 1di6A c.57.1.1 33863 3hltA 266 3.44e+01 2wbaA 492 3.44e+01 1gpwA 253 3.47e+01 c.1.2.1 65460 3eiqC 358 3.48e+01 2yv4A 105 3.60e+01 1vh7A 265 3.61e+01 c.1.2.1 100646 2oj5A 165 3.61e+01 2ftcI 118 3.63e+01 1kehA 689 3.65e+01 d.153.1.2 72370 3jr2A 218 3.66e+01 3iebA 218 3.66e+01 1thfD 253 3.70e+01 1thfD c.1.2.1 28535 1vlmA 219 3.88e+01 c.66.1.41 108836 1wx0A 223 3.90e+01 c.1.10.1 121382 3l6nA 219 3.97e+01 1u3tA 374 3.98e+01 b.35.1.2 113001 c.2.1.1 113002 1ndaA 491 3.99e+01 3grs c.3.1.5 30525 c.3.1.5 30526 d.87.1.1 40194