# List of top-scoring protein chains for t2k-100-30-dssp_ehl2 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 1eo1A 124 1.68e-22 1eo1A c.55.5.1 33739 1qorA 327 4.52e-03 1qorA b.35.1.2 24766 c.2.1.1 29782 1j8dA 180 1.22e-02 c.108.1.5 66433 1k1eA 180 1.50e-02 c.108.1.5 67995 1kv8A 216 7.94e-02 1a49A 530 1.31e-01 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1pkn 530 1.53e-01 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1qhtA 775 2.34e-01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1kafA 108 3.52e-01 d.199.1.1 68372 1j5eK 129 4.07e-01 1d02A 202 4.09e-01 1d02A c.52.1.8 33313 1tmy 120 4.97e-01 1dbwA c.23.1.1 31083 1hy3A 294 8.03e-01 1ayyA 151 8.35e-01 1apyA d.153.1.5 42016 1srrA 124 8.43e-01 1dz3A c.23.1.1 31110 2liv 344 8.67e-01 2liv c.93.1.1 35708 1tgoA 773 9.18e-01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1az9 457 1.12e+00 1az9 c.55.2.1 33547 d.127.1.1 41164 1fjgK 129 1.22e+00 1fjfK c.55.4.1 33733 1aq6A 253 1.25e+00 1qq5A c.108.1.1 43331 2ae2A 260 1.25e+00 1bdb c.2.1.2 29945 2lbp 346 1.29e+00 2liv c.93.1.1 35709 1k6dA 220 1.31e+00 2nacA 393 1.40e+00 2nadA c.2.1.4 30088 c.23.12.1 31348 1jp4A 308 1.56e+00 1jp4A e.7.1.1 63223 1l7mA 211 1.67e+00 2nadA 393 1.68e+00 2nadA c.2.1.4 30090 c.23.12.1 31350 1f5sA 211 1.75e+00 1f5sA c.108.1.4 59656 1j97A 211 1.75e+00 1f5sA c.108.1.4 62753 1d7yA 408 1.80e+00 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1fs0G 230 1.92e+00 1fs0G c.49.2.1 59999 1cf2O 337 1.93e+00 1b7gO c.2.1.3 29994 d.81.1.1 39909 1jx6A 342 2.02e+00 c.93.1.1 67406 1gc0A 398 2.04e+00 1e55A 512 2.14e+00 1e70M c.1.8.4 28934 1ahxA 396 2.36e+00 1ajsA c.67.1.1 34293 1eulA 994 2.37e+00 1eulA f.2.1.10 43726 7aatA 401 2.43e+00 1ajsA c.67.1.1 34250 1qq7A 253 2.45e+00 1qq5A c.108.1.1 43329 1qq5A 253 2.46e+00 1qq5A c.108.1.1 43327 1spa 396 2.76e+00 1ajsA c.67.1.1 34291 1art 396 2.76e+00 1ajsA c.67.1.1 34285 1g8lA 411 2.77e+00 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1dxy 333 2.79e+00 1dxy c.2.1.4 30094 c.23.12.1 31354 1ars 396 2.87e+00 1ajsA c.67.1.1 34287 1ad1A 266 2.99e+00 1aj2 c.1.21.1 29668 1pkp 150 3.30e+00 1pkp d.14.1.1 37551 d.50.1.2 38787 1bueA 265 3.43e+00 1btl e.3.1.1 42727 1aquA 297 3.52e+00 1aquA c.37.1.5 31942 1pbn 289 3.67e+00 1b8oA c.56.2.1 33771 1b8oA 284 3.72e+00 1b8oA c.56.2.1 33762 1ekjB 221 3.83e+00 1ekjB c.53.2.1 33365 1ekjA 221 3.83e+00 1ekjB c.53.2.1 33364 1cjxA 357 3.94e+00 1cjxA d.32.1.3 38516 d.32.1.3 38517 1a16 440 4.10e+00 1az9 c.55.2.1 33548 d.127.1.1 41165 1kqrA 179 4.16e+00 1j8mF 297 4.21e+00 1ng1 a.24.13.1 62742 c.37.1.10 62743 2fsp 124 4.21e+00 1dz3A c.23.1.1 31119 1pymA 295 4.23e+00 1pymA c.1.12.4 29308 1psdA 409 4.47e+00 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1edoA 244 4.49e+00 1ybvA c.2.1.2 29896 1hd8A 363 4.49e+00 b.105.1.1 65803 e.3.1.1 65804 3pnp 289 4.53e+00 1b8oA c.56.2.1 33763 1l6wA 220 4.59e+00 1g8mA 593 4.71e+00 1g8mA c.24.1.3 60371 c.97.2.1 60372 1bpyA 335 4.82e+00 1bpyA a.60.6.1 17980 e.9.1.1 43122 1fbaA 361 4.97e+00 1fbaA c.1.10.1 29120 1gmlA 178 5.08e+00 1zfjA 491 5.16e+00 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1rypE 242 5.44e+00 1rypE d.153.1.4 41936 1k3rA 268 5.50e+00 1eziA 228 5.66e+00 1eyrA c.68.1.3 34512 1gn0A 108 5.94e+00 c.46.1.3 65358 1qisA 396 6.01e+00 1ajsA c.67.1.1 34284 1php 394 6.31e+00 16pk c.86.1.1 35452 1bhgA 613 6.43e+00 1bhgA b.1.4.1 22161 b.18.1.5 23766 c.1.8.3 28889 1i6pA 220 6.64e+00 1ddzA c.53.2.1 61848 1tif 78 6.67e+00 1tif d.15.8.1 37836 1s01 283 6.86e+00 1gci c.41.1.1 32511 1pea 385 6.91e+00 1pea c.93.1.1 35662 1rfs 139 6.96e+00 1rfs b.33.1.1 24434 1sup 275 6.98e+00 1gci c.41.1.1 32510 1thfD 253 7.10e+00 1thfD c.1.2.1 28535 1i36A 264 7.39e+00 1e3dA 266 7.51e+00 2frvA e.19.1.1 59188 1h67A 108 7.56e+00 a.40.1.1 65643 1b8aA 438 7.62e+00 1b8aA b.40.4.1 25244 d.104.1.1 40765 1smlA 269 7.69e+00 1smlA d.157.1.1 42053 7timA 247 8.16e+00 1amk c.1.1.1 28457 1larA 575 8.27e+00 1larA c.45.1.2 32693 c.45.1.2 32694 1k2yX 463 8.39e+00 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 c.84.1.1 68066 1gmxA 108 8.59e+00 c.46.1.3 65355 1i45A 248 8.70e+00 1amk c.1.1.1 61665 1rpl 251 8.85e+00 1bpyA e.9.1.1 43212 1ejrC 567 8.88e+00 1ubpC b.92.1.1 28420 c.1.9.2 29042 1b74A 254 9.17e+00 1b74A c.78.2.1 35264 c.78.2.1 35265 1fwcC 567 9.31e+00 1ubpC b.92.1.1 28410 c.1.9.2 29032 1a2vA 655 9.46e+00 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1eyyA 510 9.71e+00 1eyyA c.82.1.1 35389 1f1zA 273 9.91e+00 1f1zA a.4.5.27 16081 c.52.1.16 33334 1dvjA 246 9.94e+00 1dvjA c.1.2.3 28546 1f0kA 364 1.05e+01 1f0kA c.87.1.2 35465 1ez0A 510 1.07e+01 1eyyA c.82.1.1 35385 1fohA 664 1.10e+01 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1aq0A 306 1.11e+01 1aq0A c.1.8.3 28842 1ghr 306 1.13e+01 1aq0A c.1.8.3 28844 1e9lA 377 1.16e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 1ilr1 152 1.17e+01 1irp 1nom 248 1.21e+01 1bpyA e.9.1.1 43220 1cb0A 283 1.22e+01 1cb0A c.56.2.1 33790 1fit 147 1.23e+01 1fit d.13.1.1 37499 1qnf 484 1.24e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1mucA 373 1.26e+01 1mucA c.1.11.2 29236 d.54.1.1 38880 1h5qA 265 1.26e+01 1cydA c.2.1.2 60643 1cq3A 233 1.27e+01 1cq3A b.27.1.1 23923 1f0xA 571 1.30e+01 1f0xA d.58.32.2 39483 d.145.1.1 41746 9gafA 295 1.32e+01 1apyA d.153.1.5 42008 1dmr 823 1.32e+01 1dmr b.52.2.2 26904 c.81.1.1 35312 1ako 268 1.34e+01 1ako d.151.1.1 41779 1aurA 218 1.35e+01 1auoA c.69.1.14 34718 1cseE 274 1.35e+01 1gci c.41.1.1 32481 1auoA 218 1.37e+01 1auoA c.69.1.14 34716 1e5eA 404 1.39e+01 1ibjA c.67.1.3 59265 1thtA 305 1.41e+01 1thtA c.69.1.13 34711 1ii7A 333 1.51e+01 1ii7A d.159.1.4 62415 2cevA 299 1.52e+01 1d3vA c.42.1.1 32576 1qq9A 284 1.52e+01 1xjo c.56.5.4 33841 1b73A 254 1.54e+01 1b74A c.78.2.1 35266 c.78.2.1 35267 1at1A 310 1.54e+01 3csuA c.78.1.1 35168 c.78.1.1 35169 1eyrA 228 1.56e+01 1eyrA c.68.1.3 34514 1im5A 180 1.58e+01 c.33.1.2 66211 1b00A 127 1.58e+01 3chy c.23.1.1 31122 1mkp 144 1.62e+01 1vhrA c.45.1.1 32654 1h2rS 267 1.64e+01 2frvA e.19.1.1 43310 1jxhA 288 1.64e+01 c.72.1.2 67415 1dcqA 278 1.66e+01 1dcqA a.118.2.1 19178 g.45.1.1 45326 1qipA 183 1.66e+01 1qipA d.32.1.1 38470 1rypD 241 1.67e+01 1rypD d.153.1.4 41935 1d4fA 431 1.70e+01 1b3rA c.2.1.4 30110 c.23.12.3 31370 1vsd 152 1.75e+01 1cxqA c.55.3.2 33625 1nbaA 264 1.78e+01 1nbaA c.33.1.1 31753 4uagA 437 1.81e+01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1h4xA 117 1.82e+01 1auz c.13.2.1 60626 1mh1 186 1.83e+01 1eesA c.37.1.8 32002 1b25A 619 1.83e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1ctt 294 1.84e+01 1ctt c.97.1.1 36022 c.97.1.1 36023 1ijtA 128 1.84e+01 1bfg b.42.1.1 62510 1gcuA 295 1.84e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1shfA 59 1.87e+01 1bbzA b.34.2.1 24462 1uag 437 1.90e+01 4uagA c.5.1.1 30653 c.59.1.1 33954 c.72.2.1 34957 3uagA 437 1.91e+01 4uagA c.5.1.1 30652 c.59.1.1 33953 c.72.2.1 34956 1awcB 153 1.94e+01 1bd8 a.118.2.1 19156 1bgj 394 1.94e+01 1pbe c.3.1.2 30352 d.16.1.2 37883 1b3rA 431 1.95e+01 1b3rA c.2.1.4 30106 c.23.12.3 31366 1asu 162 2.03e+01 1cxqA c.55.3.2 33626 1uroA 367 2.05e+01 1uroA c.1.22.1 29675 1b93A 152 2.08e+01 1b93A c.24.1.2 31507 1i3cA 149 2.09e+01 1qh3A 260 2.14e+01 1qh5A d.157.1.2 42059 1gosA 520 2.15e+01 c.3.1.2 65425 d.16.1.5 65426 1g0sA 209 2.16e+01 1g0sA d.113.1.1 60187 1a7aA 432 2.19e+01 1b3rA c.2.1.4 30104 c.23.12.3 31364 1km4A 247 2.20e+01 1jsrA 327 2.20e+01 c.88.1.1 67237 1ew2A 513 2.20e+01 1b8jA c.76.1.1 59525 1bf6A 291 2.22e+01 1pscA c.1.9.3 29065 2pdd 43 2.25e+01 1ebdC a.9.1.1 16358 1pbe 394 2.26e+01 1pbe c.3.1.2 30338 d.16.1.2 37869 1qh5A 260 2.33e+01 1qh5A d.157.1.2 42057 1jr2A 286 2.34e+01 c.113.1.1 67111 1ccwA 137 2.46e+01 1be1 c.23.6.1 31238 1eyeA 280 2.48e+01 1aj2 c.1.21.1 29672 1gpmA 525 2.49e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1dtdA 303 2.50e+01 1aye c.56.5.1 33823 1f8gA 384 2.53e+01 1sayA c.2.1.4 59695 c.23.12.2 59696 1bpb 248 2.54e+01 1bpyA e.9.1.1 43215 1gkuB 1054 2.55e+01 c.37.1.16 65257 c.37.1.16 65258 e.10.1.1 65259 1jnrB 150 2.57e+01 d.58.1.5 66969 1a1s 314 2.58e+01 1othA c.78.1.1 35258 c.78.1.1 35259 1dvjC 246 2.66e+01 1dvjA c.1.2.3 28548 1as4B 37 2.69e+01 1as4B 1e3jA 352 2.70e+01 1e3jA b.35.1.2 24765 c.2.1.1 29781 1g0oA 283 2.78e+01 1ybvA c.2.1.2 60181 1e0tA 470 2.79e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1ckaA 57 2.79e+01 1ckaA b.34.2.1 24459 1jjyA 636 2.80e+01 1jjyA e.26.1.2 63141 1reqD 637 2.91e+01 1reqB c.1.19.1 29623 c.23.6.1 31250 1reqB 637 2.91e+01 1reqB c.1.19.1 29621 c.23.6.1 31248 1jztA 246 2.93e+01 c.104.1.1 63319 1k0iA 394 2.93e+01 c.3.1.2 67942 d.16.1.2 67943 2phh 394 3.02e+01 1pbe c.3.1.2 30353 d.16.1.2 37884 1onrA 316 3.04e+01 1onrA c.1.10.1 29169 1gca 309 3.06e+01 1gca c.93.1.1 35659 1qguA 478 3.07e+01 1qguA c.92.2.3 35625 1qh8A 478 3.07e+01 1qguA c.92.2.3 35633 1fyeA 229 3.08e+01 1fyeA c.23.16.4 31477 1be1 137 3.15e+01 1be1 c.23.6.1 31237 1ybvA 283 3.20e+01 1ybvA c.2.1.2 29948 1uok 558 3.22e+01 1uok b.71.1.1 27801 c.1.8.1 28788 1cqzA 554 3.26e+01 1cr6B c.108.1.2 43339 c.69.1.11 34689 1rdzA 337 3.28e+01 1frpA e.7.1.1 42882 1b43A 340 3.31e+01 1a76 a.60.7.1 18092 c.53.1.2 33362 3pga1 337 3.32e+01 4pgaA 1cokA 68 3.33e+01 1cokA a.60.1.2 17945 1bh5A 183 3.34e+01 1qipA d.32.1.1 38476 1f2dA 341 3.35e+01 1f2dA c.79.1.1 35298 1dq3A 454 3.40e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1iloA 77 3.41e+01 c.47.1.1 66205 1stfI 98 3.41e+01 1stfI d.17.1.2 38006 1fwkA 296 3.44e+01 1fwkA d.14.1.5 37576 d.58.26.1 39398 1pft 50 3.46e+01 1pft g.41.3.1 45206 1cr6B 554 3.46e+01 1cr6B c.108.1.2 43338 c.69.1.11 34688 1jflA 228 3.53e+01 1konA 249 3.57e+01 1poiA 317 3.62e+01 1poiA c.63.1.1 34153 1ek1A 554 3.65e+01 1cr6B c.108.1.2 43335 c.69.1.11 34685 1kv5A 250 3.66e+01 1sgt 223 3.66e+01 5ptp b.47.1.1 25814 1jf8A 131 3.68e+01 c.44.1.1 66621 2gbp 309 3.74e+01 1gca c.93.1.1 35657 1fjgP 88 3.74e+01 1emwA d.27.1.1 38444 1ewqA 765 3.75e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1qo2A 241 3.83e+01 1qo2A c.1.2.1 28533 1rpmA 278 3.84e+01 2shpA c.45.1.2 32679 1yagG 125 3.87e+01 1d0nA d.109.1.1 40846 2dpmA 284 3.90e+01 2dpmA c.66.1.10 34246 1d4xG 126 3.91e+01 1d0nA d.109.1.1 59109 1i6wA 181 3.94e+01 1i6wA c.69.1.18 61859 1hyuA 521 3.96e+01 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780