# 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 1ii5A 233 1.22e-02 c.94.1.1 62412 1iiwA 232 1.59e-02 c.94.1.1 62461 1gggB 226 2.37e-01 1lst c.94.1.1 35818 1wdnA 226 2.37e-01 1lst c.94.1.1 35816 1sbp 310 2.62e-01 1sbp c.94.1.1 35760 1e5dA 402 2.83e-01 1e5dA c.23.5.1 31208 d.157.1.3 42061 1gr2A 279 2.87e-01 1gr2A c.94.1.1 35825 1ftkA 279 3.61e-01 1gr2A c.94.1.1 35819 1cl1A 395 5.08e-01 1cl2A c.67.1.3 34395 1kq3A 376 6.07e-01 e.22.1.2 68790 1wod 233 7.22e-01 1wod c.94.1.1 35832 1ccwA 137 7.68e-01 1be1 c.23.6.1 31238 1cl2A 395 9.59e-01 1cl2A c.67.1.3 34397 1bmqA 167 1.36e+00 1pauA c.17.1.1 30998 1irxA 523 1.43e+00 2ts1 419 1.65e+00 2ts1 c.26.1.1 31564 1ibcA 194 1.66e+00 1pauA c.17.1.1 30997 1amf 233 2.19e+00 1wod c.94.1.1 35833 16pk 415 2.20e+00 16pk c.86.1.1 35454 1jmrA 249 2.28e+00 1qo7A 394 2.60e+00 1qo7A c.69.1.11 34697 4ts1A 319 2.65e+00 2ts1 c.26.1.1 31565 1brlA 355 2.69e+00 1lucA c.1.16.1 29553 1jr2A 286 2.84e+00 c.113.1.1 67111 1sqc 631 2.93e+00 2sqcA a.102.4.2 18858 a.102.4.2 18859 1sig 339 2.94e+00 1sig a.112.1.1 19068 1c7qA 445 3.04e+00 2pgi c.80.1.2 35307 1al3 324 3.15e+00 1al3 c.94.1.1 35835 1ek6A 348 3.16e+00 1xel c.2.1.2 29800 1ak7 174 3.20e+00 1cof d.109.1.2 40864 1dmaA 214 3.23e+00 1aerA d.166.1.1 42251 1i3kA 348 3.32e+00 1xel c.2.1.2 61595 1ezm 301 3.58e+00 1hyt d.92.1.2 58980 1a04A 215 3.59e+00 1a04A a.4.6.2 16234 c.23.1.1 31089 1aerA 205 3.86e+00 1aerA d.166.1.1 42249 1in4A 334 3.96e+00 1hqcA a.4.5.11 62597 c.37.1.13 62598 1tpfA 250 4.39e+00 1amk c.1.1.1 28467 2sqcA 631 4.53e+00 2sqcA a.102.4.2 18854 a.102.4.2 18855 1h75A 81 4.72e+00 1h75A c.47.1.1 60716 1a8q 274 4.74e+00 1brt c.69.1.12 34702 1hslA 238 4.80e+00 1lst c.94.1.1 35804 1zymA 258 4.81e+00 1zymA a.60.10.1 18110 c.8.1.2 30705 1j4aA 333 4.87e+00 1kv5A 250 4.92e+00 1f2vA 219 4.96e+00 1f2vA c.23.17.1 59627 1nhp 447 5.04e+00 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1gx3A 284 5.09e+00 1d2fA 390 5.24e+00 1d2fA c.67.1.3 34411 1cqmA 101 5.41e+00 1ris d.58.14.1 39321 1nhs 447 5.59e+00 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1i6aA 219 5.72e+00 c.94.1.1 61827 1ipwA 175 5.73e+00 2prd b.40.5.1 25427 1kgsA 225 5.79e+00 a.4.6.1 68596 c.23.1.1 68597 1joa 447 6.03e+00 1nhp c.3.1.5 30563 c.3.1.5 30564 d.87.1.1 40203 1db3A 372 6.21e+00 1db3A c.2.1.2 29813 1a4iA 301 6.42e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1jr3E 334 6.53e+00 a.80.1.1 63253 c.37.1.13 63254 1a4iB 301 6.64e+00 1a4iA c.2.1.7 30279 c.58.1.2 33927 1g3qA 237 6.71e+00 1hyqA c.37.1.10 60237 2aat 396 6.72e+00 1ajsA c.67.1.1 34348 1cqxA 403 6.85e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1cg2A 393 6.87e+00 1cg2A c.56.5.4 33844 d.58.19.1 39360 2gsaA 432 6.88e+00 2gsaA c.67.1.4 34446 1i40A 175 6.95e+00 b.40.5.1 66024 1ris 101 6.95e+00 1ris d.58.14.1 39314 1ej1A 190 6.97e+00 1ejhA d.86.1.1 40144 1hrdA 449 7.13e+00 1k89 c.2.1.7 30219 c.58.1.1 33867 1eudA 311 7.20e+00 2scuA c.2.1.8 30312 c.23.4.1 31140 1onrA 316 7.43e+00 1onrA c.1.10.1 29169 1e3dB 542 7.60e+00 1h2rL e.18.1.1 59189 1gg1A 350 7.68e+00 1qr7A c.1.10.4 29187 1dtwB 342 7.78e+00 1qs0B c.36.1.3 31828 c.48.1.2 33102 1obwA 175 7.80e+00 2prd b.40.5.1 25416 1qsdA 106 7.96e+00 1qsdA a.7.5.1 16335 1gnlA 544 8.14e+00 5ukdA 194 8.21e+00 1zin c.37.1.1 31851 1qf9A 194 8.29e+00 1zin c.37.1.1 31848 1bgvA 449 8.48e+00 1k89 c.2.1.7 30217 c.58.1.1 33865 1hd2A 161 8.62e+00 c.47.1.10 60962 1azwA 313 8.87e+00 1qtrA c.69.1.7 34658 1tmy 120 9.01e+00 1dbwA c.23.1.1 31083 1c7nA 399 9.09e+00 1d2fA c.67.1.3 34413 1l1eA 287 9.38e+00 1a62 130 9.47e+00 1a62 a.140.3.1 64708 b.40.4.5 64709 1e2uA 553 9.55e+00 1e1dA e.26.1.1 43362 1gntA 553 9.55e+00 1i1hA 219 9.62e+00 1f2vA c.23.17.1 61530 1b16A 254 1.00e+01 1b16A c.2.1.2 29875 1b74A 254 1.03e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1ejhA 190 1.03e+01 1ejhA d.86.1.1 40147 1k89 449 1.04e+01 1k89 c.2.1.7 30218 c.58.1.1 33866 1aogA 485 1.05e+01 3grs c.3.1.5 30517 c.3.1.5 30518 d.87.1.1 40190 1f7uA 607 1.05e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1a8vA 121 1.06e+01 1a62 a.140.3.1 64712 b.40.4.5 64713 1im8A 244 1.06e+01 c.66.1.14 66212 1epuA 591 1.07e+01 1dn1A e.25.1.1 43358 1e1dA 553 1.08e+01 1e1dA e.26.1.1 43363 1l8bA 190 1.09e+01 1mldA 314 1.09e+01 2cmd c.2.1.5 30122 d.162.1.1 42089 1ipcA 217 1.15e+01 1qbqA 333 1.15e+01 1ft1A a.118.6.1 19187 1a4uA 254 1.15e+01 1b16A c.2.1.2 29878 1jcqA 382 1.16e+01 a.118.6.1 66504 1ld8A 382 1.16e+01 3timA 250 1.16e+01 1amk c.1.1.1 28483 1l0wA 580 1.17e+01 2sas 185 1.20e+01 2sas a.39.1.5 17258 1lucA 355 1.21e+01 1lucA c.1.16.1 29547 1gcyA 527 1.22e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1d8dA 377 1.23e+01 1ft1A a.118.6.1 19185 1i69A 219 1.26e+01 c.94.1.1 61825 2gar 212 1.28e+01 2gar c.65.1.1 34161 1k4gA 386 1.28e+01 1pud 386 1.30e+01 1pud c.1.20.1 29658 1jilA 420 1.31e+01 c.26.1.1 66745 1qf8A 182 1.33e+01 1qf8A g.41.4.1 45212 1i74A 309 1.34e+01 1i74A c.107.1.1 61867 1qvaA 223 1.35e+01 1qvaA c.37.1.13 32411 1jcrA 377 1.36e+01 a.118.6.1 66506 1dhpA 292 1.37e+01 1dhpA c.1.10.1 29097 1exnA 290 1.41e+01 1exnA a.60.7.1 18088 c.53.1.2 33358 1i50F 155 1.42e+01 d.78.1.2 61760 1e3jA 352 1.42e+01 1e3jA b.35.1.2 24765 c.2.1.1 29781 1dkrA 317 1.43e+01 1dkuA c.61.1.2 34114 c.61.1.2 34115 1bs2A 607 1.43e+01 1bs2A a.27.1.1 16930 c.26.1.1 31597 d.67.2.1 39563 1qgxA 357 1.46e+01 1qgxA e.7.1.1 42973 1hkbA 917 1.47e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1dd5A 185 1.52e+01 1dd5A d.67.3.1 39564 1lkcA 364 1.53e+01 1cpcA 162 1.54e+01 1cpcA a.1.1.3 15643 1cvrA 435 1.55e+01 1cvrA b.1.1.5 21949 c.17.1.2 31006 1gsoA 431 1.56e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1ka1A 357 1.57e+01 e.7.1.1 68369 2dhqA 146 1.62e+01 2dhqA c.23.13.1 31382 1ft1A 377 1.63e+01 1ft1A a.118.6.1 19186 1ehyA 294 1.63e+01 1ehyA c.69.1.11 34693 1lst 239 1.68e+01 1lst c.94.1.1 35755 1ekeA 230 1.68e+01 1ekeA c.55.3.1 33572 1f4pA 147 1.68e+01 5nul c.23.5.1 59651 1gmeA 151 1.70e+01 b.15.1.1 65305 1gnuA 117 1.71e+01 d.15.1.3 65403 1kzhA 555 1.73e+01 1l0oA 150 1.75e+01 1pot 325 1.79e+01 1pot c.94.1.1 35807 1ikpA 613 1.82e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1akr 147 1.82e+01 1rcf c.23.5.1 31152 1f74A 293 1.85e+01 1nal3 c.1.10.1 29079 1j9eA 147 1.86e+01 c.23.5.1 62756 1oasA 322 1.88e+01 1oasA c.79.1.1 35293 1ggzA 148 1.89e+01 1bu5A 147 1.91e+01 5nul c.23.5.1 31155 1g2hA 61 1.92e+01 1g2hA a.4.1.10 60224 1chuA 540 1.92e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1c3pA 375 1.95e+01 1c3pA c.42.1.2 32606 1udh 244 1.96e+01 3eugA c.18.1.1 31015 3adk 195 1.96e+01 1zin c.37.1.1 31885 1tgoA 773 1.98e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 2fsp 124 2.02e+01 1dz3A c.23.1.1 31119 1a4mA 349 2.04e+01 1a4mA c.1.9.1 29014 1ddgA 374 2.06e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1mut 129 2.07e+01 1tum d.113.1.1 40921 1b00A 127 2.07e+01 3chy c.23.1.1 31122 1ftt 68 2.10e+01 2hddA a.4.1.1 15997 1f9aA 168 2.13e+01 1f9aA c.26.1.3 31602 2cmd 312 2.15e+01 2cmd c.2.1.5 30135 d.162.1.1 42102 1hg3A 225 2.18e+01 1hg3A c.1.1.1 61025 2cevA 299 2.19e+01 1d3vA c.42.1.1 32576 1pszA 303 2.22e+01 1toaA c.92.2.2 35600 1fcjA 322 2.24e+01 1oasA c.79.1.1 35289 1rypF 233 2.26e+01 1rypF d.153.1.4 41937 1fw9A 164 2.27e+01 1fw9A d.190.1.1 60059 1dkuA 317 2.29e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1p32A 209 2.30e+01 1p32A d.25.1.1 38379 1fb6A 105 2.34e+01 1thx c.47.1.1 32739 1gpjA 404 2.35e+01 a.151.1.1 65451 c.2.1.10 65452 d.58.39.1 65453 1qdeA 224 2.37e+01 1qvaA c.37.1.13 32410 1bxdA 161 2.38e+01 1bxdA d.122.1.3 41111 1ci4A 89 2.38e+01 1qckA a.60.5.1 17970 1udg 244 2.40e+01 3eugA c.18.1.1 31016 1js1X 324 2.41e+01 1eu8A 409 2.45e+01 1eu8A c.94.1.1 59502 1gr0A 367 2.47e+01 1c4xA 285 2.51e+01 1c4xA c.69.1.10 34684 1k78A 149 2.52e+01 a.4.1.5 68255 a.4.1.5 68256 1cleA 534 2.55e+01 1thg c.69.1.17 34771 1qhtA 775 2.56e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1kvkA 395 2.58e+01 1ln4A 104 2.59e+01 1a48 306 2.61e+01 1a48 d.143.1.1 41590 1exnB 290 2.64e+01 1exnA a.60.7.1 18089 c.53.1.2 33359 1f5aA 513 2.65e+01 1fa0B d.58.16.1 39337 e.9.1.2 43231 6gsvA 217 2.65e+01 1b8xA a.45.1.1 17633 c.47.1.5 32925 1jmvA 141 2.69e+01 c.29.1.2 66897 1qdlA 422 2.72e+01 1qdlA d.161.1.1 42088 1srrA 124 2.74e+01 1dz3A c.23.1.1 31110 1dlyA 164 2.75e+01 1dlyA a.1.1.1 14983 1fg7A 356 2.79e+01 1gewA c.67.1.1 59819 1gewA 356 2.81e+01 1gewA c.67.1.1 60470 1gdeA 389 2.83e+01 c.67.1.1 60456 1lcyA 325 2.85e+01 1add 349 2.86e+01 1a4mA c.1.9.1 29020 1qr7A 350 2.88e+01 1qr7A c.1.10.4 29191 153l 185 2.90e+01 153l d.2.1.5 36984 1yacA 208 2.91e+01 1yacA c.33.1.2 31757 1fehA 574 2.91e+01 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1e39A 571 2.92e+01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1jx6A 342 2.92e+01 c.93.1.1 67406 1qlaC 256 2.92e+01 1qlaC f.2.1.9 43722 1qjdA 571 2.92e+01 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 2fx2 147 2.95e+01 1rcf c.23.5.1 31158 1s01 283 2.95e+01 1gci c.41.1.1 32511 1isiA 265 2.96e+01 1k3kA 158 2.97e+01 1lc5A 364 2.98e+01 1idrA 136 3.02e+01 1dlyA a.1.1.1 62301 1hgxA 183 3.03e+01 1tc1A c.61.1.1 34027 1ytbB 180 3.04e+01 1ytbA d.129.1.1 41278 d.129.1.1 41279 1b4kA 337 3.04e+01 1b4kA c.1.10.3 29184 1qcrA 446 3.10e+01 1be3A d.185.1.1 59025 d.185.1.1 59026 1vid 221 3.11e+01 1vid c.66.1.1 34178 1ecl 597 3.15e+01 1ecl e.10.1.1 43238 1di0A 158 3.16e+01 1di0A c.16.1.1 30957 1dvjA 246 3.16e+01 1dvjA c.1.2.3 28546 1jeoA 180 3.17e+01 c.80.1.3 66611 1gkpA 458 3.21e+01 1ad1A 266 3.24e+01 1aj2 c.1.21.1 29668 1dctA 324 3.26e+01 6mhtA c.66.1.10 34244 2pgi 445 3.26e+01 2pgi c.80.1.2 35308 2ercA 244 3.27e+01 2ercA c.66.1.9 34224 1qcwA 410 3.31e+01 1gox c.1.4.1 28622 1egaA 301 3.32e+01 1egaA c.37.1.8 32150 d.52.3.1 38836 1tx4A 198 3.33e+01 1tx4A a.116.1.1 19098 1dvjC 246 3.35e+01 1dvjA c.1.2.3 28548 1km4A 247 3.35e+01 1tum 129 3.38e+01 1tum d.113.1.1 40922 1qckA 89 3.40e+01 1qckA a.60.5.1 17976 2ezxA 89 3.40e+01 1qckA a.60.5.1 17978 1kpf 126 3.43e+01 1kpf d.13.1.1 37507 1qfmA 710 3.48e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1kbqA 273 3.49e+01 c.23.5.3 68391 1d4aA 273 3.49e+01 1d4aA c.23.5.3 31219 1jtkA 136 3.52e+01 1ltzA 297 3.53e+01 2a0b 125 3.54e+01 2a0b a.24.10.1 16630 1lci 550 3.55e+01 1lci e.23.1.1 43349 1ytbA 180 3.58e+01 1ytbA d.129.1.1 41276 d.129.1.1 41277 1dofA 403 3.59e+01 1c3cA a.127.1.1 19429 1ejbA 168 3.60e+01 1rvv1 c.16.1.1 59417 3minC 491 3.65e+01 1qguA c.92.2.3 35607 1pytA 94 3.65e+01 1pytA d.58.3.1 39064 1d2eA 397 3.71e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1be3A 446 3.72e+01 1be3A d.185.1.1 58950 d.185.1.1 58951 1qrqA 325 3.73e+01 1qrqA c.1.7.1 28667 1az3A 244 3.75e+01 1rvaA c.52.1.2 33276 1c3oE 1073 3.76e+01 a.92.1.1 18564 c.24.1.1 31493 c.30.1.1 31685 c.30.1.1 31686 d.142.1.2 41530 d.142.1.2 41531 1kaeA 434 3.79e+01 1akz 223 3.79e+01 3eugA c.18.1.1 31007 1b93B 152 3.84e+01 1b93A c.24.1.2 31508 1jr7A 311 3.85e+01 b.82.2.3 63255 2dpg 485 3.89e+01 1dpgA c.2.1.3 30076 d.81.1.5 39991 1aky 221 3.89e+01 1zin c.37.1.1 31896 g.41.2.1 45197 1zfjA 491 3.91e+01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1jbbA 153 3.91e+01 1u9aA d.20.1.1 62842 1ukz 203 3.92e+01 1zin c.37.1.1 31840 1dcqA 278 3.93e+01 1dcqA a.118.2.1 19178 g.45.1.1 45326 1sspE 223 3.98e+01 3eugA c.18.1.1 31009