# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1cjwA 166 1.02e-06 1cjwA d.108.1.1 40818 1i12A 160 2.30e-06 1i21A d.108.1.1 61515 1i21A 159 2.61e-06 1i21A d.108.1.1 61549 1i1dA 161 4.85e-06 1i21A d.108.1.1 61526 1qsmA 152 4.91e-05 1qsmA d.108.1.1 40808 1qstA 160 8.08e-03 1yghA d.108.1.1 40804 1bob 320 1.54e-02 1bob d.108.1.1 40816 1yghA 164 5.87e-02 1yghA d.108.1.1 40802 1nmtA 392 1.16e-01 1nmtA d.108.1.2 40823 d.108.1.2 40824 1bo4B 168 2.86e-01 1bo4A d.108.1.1 40799 1iicA 422 7.57e-01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1pmaP 211 8.68e-01 1pmaP d.153.1.4 41863 1fjgK 129 8.83e-01 1fjfK c.55.4.1 33733 1atg 231 9.98e-01 1atg c.94.1.1 35834 1b87A 181 1.16e+00 1b87A d.108.1.1 40797 1bo4A 168 1.20e+00 1bo4A d.108.1.1 40798 1seiA 130 1.41e+00 1seiA d.140.1.1 41463 1nar 290 2.69e+00 1nar c.1.8.5 28988 1ctt 294 2.98e+00 1ctt c.97.1.1 36022 c.97.1.1 36023 1dxeA 256 3.21e+00 1dxeA c.1.12.5 29310 1ddzA 496 3.27e+00 1ddzA c.53.2.1 33372 c.53.2.1 33373 2napA 723 4.39e+00 2napA b.52.2.2 26926 c.81.1.1 35334 1an7A 136 4.95e+00 1seiA d.140.1.1 41465 1lgyA 269 5.12e+00 3tgl c.69.1.17 34758 1cvrA 435 5.45e+00 1cvrA b.1.1.5 21949 c.17.1.2 31006 1qg3A 195 5.69e+00 1qg3A b.1.2.1 21993 b.1.2.1 21994 1be3D 241 6.88e+00 1be3D a.3.1.3 15955 f.2.1.8 43666 1rypI 222 6.96e+00 d.153.1.4 41877 1gjuA 637 7.00e+00 b.71.1.1 60580 c.1.8.1 60581 2pldA 105 7.44e+00 1qadA d.93.1.1 40521 1gq2A 555 7.56e+00 1bo1A 416 7.66e+00 1bo1A d.143.1.2 41591 1gjwA 637 7.99e+00 b.71.1.1 60582 c.1.8.1 60583 1who 96 8.27e+00 1who b.7.3.1 23215 2dri 271 8.90e+00 2dri c.93.1.1 35637 1cliA 345 9.07e+00 1cliA d.79.4.1 39816 d.139.1.1 41459 1i05A 180 9.30e+00 1mup b.60.1.1 27130 1art 396 9.52e+00 1ajsA c.67.1.1 34285 1g2qA 187 9.54e+00 c.61.1.1 65117 1jv4A 162 9.75e+00 b.60.1.1 67343 1i06A 180 9.91e+00 1mup b.60.1.1 27131 1ccwA 137 1.00e+01 1be1 c.23.6.1 31238 1spa 396 1.01e+01 1ajsA c.67.1.1 34291 2scuA 288 1.04e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1mup 166 1.07e+01 1mup b.60.1.1 27133 1qisA 396 1.12e+01 1ajsA c.67.1.1 34284 1bx2B 191 1.12e+01 1iakB b.1.1.2 21610 d.19.1.1 38184 1aj6 219 1.14e+01 1aj6 d.122.1.2 41106 1opr 213 1.17e+01 1opr c.61.1.1 34091 1agx 331 1.21e+01 4pgaA c.88.1.1 35564 1bqcA 302 1.22e+01 1bqcA c.1.8.3 28831 1gm6A 175 1.22e+01 1ig8A 486 1.26e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1eudA 311 1.30e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1scuA 288 1.30e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1i52A 236 1.33e+01 1i52A c.68.1.13 61767 1zac 90 1.33e+01 1ncx a.39.1.5 17236 1ew3A 159 1.45e+01 1mup b.60.1.1 27114 1i6pA 220 1.47e+01 1ddzA c.53.2.1 61848 2dubE 261 1.48e+01 1nzyA c.14.1.3 30916 1ahxA 396 1.51e+01 1ajsA c.67.1.1 34293 2acr 315 1.53e+01 1frb c.1.7.1 28674 1lh0A 213 1.60e+01 1kafA 108 1.61e+01 d.199.1.1 68372 1ars 396 1.63e+01 1ajsA c.67.1.1 34287 1ndk 155 1.63e+01 1npk d.58.6.1 39118 1kvkA 395 1.64e+01 1npk 154 1.65e+01 1npk d.58.6.1 39099 1jbgA 109 1.68e+01 a.6.1.3 66480 2admA 421 1.84e+01 2admA c.66.1.10 34238 1g38A 393 1.91e+01 2admA c.66.1.10 60235 1gpt 47 1.97e+01 1gpt g.3.7.5 44175 1f2tA 149 1.97e+01 1f2tA c.37.1.12 32373 1ads 315 1.98e+01 1frb c.1.7.1 28671 2fha 183 2.00e+01 2fha a.25.1.1 16674 2i1b 153 2.04e+01 2i1b b.42.1.2 25538 1fha 183 2.04e+01 2fha a.25.1.1 16675 1i1b 153 2.12e+01 2i1b b.42.1.2 25537 1gefA 123 2.15e+01 1gefA c.52.1.18 60465 1a4mA 349 2.17e+01 1a4mA c.1.9.1 29014 1cknA 330 2.20e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1c3cA 429 2.21e+01 1c3cA a.127.1.1 19425 1bhgA 613 2.24e+01 1bhgA b.1.4.1 22161 b.18.1.5 23766 c.1.8.3 28889 1jbeA 128 2.24e+01 3chy c.23.1.1 62845 1hlgA 371 2.31e+01 1hlgA c.69.1.6 34656 1ckmA 330 2.32e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 2u1a 88 2.32e+01 2u1a d.58.7.1 39164 1dmgA 225 2.35e+01 1dmgA c.22.1.1 31036 1dkgD 383 2.40e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1u9aA 160 2.42e+01 1u9aA d.20.1.1 38333 1rtfB 252 2.42e+01 5ptp 1e42A 258 2.49e+01 1e42A b.1.10.1 22316 d.105.1.1 40792 2pleA 105 2.55e+01 1qadA d.93.1.1 40522 1d4tA 104 2.58e+01 1d4tA d.93.1.1 40537 1ffkO 154 2.59e+01 1ffkO d.55.1.1 38899 1ebfA 358 2.63e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1lap 488 2.66e+01 1lam c.50.1.1 33171 c.56.5.3 33834 1bvzA 585 2.76e+01 1bvzA b.1.1.5 21856 b.71.1.1 27783 c.1.8.1 28770 1bdg 451 2.82e+01 1qhaA c.55.1.3 33461 c.55.1.3 33462 1dmtA 696 2.87e+01 1dmtA d.92.1.4 40296 1em9A 154 2.88e+01 1d1dA a.73.1.1 18333 1thx 115 2.95e+01 1thx c.47.1.1 32732 1napA 70 2.95e+01 1tvxA d.9.1.1 37445 1add 349 2.99e+01 1a4mA c.1.9.1 29020 1f6yA 262 3.00e+01 1f6yA c.1.21.2 29673 1qcsA 211 3.01e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 2matA 264 3.03e+01 1c24A d.127.1.1 41146 1aw0 72 3.05e+01 1aw0 d.58.17.1 39342 1ypcI 64 3.06e+01 2sniI d.40.1.1 38570 1rkd 309 3.06e+01 1rkd c.72.1.1 34928 1avsA 90 3.10e+01 1cll a.39.1.5 17226 1fvuA 133 3.11e+01 1ixxB d.169.1.1 42345 1dpe 507 3.19e+01 1dpe c.94.1.1 35799 1opc 110 3.21e+01 1opc a.4.6.1 16231 1fmb 104 3.41e+01 1fmb b.50.1.1 26777 3mdeA 385 3.41e+01 3mdeA a.29.3.1 16594 e.6.1.1 42855 1am2 199 3.41e+01 1am2 b.86.1.2 28381 1dlhB 188 3.42e+01 1iakB b.1.1.2 21598 d.19.1.1 38172 1esmA 316 3.46e+01 1esmA c.37.1.6 31953 1bcpA 235 3.47e+01 1bcpA d.166.1.1 42255 1dppA 507 3.49e+01 1dpe c.94.1.1 35800 1ebuA 358 3.51e+01 1ebuA c.2.1.3 30035 d.81.1.2 39950 1bqsA 209 3.53e+01 1bqsA b.1.1.4 21704 b.1.1.4 21705 1qddA 144 3.53e+01 1qddA d.169.1.1 42324 1l1lA 739 3.54e+01 1qr6A 584 3.54e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 1cor 82 3.54e+01 451c a.3.1.1 15903 1lam 484 3.60e+01 1lam c.50.1.1 33166 c.56.5.3 33829 1ris 101 3.61e+01 1ris d.58.14.1 39314 1qqqA 264 3.65e+01 1bkpA d.117.1.1 40931 2tbs 222 3.68e+01 5ptp b.47.1.2 26009 1c24A 263 3.71e+01 1c24A d.127.1.1 41148 1bx4A 345 3.71e+01 1bx4A c.72.1.1 34935 1oaa 259 3.83e+01 1oaa c.2.1.2 29829