# List of top-scoring protein chains for t2k-100-30-str 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 5.28e-06 1cjwA d.108.1.1 40818 1i21A 159 2.29e-05 1i21A d.108.1.1 61549 1i12A 160 2.98e-05 1i21A d.108.1.1 61515 1i1dA 161 4.07e-05 1i21A d.108.1.1 61526 1qsmA 152 9.36e-05 1qsmA d.108.1.1 40808 1qstA 160 2.48e-02 1yghA d.108.1.1 40804 1nmtA 392 3.86e-02 1nmtA d.108.1.2 40823 d.108.1.2 40824 1bob 320 4.05e-02 1bob d.108.1.1 40816 1yghA 164 4.65e-02 1yghA d.108.1.1 40802 1bo4B 168 1.45e-01 1bo4A d.108.1.1 40799 1iicA 422 1.65e-01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1bo4A 168 4.58e-01 1bo4A d.108.1.1 40798 1pmaP 211 5.00e-01 1pmaP d.153.1.4 41863 1b87A 181 6.61e-01 1b87A d.108.1.1 40797 1seiA 130 1.20e+00 1seiA d.140.1.1 41463 1qg3A 195 2.39e+00 1qg3A b.1.2.1 21993 b.1.2.1 21994 2pldA 105 2.41e+00 1qadA d.93.1.1 40521 1fjgK 129 2.77e+00 1fjfK c.55.4.1 33733 1nar 290 4.00e+00 1nar c.1.8.5 28988 1atg 231 4.32e+00 1atg c.94.1.1 35834 1mup 166 4.81e+00 1mup b.60.1.1 27133 1jv4A 162 5.09e+00 b.60.1.1 67343 1i06A 180 5.16e+00 1mup b.60.1.1 27131 1i05A 180 5.16e+00 1mup b.60.1.1 27130 1an7A 136 5.47e+00 1seiA d.140.1.1 41465 2admA 421 5.58e+00 2admA c.66.1.10 34238 1g38A 393 5.92e+00 2admA c.66.1.10 60235 2napA 723 7.54e+00 2napA b.52.2.2 26926 c.81.1.1 35334 1c8uA 285 7.57e+00 1c8uA d.38.1.3 38547 d.38.1.3 38548 1gm6A 175 1.09e+01 1f2tB 148 1.13e+01 1f2tB 1eudA 311 1.21e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1g2qA 187 1.27e+01 c.61.1.1 65117 1aj6 219 1.33e+01 1aj6 d.122.1.2 41106 2pleA 105 1.35e+01 1qadA d.93.1.1 40522 1gq2A 555 1.36e+01 1i52A 236 1.37e+01 1i52A c.68.1.13 61767 1qr6A 584 1.44e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 1ew3A 159 1.47e+01 1mup b.60.1.1 27114 1fw9A 164 1.49e+01 1fw9A d.190.1.1 60059 1opc 110 1.51e+01 1opc a.4.6.1 16231 1gefA 123 1.57e+01 1gefA c.52.1.18 60465 1kafA 108 1.62e+01 d.199.1.1 68372 2u1a 88 1.63e+01 2u1a d.58.7.1 39164 1fp2A 352 1.67e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1gpt 47 1.68e+01 1gpt g.3.7.5 44175 1u9aA 160 1.83e+01 1u9aA d.20.1.1 38333 1fpxA 352 1.86e+01 1fpxA a.4.5.29 59950 c.66.1.12 59951 1bh5A 183 1.89e+01 1qipA d.32.1.1 38476 1ebfA 358 1.96e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1jc4A 148 1.96e+01 1jc4A d.32.1.4 62863 1rypF 233 1.98e+01 1rypF d.153.1.4 41937 1art 396 1.99e+01 1ajsA c.67.1.1 34285 2scuA 288 2.01e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1ebuA 358 2.05e+01 1ebuA c.2.1.3 30035 d.81.1.2 39950 1spa 396 2.11e+01 1ajsA c.67.1.1 34291 1opr 213 2.17e+01 1opr c.61.1.1 34091 1oatA 439 2.23e+01 2dkb c.67.1.4 34461 1fbnA 230 2.23e+01 1fbnA c.66.1.3 34181 1qisA 396 2.28e+01 1ajsA c.67.1.1 34284 1qipA 183 2.39e+01 1qipA d.32.1.1 38470 1jg5A 83 2.43e+01 d.205.1.1 66666 1npk 154 2.48e+01 1npk d.58.6.1 39099 2mnr 357 2.50e+01 2mnr c.1.11.2 29245 d.54.1.1 38889 1ewjA 126 2.53e+01 1ecsA d.32.1.2 59526 1dkgD 383 2.55e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1ndk 155 2.56e+01 1npk d.58.6.1 39118 1ahxA 396 2.62e+01 1ajsA c.67.1.1 34293 1dhy 292 2.63e+01 1han d.32.1.3 38504 d.32.1.3 38505 1lh0A 213 2.66e+01 1qcsA 211 2.67e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 1bx2B 191 2.68e+01 1iakB b.1.1.2 21610 d.19.1.1 38184 1zac 90 2.69e+01 1ncx a.39.1.5 17236 1ccwA 137 2.72e+01 1be1 c.23.6.1 31238 1ars 396 2.72e+01 1ajsA c.67.1.1 34287 1aerA 205 2.72e+01 1aerA d.166.1.1 42249 1rypH 205 2.75e+01 d.153.1.4 41876 1cvrA 435 2.76e+01 1cvrA b.1.1.5 21949 c.17.1.2 31006 1dmgA 225 2.76e+01 1dmgA c.22.1.1 31036 1gps 47 2.76e+01 1gpt g.3.7.5 44176 1ecsA 126 2.84e+01 1ecsA d.32.1.2 59407 1l1lA 739 2.93e+01 1agdA 276 2.97e+01 1agdA b.1.1.2 20741 d.19.1.1 38260 1who 96 3.00e+01 1who b.7.3.1 23215 1duzA 275 3.01e+01 1agdA b.1.1.2 20670 d.19.1.1 38224 1i4fA 275 3.01e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 1itbB 315 3.15e+01 1itbB b.1.1.4 21720 b.1.1.4 21721 b.1.1.4 21722 1ryp1 222 3.20e+01 1ryp1 1f39A 101 3.20e+01 1umuA b.87.1.1 28386 1scuA 288 3.24e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1dmaA 214 3.30e+01 1aerA d.166.1.1 42251 1han 297 3.34e+01 1han d.32.1.3 38506 d.32.1.3 38507 1ctt 294 3.34e+01 1ctt c.97.1.1 36022 c.97.1.1 36023 1e4fT 419 3.38e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1cqmA 101 3.40e+01 1ris d.58.14.1 39321 1lddA 74 3.43e+01 1id0A 152 3.50e+01 d.122.1.3 66111 1iakA 199 3.55e+01 1iakA b.1.1.2 21625 d.19.1.1 38199 1dxeA 256 3.55e+01 1dxeA c.1.12.5 29310 2oatA 439 3.57e+01 2dkb c.67.1.4 34452 1f02T 66 3.58e+01 1f02T j.67.1.1 46360 2dri 271 3.59e+01 2dri c.93.1.1 35637 1agx 331 3.63e+01 4pgaA c.88.1.1 35564 1rtfB 252 3.63e+01 5ptp 2matA 264 3.64e+01 1c24A d.127.1.1 41146 3pchM 238 3.66e+01 3pchM b.3.6.1 22748 3pcgM 238 3.66e+01 3pchM b.3.6.1 22742 1ris 101 3.67e+01 1ris d.58.14.1 39314 1avsA 90 3.79e+01 1cll a.39.1.5 17226 1d4tA 104 3.85e+01 1d4tA d.93.1.1 40537 1f6yA 262 3.85e+01 1f6yA c.1.21.2 29673 2acr 315 3.88e+01 1frb c.1.7.1 28674 1hj8A 222 3.92e+01 b.47.1.2 65844 1li5A 461 3.95e+01 1ig8A 486 3.95e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1irf 112 3.99e+01 2irfG a.4.5.23 16192 2tbs 222 3.99e+01 5ptp b.47.1.2 26009