# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-scores 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 1qs1A 462 6.11e-02 1qs1A d.166.1.1 42260 d.166.1.1 42261 1giqA 413 4.92e-01 d.166.1.1 76224 d.166.1.1 76225 1omwA 689 1.01e+00 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1rz1A 161 1.84e+00 b.45.1.2 -4088 1jeyB 565 2.20e+00 1jeqB unknown_sccs -4431 unknown_sccs -7995 1ako 268 2.47e+00 1ako d.151.1.1 41779 1thv 207 2.84e+00 1thv b.25.1.1 23904 1rqwA 207 4.66e+00 b.25.1.1 -3313 1kqfB 294 4.99e+00 d.58.1.5 75900 f.23.22.1 75901 1i8dA 213 5.07e+00 b.43.4.3 61953 b.43.4.3 61954 1ush 550 5.07e+00 1ush d.114.1.1 40923 d.159.1.2 42079 1bob 320 5.53e+00 1bob d.108.1.1 40816 1hh2P 344 6.13e+00 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1b78A 193 6.19e+00 1b78A c.51.4.1 33221 1kwnA 207 6.58e+00 b.25.1.1 77568 1vybA 238 7.08e+00 4pep 326 7.16e+00 1smrA b.50.1.2 26843 1v7rA 186 7.93e+00 c.51.4.1 -7546 5croA 66 8.69e+00 1orc a.35.1.2 17044 1el6A 219 9.00e+00 1el6B d.182.1.1 42606 1uyrA 737 9.29e+00 c.14.1.4 -6258 c.14.1.4 -6259 1i40A 175 9.75e+00 b.40.5.1 66024 1lr0A 129 1.00e+01 d.212.1.1 74213 1wejH 223 1.09e+01 1igtB b.1.1.1 20361 b.1.1.2 21353 2prd 174 1.12e+01 2prd b.40.5.1 25435 1mvuB 121 1.13e+01 b.1.1.1 -2250 1bx4A 345 1.14e+01 1bx4A c.72.1.1 34935 1gpc 218 1.15e+01 1gpc b.40.4.7 25393 1n4xH 120 1.19e+01 b.1.1.1 85324 1ew0A 130 1.27e+01 1drmA d.110.3.2 40905 1i0sA 169 1.28e+01 1i0rA b.45.1.2 61491 1fsiA 189 1.31e+01 1fsiA d.61.1.1 39536 1omiA 248 1.32e+01 a.4.5.4 87079 b.82.3.3 87080 1i0rA 169 1.40e+01 1i0rA b.45.1.2 61489 1j05B 121 1.43e+01 b.1.1.1 -2251 1hq0A 295 1.46e+01 1hzgA d.194.1.1 61122 1o70A 324 1.50e+01 b.118.1.1 81115 b.118.1.1 81116 1lkfA 299 1.53e+01 1pvl f.6.1.1 43821 1c3mA 147 1.61e+01 1jotA b.77.3.1 27983 1aisA 182 1.63e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1lm8V 160 1.67e+01 b.3.3.1 74035 1s5dA 240 1.71e+01 d.166.1.1 -11563 1qhlA 227 1.81e+01 1qhlA c.37.1.12 32382 8fabA 212 1.82e+01 8fabA b.1.1.1 19772 b.1.1.2 20882 1qtsA 247 1.82e+01 1qtsA b.1.10.1 22313 d.105.1.1 40789 1iz6A 138 1.85e+01 b.34.5.2 76976 b.40.4.5 76977 1js8A 394 1.87e+01 a.86.1.1 67219 b.112.1.1 67220 1sjyA 159 1.96e+01 d.113.1.1 -10908 1mexL 213 2.00e+01 b.1.1.1 -2124 b.1.1.2 -2352 1g7sA 594 2.01e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1guiA 155 2.07e+01 b.18.1.14 76351 1obdA 306 2.09e+01 d.143.1.1 86767 1aun 208 2.31e+01 1thv b.25.1.1 23900 1c5cL 214 2.31e+01 32c2A b.1.1.1 20474 b.1.1.2 21438 1vcbC 160 2.33e+01 1vcbC b.3.3.1 22535 1nls 237 2.36e+01 1nls b.29.1.1 23928 2end 138 2.50e+01 2end a.18.1.1 16400 1knwA 425 2.56e+01 b.49.2.3 -4274 c.1.6.1 -5229 1p7gA 222 2.62e+01 a.2.11.1 -108 d.44.1.1 -9742 1gpjA 404 2.67e+01 a.151.1.1 65451 c.2.1.7 65452 d.58.39.1 65453 1j71A 334 2.73e+01 1eagA b.50.1.2 62669 1e1hA 287 2.80e+01 d.92.1.7 83167 1vjuA 309 2.86e+01 unknown_sccs -9594 1lswA 131 2.89e+01 d.110.3.2 78181 1tetL 216 2.90e+01 32c2A b.1.1.1 19902 b.1.1.2 20996 1obwA 175 2.90e+01 2prd b.40.5.1 25416 1hp1A 516 3.01e+01 d.114.1.1 70976 d.159.1.2 70977 1kyfA 247 3.15e+01 b.1.10.1 73220 d.105.1.1 73221 1oacA 727 3.34e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1mixA 206 3.38e+01 a.11.2.1 79166 b.55.1.5 79167 1jnuA 104 3.44e+01 d.110.3.6 71762 1n9lA 109 3.45e+01 d.110.3.6 85468 2dnjA 260 3.49e+01 3dni d.151.1.1 41790 1b1cA 181 3.54e+01 1amoA c.23.5.2 31212 1mjuL 219 3.59e+01 b.1.1.1 -2083 b.1.1.2 -2360 1rybA 212 3.59e+01 c.56.3.1 -7858 1ev0A 58 3.65e+01 1ev0A d.71.1.1 39594 1h3fA 432 3.79e+01 c.26.1.1 76631 d.66.1.4 76632 1jh6A 189 3.79e+01 d.61.1.1 66707 2phlA 397 3.85e+01 1dgwA b.82.1.2 28082 b.82.1.2 28083 1j0hA 588 3.85e+01 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 1dzaA 129 3.87e+01 7rsa d.5.1.1 37275 1v6fA 151 3.92e+01 1lylA 504 3.92e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1cx4A 305 3.94e+01 b.82.3.2 59099 b.82.3.2 59100 1pvmA 184 3.97e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799