# List of top-scoring protein chains for t2k-100-30-bys 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 1avaC 181 2.89e+00 1avaC b.42.4.1 25604 1nykA 165 3.15e+00 b.33.1.1 86408 1je5A 206 4.72e+00 1je5A b.40.4.7 62909 1o7kA 131 5.67e+00 d.189.1.1 81144 1gd5A 130 5.83e+00 1gd5A d.189.1.1 60439 1m4jA 142 5.97e+00 d.109.1.2 78602 1eonA 245 6.14e+00 1rvaA c.52.1.2 33238 1wba 175 7.88e+00 1wba b.42.4.1 25591 1exmA 405 7.90e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1sx5A 244 8.26e+00 c.52.1.2 -7551 1fc4A 401 8.72e+00 1bs0A c.67.1.4 59760 1csp 67 9.89e+00 1mjc b.40.4.5 25321 1h3fA 432 1.09e+01 c.26.1.1 76631 d.66.1.4 76632 1kq6A 141 1.12e+01 d.189.1.1 -9926 1n0xL 215 1.14e+01 b.1.1.1 -2063 b.1.1.2 -2429 1ha3A 405 1.21e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1f6fB 210 1.30e+01 1axiB b.1.2.1 22033 b.1.2.1 22034 1mjc 69 1.35e+01 1mjc b.40.4.5 25319 1cs1C 386 1.40e+01 1ibjA c.67.1.3 34401 1kr5A 226 1.46e+01 c.66.1.7 68847 1iytA 42 1.50e+01 j.42.1.1 76974 1c9oA 66 1.53e+01 1mjc b.40.4.5 25325 1i1nA 226 1.55e+01 c.66.1.7 71102 1j6rA 214 1.62e+01 d.173.1.2 71598 1qtsA 247 1.65e+01 1qtsA b.1.10.1 22313 d.105.1.1 40789 1rvaA 244 1.74e+01 1rvaA c.52.1.2 33240 1g86A 142 1.75e+01 b.29.1.3 70161 1hdkA 141 1.81e+01 b.29.1.3 65807 1r8oA 96 1.86e+01 1tqyB 415 1.88e+01 1jg1A 235 1.95e+01 c.66.1.7 66661 1cs1A 386 2.02e+01 1ibjA c.67.1.3 34399 1m1cA 680 2.07e+01 e.42.1.1 78395 3minC 491 2.15e+01 1qguA c.92.2.3 35607 1b2sD 90 2.15e+01 1ay7B c.9.1.1 30837 1dyoA 160 2.17e+01 1dyoA b.18.1.7 23771 1eylA 186 2.24e+01 1wba b.42.4.1 25593 1vavA 222 2.25e+01 4matA 278 2.26e+01 1c24A d.127.1.1 41150 1h6yA 170 2.30e+01 b.18.1.7 70904 1jsdA 319 2.32e+01 b.19.1.2 63258 2minA 491 2.32e+01 1qguA c.92.2.3 35609 1daaA 282 2.33e+01 1daaA e.17.1.1 43270 1ts3A 194 2.37e+01 1aw7A b.40.2.2 25168 d.15.6.1 37757 1bj8 109 2.38e+01 1bquA b.1.2.1 22070 1ll1 590 2.38e+01 1lla a.85.1.1 18488 a.86.1.1 18499 b.1.18.3 21864 2matA 264 2.45e+01 1c24A d.127.1.1 41146 1kyfA 247 2.45e+01 b.1.10.1 73220 d.105.1.1 73221 1c24A 263 2.46e+01 1c24A d.127.1.1 41148 1mjfA 281 2.52e+01 c.66.1.17 79198 1danU 121 2.54e+01 1boy b.1.2.1 21954 1pxvA 183 2.65e+01 d.3.1.1 -8881 1lcl 142 2.68e+01 1lcl b.29.1.3 24216 1okcA 297 2.69e+01 unknown_sccs -12339 1shaA 104 2.70e+01 1fmk d.93.1.1 40424 1b7bA 310 2.75e+01 1b7bA c.73.1.1 34963 1amb 28 2.78e+01 j.42.1.1 46310 2dabA 282 2.88e+01 1daaA e.17.1.1 43274 1tgxA 60 2.88e+01 1tgxA g.7.1.1 44398 3daaA 277 2.94e+01 1daaA e.17.1.1 43272 1mjgM 729 2.96e+01 e.26.1.3 79204 1aw7A 194 3.02e+01 1aw7A b.40.2.2 25164 d.15.6.1 37753 1brsD 89 3.10e+01 1ay7B c.9.1.1 30825 1neu 124 3.16e+01 1neu b.1.1.1 19704 1rie 129 3.20e+01 1rie b.33.1.1 24427 1c1lA 136 3.25e+01 1c1lA b.29.1.3 24219 3tss 194 3.30e+01 1aw7A b.40.2.2 25160 d.15.6.1 37749 1gm9B 557 3.30e+01 1mat 264 3.36e+01 1c24A d.127.1.1 41152 1euvB 86 3.36e+01 1a5r d.15.1.1 37598 3ebx 62 3.38e+01 3ebx g.7.1.1 44389 1fp4A 492 3.39e+01 c.92.2.3 76187 1ay7B 89 3.42e+01 1ay7B c.9.1.1 30836 1gw1A 376 3.49e+01 c.1.8.3 76361 1j7dA 145 3.54e+01 1jatB d.20.1.1 62680 1bkzA 135 3.54e+01 1a3k b.29.1.3 24202 1gvhA 396 3.54e+01 a.1.1.2 70601 b.43.4.2 70602 c.25.1.5 70603 1fjjA 159 3.61e+01 1fjjA b.17.1.2 59852 1ktaA 365 3.66e+01 e.17.1.1 77533 1f2fA 104 3.72e+01 1fmk d.93.1.1 40455 3cd4 182 3.74e+01 1cdy b.1.1.1 19720 b.1.1.3 21659 1qh0A 295 3.79e+01 b.43.4.2 68891 c.25.1.1 68892 1ysc 421 3.79e+01 1ivyA c.69.1.5 34652 1odzA 386 3.82e+01 c.1.8.3 86889 1c8uA 285 3.84e+01 1c8uA d.38.1.3 38547 d.38.1.3 38548 1aipE 405 3.85e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1cc3A 130 4.00e+01 1nwpA b.6.1.1 23008