# List of top-scoring protein chains for T0249.t2k-w0.5 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 1ku9A 152 5.14e-02 a.4.5.36 77544 1o99A 511 1.78e-01 c.105.1.1 81235 c.76.1.3 81236 1o98A 511 1.79e-01 c.105.1.1 86684 c.76.1.3 86685 1jgsA 138 3.21e-01 a.4.5.28 66683 1cjyA 749 5.20e-01 1rlw b.7.1.1 23178 c.19.1.2 34986 1o60A 292 7.11e-01 c.1.10.4 -5549 1a8y 367 8.11e-01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1e87A 118 8.45e-01 1b6e d.169.1.1 42327 1j2qA 237 1.41e+00 d.153.1.4 84029 1j5yA 187 1.54e+00 a.4.5.1 71592 d.94.2.1 71593 1r0vA 305 1.75e+00 c.52.2.1 -7572 c.52.2.1 -7573 d.75.1.1 -10344 1fm5A 199 1.97e+00 1fm5A d.169.1.1 42330 1e08A 371 2.31e+00 i.4.1.1 45914 1i1sA 96 2.56e+00 1bjaA a.4.5.9 16124 1bjaA 95 2.60e+00 1bjaA a.4.5.9 16122 1vicA 262 3.17e+00 c.68.1.13 -8252 1o5lA 213 3.29e+00 b.82.3.2 -4915 1vjzA 341 3.33e+00 c.1.8.3 -5318 1bjz 207 3.61e+00 2tct a.4.1.9 16065 a.121.1.1 19242 2tct 207 3.71e+00 2tct a.4.1.9 16063 a.121.1.1 19240 1r72A 211 3.85e+00 unknown_sccs -215 unknown_sccs -5981 1lj9A 144 3.97e+00 a.4.5.28 78035 2trt 217 3.97e+00 2tct a.4.1.9 16064 a.121.1.1 19241 1o0iA 138 4.23e+00 d.38.1.5 86532 1o3sA 200 4.57e+00 a.4.5.4 86609 b.82.3.2 86610 1qpiA 203 4.70e+00 2tct a.4.1.9 16072 a.121.1.1 19249 2a2uA 181 5.59e+00 1mup b.60.1.1 27135 1aocA 175 5.89e+00 1aocA g.17.1.5 44817 1rcuA 195 5.92e+00 unknown_sccs -7279 1ntyA 311 7.11e+00 1i1gA 141 7.51e+00 a.4.5.32 65982 d.58.4.2 65983 1fjgH 138 7.87e+00 1seiA d.140.1.1 41468 1an7A 136 7.95e+00 1seiA d.140.1.1 41465 1i6xA 209 8.63e+00 a.4.5.4 83673 b.82.3.2 83674 1i5zA 209 8.88e+00 a.4.5.4 83669 b.82.3.2 83670 1g6nA 210 8.92e+00 2cgpA a.4.5.4 16100 b.82.3.2 28139 1oyiA 82 9.07e+00 a.4.5.19 -292 1l0gA 358 9.58e+00 e.3.1.1 73400 1hw5A 210 9.90e+00 2cgpA a.4.5.4 16098 b.82.3.2 28137 1o3tA 200 9.96e+00 a.4.5.4 86611 b.82.3.2 86612 1q1hA 110 1.05e+01 unknown_sccs -262 1mh6A 125 1.05e+01 d.32.1.2 79116 1ewjA 126 1.06e+01 1ecsA d.32.1.2 59526 1cgpA 205 1.10e+01 a.4.5.4 16096 b.82.3.2 28135 1j75A 67 1.16e+01 a.4.5.19 62673 1dc1A 323 1.32e+01 1dc1A c.52.1.11 33321 1fp2A 352 1.33e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1lvaA 258 1.36e+01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1ecsA 126 1.38e+01 1ecsA d.32.1.2 59407 1ruoA 209 1.40e+01 2cgpA a.4.5.4 16105 b.82.3.2 28144 1gph1 465 1.41e+01 1ecfB 1v7wA 807 1.41e+01 1ao0A 459 1.45e+01 1ecfB c.61.1.1 34049 d.153.1.1 41816 1lea 84 1.46e+01 1lea a.4.5.2 16085 1res 43 1.51e+01 1ret a.4.1.2 16023 1pylA 97 1.55e+01 1i8kB 124 1.58e+01 b.1.1.1 71131 1i6zA 135 1.60e+01 a.7.7.1 61861 1iq5B 27 1.63e+01 1lnqA 336 1.64e+01 c.2.1.9 74049 f.14.1.1 74050 1hyqA 263 1.68e+01 1hyqA c.37.1.10 61412 1j2rA 199 1.72e+01 unknown_sccs -6799 1dpfA 180 1.78e+01 1ctqA c.37.1.8 32046 1gt6A 269 1.79e+01 c.69.1.17 76342 1tib 269 1.84e+01 3tgl c.69.1.17 34738 1hleA 345 1.96e+01 1ovaA e.1.1.1 42618 1glaG 501 1.98e+01 1glcG c.55.1.4 33507 c.55.1.4 33508 1bu6O 501 1.99e+01 1glcG c.55.1.4 33499 c.55.1.4 33500 1gljO 501 1.99e+01 1glcG c.55.1.4 33525 c.55.1.4 33526 1j2pA 246 2.01e+01 d.153.1.4 84022 1l8bA 190 2.06e+01 d.86.1.1 73683 1fs0G 230 2.10e+01 1fs0G c.49.2.1 59999 1q5rA 259 2.23e+01 d.153.1.4 -11440 1q5qA 259 2.25e+01 d.153.1.4 -11433 1m6dA 214 2.25e+01 d.3.1.1 84849 1r22A 122 2.29e+01 1fyeA 229 2.62e+01 1fyeA c.23.16.4 31477 1r1tA 122 2.65e+01 1ng2A 193 2.65e+01 b.34.2.1 85660 b.34.2.1 85661 1uecA 193 2.68e+01 b.34.2.1 88481 b.34.2.1 88482 1ipc 217 2.80e+01 1jhfA 202 2.87e+01 a.4.5.2 63057 b.87.1.1 63058 1jhhA 202 2.91e+01 a.4.5.2 63060 b.87.1.1 63061 1qiuA 264 2.91e+01 1qhvA b.21.1.1 23843 b.83.1.1 28208 1nn83 235 2.91e+01 1hxs3 237 2.92e+01 1pov3 238 2.92e+01 1aym3 1i94H 138 2.96e+01 1seiA d.140.1.1 61999 1hfeL 421 3.22e+01 1fehA c.96.1.1 36018 d.58.1.5 39001 1rh5A 436 3.25e+01 unknown_sccs -12298 1rhzA 436 3.26e+01 unknown_sccs -12299 1dcjA 81 3.33e+01 1dcjA d.68.3.3 59115 1ax4A 467 3.34e+01 1ax4A c.67.1.2 34391 1bxnA 485 3.43e+01 1burA c.1.14.1 29376 d.58.9.1 39282 1jipA 403 3.46e+01 a.104.1.1 66748 1nh1A 330 3.52e+01 unknown_sccs -11798 1sssA 205 3.58e+01 1avmA a.2.11.1 15738 d.44.1.1 38735 1pujA 282 3.72e+01 c.37.1.8 88294 1azsA 220 3.84e+01 1azsA d.58.29.1 39416 1culA 217 3.84e+01 1azsA d.58.29.1 39417 1ionA 243 3.90e+01 c.37.1.10 62633 1cs4A 225 3.93e+01 1azsA d.58.29.1 39418 1qzzA 374 3.95e+01 a.4.5.29 -277 c.66.1.12 -8045