# List of top-scoring protein chains for t2k-100-30-str2 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 1vi7A 217 4.91e+00 unknown_sccs -9115 unknown_sccs -10052 1r7lA 110 5.10e+00 1i7hA 111 5.51e+00 d.15.4.1 71122 1uzpA 162 6.02e+00 g.3.11.1 -12511 g.3.11.1 -12512 g.23.1.1 -12685 1dl0A 37 7.80e+00 1dl0A g.3.6.2 44112 1k28A 584 9.32e+00 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 1cc1S 283 9.84e+00 2frvA e.19.1.1 43313 1nngA 153 1.07e+01 d.38.1.1 -9636 1nh2C 79 1.07e+01 b.56.1.1 -4381 1d5mB 192 1.14e+01 1iakB b.1.1.2 21618 d.19.1.1 38192 1ukgA 252 1.29e+01 b.29.1.1 -3390 1n3oA 252 1.56e+01 b.29.1.1 79967 1je6A 275 1.66e+01 b.1.1.2 71638 d.19.1.1 71639 1nkxA 348 1.68e+01 c.94.1.2 -8704 1kllA 130 1.68e+01 d.32.1.2 72720 1jt7A 146 1.69e+01 b.42.1.1 67255 1sbxA 106 1.69e+01 1duzB 100 1.71e+01 1agdB b.1.1.2 20671 1k5nB 100 1.72e+01 b.1.1.2 77268 1jqzA 146 1.75e+01 b.42.1.1 67109 1i4fB 100 1.80e+01 1agdB b.1.1.2 61689 1k87A 669 1.82e+01 a.176.1.1 77286 c.1.23.2 77287 1agdB 99 1.85e+01 1agdB b.1.1.2 20742 1hsbB 99 1.85e+01 1agdB b.1.1.2 20737 1v5sA 126 1.91e+01 2mbr 340 1.94e+01 2mbr d.145.1.2 41749 d.146.1.1 41762 1bxvA 91 1.96e+01 1aac b.6.1.1 22875 1uxy 340 1.96e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1pqzA 238 1.98e+01 1j58A 385 1.98e+01 b.82.1.2 71531 1vmoA 163 2.07e+01 1vmoA b.77.1.1 27974 2irfG 113 2.09e+01 2irfG a.4.5.23 16185 1auk 489 2.13e+01 1auk c.76.1.2 35030 1hxmA 229 2.16e+01 1hxmA b.1.1.1 61367 b.1.1.2 61368 1ylvA 342 2.18e+01 1b4kA c.1.10.3 29180 1p49A 562 2.23e+01 c.76.1.2 -8432 1tplA 426 2.30e+01 1ax4A c.67.1.2 34387 1id0A 152 2.31e+01 d.122.1.3 66111 1mr7A 209 2.33e+01 b.81.1.3 -4798 1m16A 146 2.33e+01 b.42.1.1 -3987 1kk6A 209 2.33e+01 b.81.1.3 68657 1t6lA 290 2.38e+01 1i7dA 659 2.41e+01 1d6mA e.10.1.1 61886 1pztA 286 2.47e+01 c.68.1.2 -8213 1jn8B 273 2.56e+01 1h9sA 140 2.60e+01 1b9mA b.40.6.2 60843 b.40.6.2 60844 1aw5 326 2.64e+01 1b4kA c.1.10.3 29181 1iva 48 2.64e+01 1agg g.3.6.2 44106 1nmmB 286 2.73e+01 c.68.1.2 80662 1dypA 271 2.75e+01 1dypA b.29.1.2 24185 1rwhA 757 2.78e+01 a.102.3.2 -1340 b.24.1.1 -3300 b.30.5.2 -3508 1eit 37 2.80e+01 1eit g.3.6.2 44108 1jmcA 246 2.80e+01 1jmcA b.40.4.3 25300 b.40.4.3 25301 1ytfC 79 2.81e+01 1ytfC b.56.1.1 27010 1mzeA 351 2.81e+01 b.82.2.6 79694 1uvqB 198 2.85e+01 b.1.1.2 -2659 d.19.1.1 -9348 1ffkN 95 2.93e+01 1ffkN b.34.5.1 24606 1jeiA 53 2.93e+01 1jeiA a.140.1.1 62918 6prcL 273 3.10e+01 6prcL f.26.1.1 43434 1h2kA 349 3.11e+01 b.82.2.6 76572 1j8wB 273 3.14e+01 1a81A 254 3.19e+01 1a81A d.93.1.1 40507 d.93.1.1 40508 1auiA 521 3.26e+01 1auiA d.159.1.3 42085 1cbs 137 3.34e+01 1hmt b.60.1.2 27201 1sfp 114 3.36e+01 1sfp b.23.1.1 23895 1dbhA 354 3.37e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1dlhB 188 3.39e+01 1iakB b.1.1.2 21598 d.19.1.1 38172 1qq2A 199 3.40e+01 1qq2A c.47.1.10 33064 1o4tA 133 3.42e+01 b.82.1.9 86622 2if1 126 3.44e+01 2if1 d.64.1.1 39547 1d6mA 653 3.49e+01 1d6mA e.10.1.1 43248 1fgxA 288 3.51e+01 1fgxA c.68.1.2 34508 1nf5B 286 3.53e+01 c.68.1.2 80454 1tyu 543 3.55e+01 1tyv b.80.1.6 28037 1k8kC 372 3.61e+01 b.69.4.1 68308 1b3jA 274 3.70e+01 1agdA b.1.1.2 20855 d.19.1.1 38319 1pvc2 271 3.71e+01 1aym2 1tyv 542 3.71e+01 1tyv b.80.1.6 28038 1dxrL 273 3.78e+01 6prcL f.26.1.1 43431 1qq1A 559 3.83e+01 1tyv b.80.1.6 28041 1tvxA 75 3.87e+01 1tvxA d.9.1.1 37441 1qa1A 554 3.88e+01 1tyv b.80.1.6 28047 1rxyA 253 3.88e+01 c.56.2.1 -7834