# List of top-scoring protein chains for t2k-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 1vi7A 217 5.07e-01 unknown_sccs -9115 unknown_sccs -10052 1s72Q 96 1.24e+00 1jj2P 95 1.47e+00 1ffkN b.34.5.1 63101 1r7lA 110 1.53e+00 1ffkN 95 1.54e+00 1ffkN b.34.5.1 24606 1jmcA 246 1.77e+00 1jmcA b.40.4.3 25300 b.40.4.3 25301 1havA 217 2.12e+00 1havA b.47.1.4 26423 1o5uA 101 2.64e+00 b.82.1.8 -4845 1dw9A 156 2.82e+00 1dw9A a.35.1.4 17065 d.72.1.1 39596 1tyu 543 2.82e+00 1tyv b.80.1.6 28037 1jjgA 102 2.90e+00 b.40.4.5 71696 1tvxB 75 2.93e+00 1tvxA d.9.1.1 37442 1dwkA 156 2.95e+00 1dw9A a.35.1.4 17075 d.72.1.1 39606 1qa1A 554 3.00e+00 1tyv b.80.1.6 28047 1tsp 559 3.13e+00 1tyv b.80.1.6 28044 1v5sA 126 3.15e+00 1qq1A 559 3.41e+00 1tyv b.80.1.6 28041 1tyv 542 3.48e+00 1tyv b.80.1.6 28038 1cklB 126 4.13e+00 1cklB g.18.1.1 44853 g.18.1.1 44854 1jt7A 146 4.59e+00 b.42.1.1 67255 1q41A 424 4.70e+00 d.144.1.7 -11308 1he7A 126 4.74e+00 1wwcA b.1.1.4 60970 1hucA 47 5.07e+00 1hucA d.3.1.1 37049 1iw5A 113 5.29e+00 1v9jA 113 5.29e+00 d.52.6.1 -9781 1wwbX 103 5.35e+00 1wwcA b.1.1.4 21777 1jqzA 146 6.11e+00 b.42.1.1 67109 1iakB 185 6.56e+00 1iakB b.1.1.2 21626 d.19.1.1 38200 1m16A 146 6.72e+00 b.42.1.1 -3987 1auk 489 6.74e+00 1auk c.76.1.2 35030 1inlA 296 6.90e+00 c.66.1.17 66220 1tvxA 75 7.20e+00 1tvxA d.9.1.1 37441 1n6zA 105 7.28e+00 unknown_sccs 85369 1bxdA 161 7.36e+00 1bxdA d.122.1.3 41111 1uzpA 162 7.36e+00 g.3.11.1 -12511 g.3.11.1 -12512 g.23.1.1 -12685 1d6mA 653 8.39e+00 1d6mA e.10.1.1 43248 1cc1S 283 8.54e+00 2frvA e.19.1.1 43313 1mpxA 615 9.19e+00 b.18.1.13 85041 c.69.1.21 85042 1i3jA 116 9.90e+00 1i3jA e.30.1.1 61594 1napA 70 9.97e+00 1tvxA d.9.1.1 37445 1jt8A 102 1.02e+01 b.40.4.5 63279 1i7dA 659 1.02e+01 1d6mA e.10.1.1 61886 1qk9A 92 1.04e+01 1qk9A d.10.1.3 37485 1jq3A 296 1.09e+01 c.66.1.17 67079 1qa7B 217 1.10e+01 1havA b.47.1.4 26426 1uyrA 737 1.15e+01 c.14.1.4 -6258 c.14.1.4 -6259 1p9kA 79 1.16e+01 unknown_sccs -10238 1sbxA 106 1.18e+01 1h9sA 140 1.19e+01 1b9mA b.40.6.2 60843 b.40.6.2 60844 1jpaA 312 1.23e+01 d.144.1.7 67011 2irfG 113 1.27e+01 2irfG a.4.5.23 16185 1p49A 562 1.29e+01 c.76.1.2 -8432 1hxmA 229 1.35e+01 1hxmA b.1.1.1 61367 b.1.1.2 61368 1igtD 444 1.36e+01 1igtB b.1.1.1 19767 b.1.1.2 20871 b.1.1.2 20872 b.1.1.2 20873 1j1bA 420 1.37e+01 d.144.1.7 -11312 6mhtA 327 1.40e+01 6mhtA c.66.1.26 34226 1ux5A 411 1.46e+01 unknown_sccs -1768 1id0A 152 1.49e+01 d.122.1.3 66111 1nh2C 79 1.50e+01 b.56.1.1 -4381 1s5lO 246 1.51e+01 1l6sA 323 1.53e+01 c.1.10.3 73627 1n3hA 207 1.60e+01 b.55.1.2 -4350 1fm0E 150 1.61e+01 1fmaE d.41.5.1 38629 1mo1A 87 1.66e+01 d.94.1.1 -10640 1eal 127 1.67e+01 1hmt b.60.1.2 27227 1ugjA 141 1.69e+01 3mhtA 327 1.72e+01 6mhtA c.66.1.26 34234 1s72H 171 1.72e+01 1qa7A 217 1.72e+01 1havA b.47.1.4 26425 1sheA 103 1.79e+01 1pms 136 1.85e+01 1awe b.55.1.1 26966 1i8jA 323 1.85e+01 1b4kA c.1.10.3 61968 3sxlA 184 1.95e+01 1b7fA d.58.7.1 39173 d.58.7.1 39174 1lab 80 1.99e+01 1ghj b.84.1.1 28226 1ufwA 95 2.07e+01 d.58.7.1 -10034 1erjA 393 2.08e+01 1erjA b.69.4.1 27660 1q3oA 109 2.11e+01 b.36.1.1 -3776 1aojA 60 2.19e+01 1aojA b.34.2.1 24555 1kllA 130 2.20e+01 d.32.1.2 72720 1r0pA 312 2.20e+01 d.144.1.7 -11377 1p63A 144 2.24e+01 b.42.1.1 -4002 1vmoA 163 2.25e+01 1vmoA b.77.1.1 27974 1dro 122 2.29e+01 1btn b.55.1.1 26954 1qq2A 199 2.29e+01 1qq2A c.47.1.10 33064 1h9oA 112 2.29e+01 1qadA d.93.1.1 60837 3pcgM 238 2.37e+01 3pchM b.3.6.1 22742 1fmaE 150 2.40e+01 1fmaE d.41.5.1 38630 1uvqA 197 2.41e+01 b.1.1.2 -2649 d.19.1.1 -9336 2tgf 50 2.42e+01 3tgf g.3.11.1 44291 1i7hA 111 2.42e+01 d.15.4.1 71122 2pcdM 238 2.46e+01 3pchM b.3.6.1 22760 1duzB 100 2.53e+01 1agdB b.1.1.2 20671 1nqzA 194 2.64e+01 d.113.1.1 86077 1a34A 159 2.69e+01 1a34A b.121.7.1 23286 3pchM 238 2.70e+01 3pchM b.3.6.1 22748 1ukgA 252 2.72e+01 b.29.1.1 -3390 1iw7E 99 2.72e+01 a.143.1.1 71476 1h8uA 117 2.75e+01 1h8uA d.169.1.1 60793 1dl0A 37 2.89e+01 1dl0A g.3.6.2 44112 1i50K 120 2.91e+01 d.74.3.2 61765 1n3oA 252 2.91e+01 b.29.1.1 79967 1by6A 36 2.93e+01 1by6A j.39.1.1 46301 1or7A 194 2.95e+01 a.4.13.2 87332 a.177.1.1 87333 1b9mA 265 2.99e+01 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1htrB 329 3.00e+01 1smrA 1m5zA 91 3.05e+01 b.36.1.1 78676 1blxA 326 3.08e+01 1hcl d.144.1.7 41596 1nf3C 128 3.08e+01 b.36.1.1 85596 1qguA 478 3.08e+01 1qguA c.92.2.3 35625 1fvrA 327 3.11e+01 d.144.1.7 60047 1igtB 444 3.13e+01 1igtB b.1.1.1 19765 b.1.1.2 20867 b.1.1.2 20868 b.1.1.2 20869 1nkxA 348 3.14e+01 c.94.1.2 -8704 1t46A 313 3.16e+01 1skz 119 3.17e+01 1skz g.3.15.1 44366 g.3.15.1 44367 1hsbB 99 3.18e+01 1agdB b.1.1.2 20737 1b3jA 274 3.18e+01 1agdA b.1.1.2 20855 d.19.1.1 38319 1qr0A 228 3.25e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1qu5A 182 3.28e+01 1qu5A b.26.1.2 23922 1t3nA 388 3.31e+01 1gpr 162 3.32e+01 1gpr b.84.3.1 28267 1j58A 385 3.36e+01 b.82.1.2 71531 1e19A 314 3.37e+01 1b7bA c.73.1.1 34967 1shcA 195 3.38e+01 1shcA b.55.1.2 26992 1i07A 60 3.46e+01 1aojA b.34.2.1 61477 1dgrN 79 3.56e+01 1caxB 1k5nB 100 3.58e+01 b.1.1.2 77268 1k87A 669 3.63e+01 a.176.1.1 77286 c.1.23.2 77287 1dgrV 79 3.69e+01 1caxB b.82.1.2 28099 1n0xL 215 3.72e+01 b.1.1.1 -2063 b.1.1.2 -2429 1eia 207 3.79e+01 1eia a.28.3.1 16951 a.73.1.1 18331 1i4fB 100 3.80e+01 1agdB b.1.1.2 61689 1fleI 57 3.82e+01 1fleI g.3.14.1 44352 1j26A 112 3.84e+01 1agdB 99 3.86e+01 1agdB b.1.1.2 20742 1pnj 86 3.91e+01 1ckaA b.34.2.1 24487 1udkA 51 3.96e+01 g.3.14.1 -12520 1fkd 107 3.97e+01 1fkj d.26.1.1 38383 1g2aA 168 3.99e+01 d.167.1.1 65109