# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 1o17A 345 4.75e-01 a.46.2.1,c.27.1.1 80765,80766 1kshA 186 9.93e-01 c.37.1.8 72914 1avgL 41 1.45e+00 1ppbL b.47.1.2 26216 1vemA 516 1.45e+00 1itcA 516 1.58e+00 b.3.1.1,c.1.8.1 83705,83706 1b9zA 516 3.07e+00 1b9zA b.3.1.1,c.1.8.1 22528,28798 2f1kA 279 3.72e+00 1zi8A 236 3.91e+00 1yrvA 169 5.31e+00 1ggvA 232 6.33e+00 1din c.69.1.9 34683 1din 236 6.46e+00 1din c.69.1.9 34682 2cb2A 318 7.20e+00 1hdmA 201 8.08e+00 1iakA b.1.1.2,d.19.1.1 21583,38157 1o50A 157 1.04e+01 d.37.1.1,d.37.1.1 92478,92479 2a5dA 175 1.14e+01 2ag9A 164 1.19e+01 1bmr 68 1.25e+01 1aho g.3.7.1 44144 1o3yA 166 1.29e+01 c.37.1.8 86618 1uw4A 91 1.39e+01 d.58.7.4 100071 1wzvA 155 1.60e+01 1vjeA 166 1.68e+01 d.185.1.2 100807 1innA 166 1.69e+01 1j98A d.185.1.2 62608 1b35B 255 1.75e+01 1b35B b.121.4.1 23334 1nmtA 392 1.89e+01 1nmtA d.108.1.2,d.108.1.2 40823,40824 1rlr 761 1.96e+01 1rlr a.98.1.1,c.7.1.2 18753,30679 2ax4A 198 1.97e+01 1mg4A 113 2.06e+01 d.15.11.1 84953 1nd6A 354 2.06e+01 c.60.1.2 80407 1zj6A 187 2.13e+01 2agcA 162 2.16e+01 1j1hA 144 2.16e+01 b.111.1.1 77056 1pbgA 468 2.24e+01 1e70M c.1.8.4 28946 1o7iA 119 2.26e+01 b.40.4.3 86642 1ejrC 567 2.26e+01 1ubpC b.92.1.1,c.1.9.2 28420,29042 1fwcC 567 2.35e+01 1ubpC b.92.1.1,c.1.9.2 28410,29032 1g13A 162 2.39e+01 1g13A b.95.1.1 60194 1jlyA 304 2.39e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1jmmA 377 2.40e+01 b.30.6.1 71749 5bcaA 516 2.44e+01 1b9zA b.3.1.1,c.1.8.1 22529,28799 1zw8A 64 2.48e+01 2a0jA 149 2.49e+01 2ag4A 164 2.50e+01 1g5bA 221 2.57e+01 1g5bA d.159.1.3 60261 1a5kC 566 2.60e+01 1ubpC b.92.1.1,c.1.9.2 28425,29047 1a5mC 566 2.61e+01 1ubpC b.92.1.1,c.1.9.2 28423,29045 1o59A 355 2.65e+01 b.18.1.22,b.18.1.22 92495,92496 2hpaA 342 2.69e+01 1cviA c.60.1.2 33985 1zbpA 273 2.71e+01 1alq 266 2.76e+01 1btl e.3.1.1 42707 1jlxA 304 2.93e+01 1jlyA b.42.3.1,b.42.3.1 25583,25584 1bb8 71 2.99e+01 2bb8 d.10.1.1 37478 2bb8 71 2.99e+01 2bb8 d.10.1.1 37480 1pu5A 164 3.01e+01 b.95.1.1 104310 3blm 257 3.08e+01 1btl e.3.1.1 42709 1wjxA 122 3.15e+01 1w3jA 468 3.16e+01 c.1.8.4 109156 1neiA 60 3.19e+01 d.253.1.1 91843 1ieaA 192 3.21e+01 1iakA b.1.1.2,d.19.1.1 21631,38205 1ghpA 258 3.25e+01 1btl e.3.1.1 60520 2cbuA 468 3.32e+01 1fa8A 135 3.40e+01 1qipA d.32.1.1 38486 1lv7A 257 3.45e+01 c.37.1.20 78232 1hurA 180 3.53e+01 1hurA c.37.1.8 32052 1zd9A 188 3.55e+01 1f9zA 135 3.62e+01 1qipA d.32.1.1 38484 1mr3F 181 3.64e+01 c.37.1.8 79422 1qmeA 702 4.04e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1cviA 342 4.05e+01 1cviA c.60.1.2 33989 1csn 298 4.06e+01 1csn d.144.1.7 41664 1xahA 354 4.21e+01 1q0eA 152 4.32e+01 b.1.8.1 95504 1fneA 192 4.42e+01 1iakA b.1.1.2,d.19.1.1 59896,59897 1fngA 192 4.42e+01 1iakA b.1.1.2,d.19.1.1 59904,59905 3icb 75 4.51e+01 4icb a.39.1.1 17147 1h49A 512 4.55e+01 c.1.8.4 83477 1pbuA 162 4.58e+01 d.58.46.1 88030 3pbgA 468 4.61e+01 1e70M c.1.8.4 28951 1cbjA 151 4.88e+01 1mfmA b.1.8.1 22213 1c5lL 36 4.91e+01 1ppbL b.47.1.2 26078 1ejxC 567 5.00e+01 b.92.1.1,c.1.9.2 83184,83185 1b47A 304 5.12e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17381,17775,40529 2sodB 152 5.12e+01 1mfmA b.1.8.1 22242 2cblA 305 5.24e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1e9pA 151 5.36e+01 1mfmA b.1.8.1 22215 1uvqA 197 5.38e+01 b.1.1.2,d.19.1.1 100062,100063 1ej6A 1289 5.38e+01 i.7.1.1 45967 1uurA 473 5.42e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1as0 353 5.56e+01 1cipA a.66.1.1,c.37.1.8 18212,32095 1agx 331 5.68e+01 4pgaA c.88.1.1 35564 2b6hA 192 5.68e+01 1th8A 145 5.70e+01 d.122.1.3 106908 1cpzA 68 5.74e+01 1aw0 d.58.17.1 39351 1to4A 156 5.74e+01 b.1.8.1 107162 1pmd 675 5.81e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37491,37492,42562,42771 1b69A 69 5.90e+01 2bb8 d.10.1.1 37479 1b9oA 123 5.92e+01 3lzt d.2.1.2 36597 1e55A 512 5.94e+01 1e70M c.1.8.4 28934 1uzxA 169 5.99e+01 d.20.1.2 100238 1jdiA 231 6.10e+01 c.74.1.1 66551 1yadA 221 6.16e+01 2fu0A 160 6.22e+01 1k0wA 231 6.39e+01 c.74.1.1 77220 2bc4A 211 6.47e+01 1b1gA 75 6.49e+01 1psrA a.39.1.1 17151 2a3nA 355 6.49e+01 1yvhA 329 6.50e+01 1xoyA 161 6.51e+01 1r29A 127 6.53e+01 d.42.1.1 96856 1q6zA 528 6.77e+01 1a0hA 159 6.80e+01 1a0hA b.47.1.2,g.14.1.1 26229,44655 2agaA 190 6.85e+01 1pot 325 6.87e+01 1pot c.94.1.1 35807 2b7eA 59 6.87e+01 1mg7A 417 7.04e+01 d.14.1.6,d.58.26.6 84954,84955 1xs1A 193 7.09e+01 2gfaA 119 7.16e+01 1r8sA 164 7.22e+01 c.37.1.8 97247 1oroA 213 7.25e+01 1opr c.61.1.1 34093 1ap6A 198 7.28e+01 1avmA a.2.11.1,d.44.1.1 15746,38705 1abmA 198 7.31e+01 1avmA 1pl4A 198 7.34e+01 a.2.11.1,d.44.1.1 94854,94855 1ffkP 84 7.35e+01 1ffkP d.12.1.1 37493 1t15A 214 7.37e+01 c.15.1.3,c.15.1.3 99067,99068 1dbqA 289 7.38e+01 1qpzA c.93.1.1 35666 1wetA 340 7.42e+01 1qpzA a.35.1.5,c.93.1.1 17093,35670 2agyA 361 7.59e+01 1kskA 234 7.70e+01 d.66.1.5,d.265.1.3 72920,90389 1q15A 503 7.75e+01 c.26.2.1,d.153.1.1 95538,95539 1y1uA 585 7.79e+01 1n0nA 199 7.84e+01 a.2.11.1,d.44.1.1 79750,79751 1opr 213 8.03e+01 1opr c.61.1.1 34091 1g25A 65 8.13e+01 1g25A g.44.1.1 45325 1a6aA 176 8.18e+01 1iakA b.1.1.2,d.19.1.1 21615,38189 1i7kA 179 8.37e+01 1u9aA d.20.1.1 61889 1b4tA 153 8.48e+01 1mfmA b.1.8.1 22283 1ju5A 109 8.49e+01 d.93.1.1 77173 1f6rA 123 8.56e+01 3lzt d.2.1.2 36606 2ucz 165 8.67e+01 1u9aA d.20.1.1 38330 1nrfA 262 8.74e+01 e.3.1.1 92086 1n2sA 299 8.77e+01 c.2.1.2 79857 1i4yA 114 8.96e+01 2mhr a.24.4.1 61738