# List of top-scoring protein chains for T0280.t04-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 1i5eA 209 6.48e-27 c.61.1.1 71116 1ufrA 181 1.29e-25 c.61.1.1 -7949 1nonA 179 3.10e-25 1a3c 181 2.44e-24 1a3c c.61.1.1 34095 1bzyA 217 1.84e-23 1qk3A c.61.1.1 34071 1d6nA 214 3.28e-23 1qk3A c.61.1.1 34077 1o5oA 221 5.14e-23 c.61.1.1 -7954 1cjbA 231 9.57e-22 1qk3A c.61.1.1 34079 1dkuA 317 3.44e-18 1dkuA c.61.1.2 34118 c.61.1.2 34119 1hgxA 183 6.60e-17 1tc1A c.61.1.1 34027 1dbrA 231 3.04e-16 1qk3A c.61.1.1 34041 1fsgA 233 3.07e-16 1qk3A c.61.1.1 34029 1qk5A 233 3.70e-16 1qk3A c.61.1.1 34035 1j7jA 178 6.01e-16 c.61.1.1 84131 1g9tA 182 1.10e-15 c.61.1.1 70166 1upfA 224 1.15e-14 1bd3A c.61.1.1 34102 1bd3A 243 1.25e-14 1bd3A c.61.1.1 34098 1tc2A 221 3.22e-13 1tc1A c.61.1.1 34085 1tc1A 220 3.27e-13 1tc1A c.61.1.1 34083 1p18A 221 3.47e-13 1i13A 221 4.10e-13 c.61.1.1 71098 1i0lA 221 7.71e-13 c.61.1.1 71096 1i14A 221 7.85e-13 c.61.1.1 71100 1i0iA 221 9.42e-13 c.61.1.1 71094 1pzmA 211 2.43e-12 1qb7A 236 2.31e-09 1qb7A c.61.1.1 34087 1mzvA 235 2.46e-09 c.61.1.1 -7945 1l1qA 186 2.86e-08 c.61.1.1 77653 1oreA 180 3.23e-08 c.61.1.1 -7947 1g2qA 187 6.39e-07 c.61.1.1 65117 1ecfA 504 1.17e-06 1ecfB c.61.1.1 34053 d.153.1.1 41820 1ao0A 459 8.05e-05 1ecfB c.61.1.1 34049 d.153.1.1 41816 1gph1 465 8.29e-05 1ecfB 1a97A 148 2.32e-04 1nulA c.61.1.1 34023 1a98A 152 2.37e-04 1nulA c.61.1.1 34021 1nulA 152 4.78e-04 1nulA c.61.1.1 34011 1oroA 213 7.78e-04 1opr c.61.1.1 34093 1p4aA 285 9.73e-04 unknown_sccs -253 c.61.1.1 -7964 1o57A 291 9.98e-04 unknown_sccs -249 c.61.1.1 -7960 1sto 213 1.12e-03 1opr c.61.1.1 34092 1dqpA 230 1.47e-03 1dqnA c.61.1.1 34069 1lh0A 213 1.76e-03 c.61.1.1 73896 1m6yA 301 2.06e-01 a.60.13.1 78716 c.66.1.23 78717 1r61A 207 8.16e-01 unknown_sccs -6086 1omzA 293 1.15e+00 c.68.1.15 87093 1j0mA 752 1.70e+00 a.102.3.2 83910 b.24.1.1 83911 b.30.5.2 83912 1qyiA 384 1.90e+00 unknown_sccs -6836 1dxy 333 2.34e+00 1dxy c.2.1.4 30094 c.23.12.1 31354 1q52A 314 2.85e+00 c.14.1.3 -6246 1g20B 523 3.16e+00 1qguB c.92.2.3 35614 1m1nB 522 3.16e+00 c.92.2.3 78418 1o58A 303 3.20e+00 c.79.1.1 -8503 1jqvA 311 3.85e+00 c.1.4.1 -5180 1d5cA 162 4.47e+00 1ctqA c.37.1.8 32021 1h72C 296 4.49e+00 d.14.1.5 60712 d.58.26.1 60713 1f75A 249 4.76e+00 1f75A c.101.1.1 59662 1p7yA 753 5.26e+00 c.23.16.3 -6539 e.5.1.1 -11832 1ggjA 753 5.27e+00 1cf9A c.23.16.3 31457 e.5.1.1 42831 1p80A 753 5.28e+00 c.23.16.3 -6547 e.5.1.1 -11840 1cf9A 753 5.28e+00 1cf9A c.23.16.3 31441 e.5.1.1 42815 1gghA 753 5.28e+00 1cf9A c.23.16.3 31465 e.5.1.1 42839 1p7zA 753 5.28e+00 c.23.16.3 -6543 e.5.1.1 -11836 1p81A 753 5.28e+00 c.23.16.3 -6551 e.5.1.1 -11844 1ggkA 753 5.28e+00 1cf9A c.23.16.3 31453 e.5.1.1 42827 1qwsA 753 5.29e+00 c.23.16.3 -6555 e.5.1.1 -11848 1ggeA 753 5.29e+00 1cf9A c.23.16.3 31449 e.5.1.1 42823 1gg9A 753 5.29e+00 1cf9A c.23.16.3 31445 e.5.1.1 42819 1qf7A 753 5.30e+00 1cf9A c.23.16.3 31461 e.5.1.1 42835 1iktA 120 6.00e+00 d.106.1.1 66188 1r6hA 172 6.02e+00 c.45.1.1 -7331 1hjdA 101 7.11e+00 b.34.2.1 65846 1i1jA 108 7.43e+00 1i1jA b.34.2.1 61531 1dqwA 267 8.08e+00 1dqwA c.1.2.3 28551 1jqxA 311 8.16e+00 c.1.4.1 -5182 1jrbA 311 8.38e+00 c.1.4.1 -5184 1jrcA 311 8.40e+00 c.1.4.1 -5186 1jubA 311 8.48e+00 c.1.4.1 -5188 1jueA 311 8.60e+00 c.1.4.1 -5190 1clm 148 8.63e+00 1cll a.39.1.5 17301 1exrA 148 8.63e+00 1cll a.39.1.5 17299 1ez4A 318 9.09e+00 c.2.1.5 64917 d.162.1.1 64918 1fw8A 416 1.08e+01 16pk c.86.1.1 60058 1i4sA 147 1.09e+01 a.149.1.1 66026 1jfzA 154 1.15e+01 a.149.1.1 66655 1h7xA 1025 1.29e+01 1h7wA a.1.2.2 15687 c.1.4.1 28632 c.3.1.1 30328 c.4.1.1 30613 d.58.1.5 39011 1gteA 1025 1.30e+01 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 1s1pA 331 1.32e+01 c.1.7.1 -5240 1vjdA 416 1.33e+01 c.86.1.1 -8570 1fcjA 322 1.36e+01 1oasA c.79.1.1 35289 1d6sA 322 1.37e+01 1oasA c.79.1.1 35295 1fnd 314 1.37e+01 1fnc b.43.4.2 25626 c.25.1.1 31516 1kqpA 271 1.39e+01 c.26.2.1 72883 1nmeA 146 1.41e+01 c.17.1.1 85874 1rhjA 147 1.42e+01 c.17.1.1 -7916 1r4uA 301 1.43e+01 d.96.1.4 -10709 d.96.1.4 -10710 1frn 314 1.45e+01 1fnc b.43.4.2 25631 c.25.1.1 31521 1frqA 314 1.48e+01 1fnc b.43.4.2 25632 c.25.1.1 31522 1bx1A 314 1.49e+01 1fnc b.43.4.2 25629 c.25.1.1 31519 1bx0A 314 1.51e+01 1fnc b.43.4.2 25630 c.25.1.1 31520 155c 135 1.62e+01 1ycc a.3.1.1 15900 1itxA 419 1.64e+01 c.1.8.5 71425 d.26.3.1 71426 1o0yA 260 1.65e+01 c.1.10.1 80756 1nmsA 249 1.78e+01 c.17.1.1 85879 1k6mA 432 1.79e+01 c.37.1.7 77275 c.60.1.4 77276 1rc7A 220 1.84e+01 a.149.1.1 -1135 d.50.1.1 -9772 1vjnA 220 1.86e+01 unknown_sccs -11458 1qx3A 257 1.94e+01 c.17.1.1 -7914 1bpe 335 1.95e+01 1bpyA a.60.6.1 18076 a.60.12.1 75815 d.218.1.2 75816 1ahr 146 1.99e+01 1cll a.39.1.5 17287 1t3hA 214 2.03e+01 c.37.1.1 -7010 1vhtA 218 2.12e+01 c.37.1.1 -7004 1ggzA 148 2.12e+01 a.39.1.5 70176 1mxeA 148 2.17e+01 a.39.1.5 79644 1oojA 149 2.21e+01 a.39.1.5 87198 1vk9A 151 2.23e+01 1huzA 335 2.27e+01 1bpyA a.60.6.1 61281 a.60.12.1 75850 d.218.1.2 75851 1n3bA 216 2.42e+01 c.37.1.1 79959 1mvfA 135 2.45e+01 b.1.1.1 85141 1k93D 144 2.47e+01 a.39.1.5 68330 1cdmA 144 2.50e+01 1cll a.39.1.5 17270 1g4yR 148 2.50e+01 1cll a.39.1.5 60252 1iq5A 149 2.51e+01 a.39.1.5 62643 1prwA 149 2.51e+01 a.39.1.5 -842 1cdlA 147 2.52e+01 1cll a.39.1.5 17272 1tcf 159 2.54e+01 1ncx a.39.1.5 17250 1pkyA 470 2.82e+01 1a49A b.58.1.1 27068 c.1.12.1 29296 c.49.1.1 33150 1us5A 314 2.87e+01 c.94.1.1 -8686 1e0tA 470 2.88e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1h9cA 106 2.95e+01 1iibA c.44.2.1 60820 1iibA 106 2.97e+01 1iibA c.44.2.1 32648 1cp3A 277 3.14e+01 1pauA c.17.1.1 30992 1deg 142 3.20e+01 1cll a.39.1.5 17280 3cln 148 3.21e+01 1cll a.39.1.5 17286 1rlgA 119 3.38e+01 1ax8 146 3.39e+01 1ax8 a.26.1.1 16844 1bkwA 394 3.42e+01 1pbe c.3.1.2 30343 d.16.1.2 37874 1s6iA 188 3.44e+01 1e0uA 470 3.45e+01 1a49A b.58.1.1 27072 c.1.12.1 29300 c.49.1.1 33154 1top 162 3.46e+01 1ncx a.39.1.5 17223 1pcqO 97 3.58e+01 b.35.1.1 -3651 1fqvA 336 3.60e+01 1fqvA a.158.1.1 19254 c.10.1.3 30856 1h4pA 408 3.62e+01 c.1.8.3 -5314 1i3oA 175 3.63e+01 1pauA c.17.1.1 61603 1sq6A 253 3.72e+01 c.56.2.1 -7852 1upaA 573 3.77e+01 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1ymv 129 3.79e+01 3chy c.23.1.1 31045 1p2fA 220 3.80e+01 a.4.6.1 87720 c.23.1.1 87721 8pchA 220 3.81e+01 1cs8A 1gklA 297 3.83e+01 c.69.1.2 65250 1bymA 97 3.84e+01 1bi0 b.34.1.2 24458 1kgyE 138 3.86e+01 b.6.1.5 72453 1gkkA 297 3.94e+01 c.69.1.2 65248