# List of top-scoring protein chains for T0372.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 1i51A 148 3.19e+00 c.17.1.1 66029 2f1xA 161 5.42e+00 2fojA 155 5.44e+00 2f1wA 158 5.45e+00 2f1yA 159 5.52e+00 1shlA 245 5.73e+00 c.17.1.1 105556 1m1cA 680 5.99e+00 e.42.1.1 78395 1k88A 253 6.01e+00 c.17.1.1 68290 1k86A 253 6.07e+00 c.17.1.1 68288 1shjA 262 6.25e+00 c.17.1.1 105554 1gqfA 265 6.48e+00 c.17.1.1 65470 1qlmA 316 7.23e+00 1qlmA d.147.1.1 41765 1i4oA 280 7.27e+00 1pauA c.17.1.1 61721 3fruB 99 7.83e+00 1agdB b.1.1.2 20658 1qqdB 99 7.85e+00 1agdB b.1.1.2 20770 1xssA 225 7.87e+00 1kjvB 100 7.92e+00 b.1.1.2 77423 1f1jA 305 8.16e+00 1pauA c.17.1.1 59596 1kmcA 303 8.24e+00 c.17.1.1 68690 1vk1A 242 8.78e+00 d.268.1.2 108634 1m56C 266 9.16e+00 f.25.1.1 74474 1qysA 106 1.04e+01 k.41.1.1 96603 1wr2A 238 1.07e+01 1mfaH 120 1.09e+01 1pcp 106 1.13e+01 2pspA g.16.1.1,g.16.1.1 44742,44743 2pspA 106 1.13e+01 2pspA g.16.1.1,g.16.1.1 44730,44731 1xiqA 157 1.16e+01 2dddA 225 1.17e+01 1hlaM 97 1.21e+01 1agdB b.1.1.2 20669 1x7qB 99 1.23e+01 1py4A 100 1.23e+01 b.1.1.2 95323 1k5nB 100 1.24e+01 b.1.1.2 77268 1ypzB 102 1.26e+01 2f53B 100 1.27e+01 2f8oA 100 1.27e+01 1jn6A 210 1.30e+01 b.1.1.1,b.1.1.2 66923,66924 1jnhA 212 1.30e+01 b.1.1.1,b.1.1.2 66939,66940 1ce6B 108 1.34e+01 1agdB b.1.1.2 20820 1ao7B 100 1.35e+01 1agdB b.1.1.2 20697 1t94A 459 1.50e+01 d.240.1.1,e.8.1.7 106701,106702 1eueA 86 1.86e+01 1cyo d.120.1.1 59504 1ddhB 99 1.91e+01 1agdB b.1.1.2 20846 2fikB 99 1.91e+01 1lk2B 99 1.92e+01 b.1.1.2 91058 1qo3B 100 1.93e+01 1agdB b.1.1.2 20842 1rjyB 100 1.94e+01 1rjwA 339 1.94e+01 b.35.1.2,c.2.1.1 97582,97583 1im4A 221 1.96e+01 e.8.1.7 62581 1k1sA 354 1.99e+01 d.240.1.1,e.8.1.7 90386,90387 1biiB 119 2.07e+01 1agdB b.1.1.2 20844 1vhoA 346 2.08e+01 b.49.3.1,c.56.5.4 100694,100695 1mfeH 219 2.12e+01 1mfa b.1.1.1,b.1.1.2 19893,20987 1qleA 538 2.26e+01 2occA f.24.1.1 43620 1wguA 136 2.31e+01 1yckA 175 2.31e+01 1ar1A 558 2.39e+01 2occA f.24.1.1 43618 1kjoA 316 2.44e+01 d.92.1.2 77419 1jsg 114 2.49e+01 1a1x b.63.1.1 27513 1t57A 206 2.49e+01 c.49.1.2 106430 2fg9A 178 2.56e+01 1npc 317 2.58e+01 1hyt d.92.1.2 59012 1p9bA 442 2.59e+01 c.37.1.10 94385 1jkgB 250 2.74e+01 d.17.4.2 66796 1tz9A 367 2.77e+01 c.1.15.6 107466 1xi9A 406 2.86e+01 1kzhA 555 2.90e+01 c.89.1.1 73361 1jnpA 116 2.94e+01 b.63.1.1 66964 1awpA 92 2.97e+01 1cyo d.120.1.1 41071 1iy9A 275 3.22e+01 c.66.1.17 76943 1b5m 84 3.25e+01 1cyo d.120.1.1 41073 8tlnE 316 3.28e+01 1hyt d.92.1.2 59075 1vk8A 106 3.60e+01 d.58.48.1 108636 2f1zA 522 3.65e+01 1ihcA 188 4.11e+01 1di6A c.57.1.1 62379 1irf 112 4.15e+01 2irfG a.4.5.23 16192 2irfG 113 4.18e+01 2irfG a.4.5.23 16185 1jljA 189 4.22e+01 c.57.1.1 63169 1esp 317 4.25e+01 1hyt d.92.1.2 58979 1ltxR 650 4.32e+01 c.3.1.3,d.16.1.6 84715,84716 1vg0A 650 4.33e+01 c.3.1.3,d.16.1.6 108596,108597 1cicB 217 4.34e+01 1igtB b.1.1.1,b.1.1.2 19965,21025 1rurH 218 4.37e+01 b.1.1.1,b.1.1.2 97879,97880 1tl2A 236 4.46e+01 1tl2A b.67.1.1 27541 1stfI 98 4.68e+01 1stfI d.17.1.2 38006 1kmdA 117 4.69e+01 d.189.1.1 72744 1jn6B 218 4.73e+01 b.1.1.1,b.1.1.2 66925,66926 1hyp 80 5.06e+01 1hyp a.52.1.1 17806 1iieA 75 5.28e+01 1iieA a.109.1.1 19039 1if1A 113 5.31e+01 2irfG a.4.5.23 16183 1indL 215 5.75e+01 1mfa b.1.1.1,b.1.1.2 19838,20942 1qjoA 80 5.94e+01 1iyu b.84.1.1 28229 1rz1A 161 6.02e+01 b.45.1.2 98124 1xngA 268 6.10e+01 1z2kA 109 6.11e+01 1yz7A 188 6.16e+01 1vorV 113 6.17e+01 2d3oS 115 6.21e+01 1nsqA 153 6.24e+01 1npk d.58.6.1 39135 2arzA 247 6.33e+01 1bmg 98 6.47e+01 1agdB b.1.1.2 20667 1m56A 566 6.81e+01 f.24.1.1 74471 1zvdA 380 6.81e+01 1m57A 566 6.88e+01 f.24.1.1 74481 1b77A 228 6.94e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1s57A 153 7.01e+01 1xnd 190 7.08e+01 1axkA b.29.1.11 24321 1oywA 523 7.12e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1gc5A 467 7.31e+01 1gc5A c.72.1.3 60429 1yz6A 274 7.39e+01 1meeA 275 7.43e+01 1gci c.41.1.1 32540 2gd5A 179 7.49e+01 1wekA 217 7.52e+01 1tfe 145 7.55e+01 1tfe d.43.1.1 38680 1wgeA 83 7.69e+01 2fd6H 213 7.75e+01 1ryiA 382 7.81e+01 1qfwH 117 8.09e+01 1gc1H b.1.1.1 20435 1xo9A 150 8.12e+01 2f4kA 35 8.18e+01 1c5kA 439 8.21e+01 1crzA b.68.4.1,c.51.2.1 27630,33212 1scjA 275 8.25e+01 1gci c.41.1.1 32486 1ng4A 390 8.28e+01 c.3.1.2,d.16.1.3 85666,85667 2fi9A 128 8.34e+01 1tufA 434 8.39e+01 b.49.2.3,c.1.6.1 107335,107336 1twiA 434 8.39e+01 b.49.2.3,c.1.6.1 107399,107400 1dv4E 145 8.45e+01 i.1.1.3 45875 1eg0B 148 8.52e+01 1pkp i.1.1.1 45808 1tyyA 339 8.54e+01 1pkp 150 8.59e+01 1pkp d.14.1.1,d.50.1.2 37551,38787 1xzwA 426 8.59e+01 1jl5A 454 8.88e+01 c.10.2.6 66830 1yriA 35 8.94e+01