# List of top-scoring protein chains for T0277.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 1jogA 146 1.26e-15 a.24.16.2 77142 1g55A 343 6.68e-01 1g55A c.66.1.26 34247 1g60A 260 1.69e+00 c.66.1.11 70151 1uok 558 2.04e+00 1uok b.71.1.1 27801 c.1.8.1 28788 1k6wA 426 2.81e+00 b.92.1.2 68236 c.1.9.5 68237 1s07A 429 3.78e+00 c.67.1.4 -8195 1s09A 429 4.80e+00 c.67.1.4 -8199 1s08A 429 4.81e+00 c.67.1.4 -8197 1qj5A 429 4.82e+00 1dtyA c.67.1.4 34493 1s0aA 429 4.82e+00 c.67.1.4 -8201 1dtyA 429 4.91e+00 1dtyA c.67.1.4 34495 1a3h 300 5.47e+00 7a3hA c.1.8.3 28819 1h5vA 304 5.49e+00 c.1.8.3 70898 1qi2A 305 5.51e+00 7a3hA c.1.8.3 28824 7a3hA 303 5.52e+00 7a3hA c.1.8.3 28817 1lf1A 308 5.57e+00 c.1.8.3 73877 1buoA 121 5.64e+00 1buoA d.42.1.1 38631 1q20A 299 5.98e+00 c.37.1.5 -7033 1q1qA 350 6.00e+00 c.37.1.5 -7029 1mgvA 429 6.36e+00 c.67.1.4 79107 1s06A 429 6.71e+00 c.67.1.4 -8193 1e4xI 217 7.61e+00 b.1.1.1 59238 b.1.1.2 59239 1e4wH 213 8.73e+00 1igtB b.1.1.1 59232 b.1.1.2 59233 1e4xH 217 8.81e+00 1igtB b.1.1.1 59236 b.1.1.2 59237 1qfwH 117 9.93e+00 1gc1H b.1.1.1 20435 1kcrH 218 1.00e+01 b.1.1.1 72303 b.1.1.2 72304 1j6oA 268 1.12e+01 c.1.9.12 77088 1jv5B 117 1.14e+01 b.1.1.1 67345 1emn 82 1.14e+01 1emn g.3.11.1 44322 g.3.11.1 44323 1jhlH 116 1.27e+01 1mfa b.1.1.1 19967 1h5yA 253 1.45e+01 c.1.2.1 65638 1mreH 215 1.54e+01 1mfa b.1.1.1 20019 b.1.1.2 21073 1j99A 293 1.58e+01 c.37.1.5 71618 1cs3A 116 1.64e+01 1buoA d.42.1.1 38632 1i3gH 121 1.80e+01 b.1.1.1 66018 1efhA 292 1.81e+01 1aquA c.37.1.5 31948 1ov4A 293 1.83e+01 c.37.1.5 -7023 1iqwH 230 1.91e+01 b.1.1.1 66277 b.1.1.2 66278 1s1hL 118 1.93e+01 1ujnA 348 1.95e+01 e.22.1.1 -11998 1m53A 570 2.16e+01 b.71.1.1 84805 c.1.8.1 84806 1k3aA 299 2.29e+01 d.144.1.7 68098 1ghc 75 2.39e+01 1hstA a.4.5.13 16142 1ksyA 154 2.43e+01 d.89.1.2 72948 1f08A 148 2.46e+01 1f08A d.89.1.2 59564 1ni7A 155 2.46e+01 d.224.1.1 85738 1oaqH 121 2.49e+01 b.1.1.1 -2287 1oauH 122 2.51e+01 b.1.1.1 -2292 1kxjA 205 2.65e+01 c.23.16.1 73153 1ft2A 315 2.68e+01 1ft1A a.118.6.1 19190 1rap 108 2.69e+01 1ycc a.3.1.1 15858 1a6vH 120 2.73e+01 1mfa b.1.1.1 20257 1schA 294 2.77e+01 1bgp a.93.1.1 18685 1jj2E 177 2.77e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1s72E 178 2.78e+01 1cxc 124 2.78e+01 1ycc a.3.1.1 15890 1mieH 228 2.79e+01 b.1.1.1 -2240 b.1.1.2 -2490 1jcrA 377 2.80e+01 a.118.6.1 66506 1mb3A 124 2.83e+01 c.23.1.1 78907 1jqhA 308 2.84e+01 d.144.1.7 71793 1oayH 122 2.86e+01 b.1.1.1 -2300 1i58A 189 2.88e+01 1b3qA d.122.1.3 61773 1i5dA 191 2.89e+01 1b3qA d.122.1.3 61783 1k9vF 201 2.92e+01 c.23.16.1 68365 1emuA 132 2.92e+01 1agrE a.91.1.1 18549 1dk8A 147 3.01e+01 1agrE a.91.1.1 18548 1cby 259 3.05e+01 1cby d.103.1.1 40705 1nxiA 132 3.06e+01 d.58.47.1 86381 1m7nA 322 3.06e+01 d.144.1.7 78738 1p4oA 322 3.08e+01 d.144.1.7 87775 1rvfH 119 3.08e+01 1mfa b.1.1.1 19991 1jae 471 3.12e+01 1smd b.71.1.1 27773 c.1.8.1 28760 1qfuH 223 3.13e+01 1igtB b.1.1.1 20293 b.1.1.2 21285 1nfgA 457 3.19e+01 b.92.1.3 85632 c.1.9.6 85633 1ngqH 222 3.20e+01 1igtB b.1.1.1 20093 b.1.1.2 21125 1ubeA 349 3.21e+01 c.37.1.11 88412 d.48.1.1 88413 1jd7A 453 3.24e+01 b.71.1.1 77104 c.1.8.1 77105 1cxzB 86 3.30e+01 1cxzB a.2.6.1 15705 1viwA 471 3.35e+01 1smd b.71.1.1 27776 c.1.8.1 28763 1g94A 448 3.36e+01 b.71.1.1 65169 c.1.8.1 65170 1aqm 453 3.37e+01 1smd b.71.1.1 27717 c.1.8.1 28704 1kxhA 448 3.37e+01 b.71.1.1 73151 c.1.8.1 73152 1mjuH 227 3.39e+01 b.1.1.1 -2245 b.1.1.2 -2495 1bqlH 215 3.43e+01 1igtB b.1.1.1 19971 b.1.1.2 21029 1ni4A 365 3.50e+01 c.36.1.7 85728 1mtzA 293 3.50e+01 c.69.1.7 79467 1i50B 1224 3.53e+01 e.29.1.1 61755 1hbzA 498 3.54e+01 1cf9A e.5.1.1 60937 1gweA 503 3.55e+01 e.5.1.1 70667 1mj8H 230 3.60e+01 b.1.1.1 -2242 b.1.1.2 -2492 1mh5B 230 3.61e+01 b.1.1.1 -2238 b.1.1.2 -2488 1qauA 112 3.82e+01 1qauA b.36.1.1 24779 1qavB 115 3.87e+01 1qauA b.36.1.1 24780 1t6bX 735 3.87e+01 1acc 735 3.87e+01 1acc f.11.1.1 43828 2iffH 215 3.88e+01 1igtB b.1.1.1 19973 b.1.1.2 21031