# List of top-scoring protein chains for t2k-100-30-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 1g3uA 214 9.73e-01 c.37.1.1 65132 1w9yA 319 1.06e+00 1gtvA 214 1.07e+00 c.37.1.1 70537 1dx8A 70 1.20e+00 1rb9 g.41.5.1 45243 1cwyA 500 3.35e+00 1cwyA c.1.8.1 28789 1q1aA 289 3.36e+00 c.31.1.5 95561 1rlyA 60 3.47e+00 g.41.3.1 104988 1eswA 500 3.85e+00 1cwyA c.1.8.1 59500 1hsbB 99 4.11e+00 1agdB b.1.1.2 20737 1agdB 99 4.26e+00 1agdB b.1.1.2 20742 1i4fB 100 4.46e+00 1agdB b.1.1.2 61689 1dl6A 58 4.47e+00 1dl6A g.41.3.1 45207 1jnjA 100 4.58e+00 b.1.1.2 66955 1duzB 100 4.65e+00 1agdB b.1.1.2 20671 1ao7B 100 4.65e+00 1agdB b.1.1.2 20697 1k5nB 100 4.80e+00 b.1.1.2 77268 1weoA 93 5.31e+00 1g7pB 99 6.83e+00 b.1.1.2 70155 1mhcB 99 7.63e+00 1agdB b.1.1.2 20832 1kpuB 99 7.80e+00 b.1.1.2 84458 1fp0A 88 8.12e+00 1fp0A g.50.1.2 45361 1fzoB 99 8.29e+00 1agdB b.1.1.2 60157 1rw1A 114 8.39e+00 1lk2B 99 9.41e+00 b.1.1.2 91058 1kjvB 100 9.60e+00 b.1.1.2 77423 1fzkB 99 9.84e+00 1agdB b.1.1.2 60151 1kekA 1231 1.18e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1pft 50 1.28e+01 1pft g.41.3.1 45206 1jigA 146 1.37e+01 a.25.1.1 71685 1b0pA 1231 1.41e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 2a14A 263 1.45e+01 1jkw 323 1.45e+01 1jkw a.74.1.1,a.74.1.1 18356,18357 1dk5A 322 1.48e+01 1dk5A a.65.1.1 18192 1v2bA 177 1.50e+01 d.107.1.2 108279 1meyC 87 1.55e+01 2gliA k.12.1.1 46430 1yk4A 52 1.62e+01 1knvA 293 1.65e+01 c.52.1.7 68707 2c3mA 1231 1.72e+01 1bor 56 1.74e+01 1bor g.44.1.1 45324 1ouoA 210 1.75e+01 d.4.1.6 93554 1ub4A 110 1.77e+01 b.34.6.2 88399 1or7A 194 1.79e+01 a.4.13.2,a.177.1.1 87332,87333 1taq 832 1.93e+01 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18082,33352,33698,42991 1aosA 464 1.94e+01 1auwA a.127.1.1 19414 1f62A 51 1.95e+01 1f62A g.50.1.2 45360 1y1pA 342 1.97e+01 1fdi 715 1.97e+01 2napA b.52.2.2,c.81.1.1 26918,35326 1b2jA 54 1.98e+01 1rb9 g.41.5.1 45231 1iro 54 2.00e+01 1rb9 g.41.5.1 45223 2a2pA 129 2.07e+01 1cw0A 155 2.12e+01 1vsrA c.52.1.15 33333 1fdo 715 2.30e+01 2napA b.52.2.2,c.81.1.1 26917,35325 1w53A 84 2.36e+01 a.186.1.2 109175 1v87A 114 2.42e+01 g.44.1.1 108422 1aa6 715 2.44e+01 2napA b.52.2.2,c.81.1.1 26916,35324 1kxu 333 2.57e+01 1jkw a.74.1.1,a.74.1.1 18358,18359 2a9kB 223 2.65e+01 2pvaA 345 2.72e+01 3pvaA d.153.1.3 41850 8rxnA 52 2.73e+01 1rb9 g.41.5.1 45215 1rb9 53 2.75e+01 1rb9 g.41.5.1 45214 1vsrA 136 2.77e+01 1vsrA c.52.1.15 33332 1ukuA 102 2.79e+01 d.58.5.2 99533 1y13A 181 2.80e+01 1ujmA 342 2.83e+01 2f4mA 295 2.90e+01 1t77A 414 2.92e+01 1zghA 260 2.92e+01 1xg9A 260 2.92e+01 1rdg 53 2.93e+01 1rb9 g.41.5.1 45221 1x13A 401 3.09e+01 1bq8A 54 3.13e+01 1rb9 g.41.5.1 45237 1xo1A 291 3.16e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 4bcl 366 3.39e+01 4bcl b.75.1.1 27968 1bob 320 3.52e+01 1bob d.108.1.1 40816 1cvjA 190 3.63e+01 1cvjB d.58.7.1,d.58.7.1 39191,39192 1bq9A 54 3.73e+01 1rb9 g.41.5.1 45238 3pvaA 335 3.81e+01 3pvaA d.153.1.3 41854 1u5kA 244 3.86e+01 1k7wA 468 3.94e+01 a.127.1.1 72130 1peeA 180 3.94e+01 b.60.1.1 104126 1a1d 146 3.94e+01 1a1d b.40.4.8 25394 2carA 196 4.03e+01 1euoA 180 4.08e+01 1np1A b.60.1.1 27163 1xwoA 465 4.10e+01 1brfA 53 4.20e+01 1rb9 g.41.5.1 45236 4rxn 54 4.20e+01 1rb9 g.41.5.1 45226 5rxn 54 4.30e+01 1rb9 g.41.5.1 45225 1bx2B 191 4.37e+01 1iakB b.1.1.2,d.19.1.1 21610,38184 1tjvA 474 4.44e+01 a.127.1.1 107054 1g24A 211 4.50e+01 1g24A d.166.1.1 42270 2axwA 134 4.51e+01 2hmiA 558 4.60e+01 1rthA c.55.3.1,e.8.1.2 33604,43106 1auwA 468 4.82e+01 1auwA a.127.1.1 19416 2basA 431 4.87e+01 1yua 122 4.92e+01 1yua g.41.3.3,g.41.3.3 45210,45211 1i88A 389 5.05e+01 c.95.1.2,c.95.1.2 66070,66071 1i86A 389 5.19e+01 c.95.1.2,c.95.1.2 66068,66069 1hu3A 260 5.20e+01 1hu3A a.118.1.14 19137 1xreA 217 5.29e+01 1d8cA 723 5.31e+01 1d8cA c.1.13.1 29325 1a05A 358 5.35e+01 1cnzA c.77.1.1 35059 1wi5A 119 5.36e+01 1ma3A 253 5.37e+01 c.31.1.5 78883 1vb5A 276 5.39e+01 1z1zA 131 5.40e+01 1lv7A 257 5.47e+01 c.37.1.20 78232 1j7xA 302 5.52e+01 c.14.1.2 66425 1a6aB 187 5.57e+01 1iakB b.1.1.2,d.19.1.1 21616,38190 1jj22 92 5.61e+01 1ffkZ 1s723 92 5.61e+01 1bmg 98 5.69e+01 1agdB b.1.1.2 20667 1dcnA 424 5.77e+01 1auwA a.127.1.1 19420 1bi5A 389 5.98e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1fl1A 230 6.07e+01 1at3A b.57.1.1 27023 3proC 166 6.25e+01 3proC d.52.1.1,d.52.1.1 38812,38813 2fp1A 166 6.31e+01 1x6oA 174 6.31e+01 b.34.5.2,b.40.4.5 109493,109494 1vqo3 92 6.33e+01 1v54F 98 6.41e+01 g.41.5.3 100327 1floA 422 6.45e+01 1floA a.60.9.1,d.163.1.1 18106,42166 2af8 86 6.72e+01 2af8 a.28.1.1 16933 1ao7E 245 6.81e+01 1bec b.1.1.1,b.1.1.2 20646,21575 1pm1X 180 6.86e+01 b.60.1.1 104189 2occF 98 6.88e+01 2occF g.41.5.3 45256 1cpcA 162 6.95e+01 1cpcA a.1.1.3 15643 1ffkZ 92 6.96e+01 1ffkZ g.41.8.3 45317 2c9aA 259 6.98e+01 2f6lA 166 7.02e+01 1i0aA 466 7.09e+01 1auwA a.127.1.1 61479 2ng1 293 7.10e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 2cvjA 180 7.10e+01 7at1B 154 7.31e+01 8atcB d.58.2.1,g.41.7.1 39053,45305 1reqA 727 7.37e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 2fq3A 104 7.38e+01 1pzwA 80 7.40e+01 g.39.1.10 95483 5reqA 727 7.46e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 8atcB 154 7.53e+01 8atcB d.58.2.1,g.41.7.1 39027,45279 1ng1 294 7.53e+01 1ng1 a.24.13.1,c.37.1.10 16961,32272 1jx2B 315 7.67e+01 c.37.1.8 67404 1yewC 289 7.78e+01 2ctdA 96 7.94e+01 1jlwA 219 7.98e+01 a.45.1.1,c.47.1.5 71741,71742 1jpnA 296 8.11e+01 a.24.13.1,c.37.1.10 67039,67040 1ffh 294 8.22e+01 1ng1 a.24.13.1,c.37.1.10 16960,32271 1h95A 79 8.31e+01 b.40.4.5 65742 2akaB 299 8.33e+01 1b13A 54 8.44e+01 1rb9 g.41.5.1 45227 1yqyA 523 8.46e+01 1fbnA 230 8.56e+01 1fbnA c.66.1.3 34181 1qm9A 198 8.60e+01 1qm9A d.58.7.1,d.58.7.1 39207,39208 1rec 201 8.68e+01 1rec a.39.1.5 17326 1fk9A 543 8.73e+01 1rthA c.55.3.1,e.8.1.2 33607,43080 1hniA 558 8.86e+01 1rthA c.55.3.1,e.8.1.2 33586,43044 1i50L 70 8.89e+01 g.41.9.2 61766