# List of top-scoring protein chains for t06-100-30-bys-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 1dyqA 234 3.00e-01 3seb b.40.2.2,d.15.6.1 59140,59141 2rslA 140 4.61e-01 2rslA c.53.1.1 33345 2fclA 169 8.52e-01 1m93A 55 1.51e+00 e.1.1.1 91235 2afbA 351 1.91e+00 2bg5A 324 2.15e+00 1d2oA 187 2.33e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 1regX 122 3.40e+00 1regX d.58.27.1 39406 1xkiA 162 3.84e+00 2flsA 132 4.24e+00 1zp4A 304 4.40e+00 1kqpA 271 4.62e+00 c.26.2.1 72883 1xwvA 129 4.99e+00 1qhlA 227 5.29e+00 1qhlA c.37.1.12 32382 2g9iA 249 5.38e+00 1vr7A 142 5.44e+00 1repC 251 5.50e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1gyxA 76 6.65e+00 d.80.1.1 76387 2asbA 251 6.81e+00 1tiqA 180 7.23e+00 d.108.1.1 107010 1s55A 156 7.89e+00 1iz5A 249 8.11e+00 d.131.1.2,d.131.1.2 83834,83835 1oa2A 218 8.47e+00 b.29.1.11 86721 2gmqA 118 1.03e+01 1a99A 344 1.07e+01 1pot c.94.1.1 35812 1h72C 296 1.09e+01 d.14.1.5,d.58.26.1 60712,60713 2gw6A 123 1.13e+01 1c52 131 1.13e+01 1c52 a.3.1.1 15810 1juvA 193 1.18e+01 c.71.1.1 90912 1sqsA 242 1.20e+01 c.23.5.5 98968 4uagA 437 1.20e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1b25A 619 1.24e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1yb2A 275 1.28e+01 1i8fA 81 1.29e+01 1i8fA b.38.1.1 61959 1fl2A 310 1.31e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1y96B 85 1.32e+01 1k38A 254 1.34e+01 e.3.1.1 84303 2gfgA 193 1.35e+01 2fh7A 595 1.37e+01 1wmqA 147 1.40e+01 1m07A 111 1.40e+01 d.5.1.1 78328 1hdoA 206 1.43e+01 1he2A c.2.1.2 60965 1b56 135 1.49e+01 1hmt b.60.1.2 27183 1u00A 227 1.51e+01 1tf1A 198 1.57e+01 d.110.2.2 106826 1wpuA 147 1.64e+01 2b7eA 59 1.68e+01 1ll2A 333 1.73e+01 c.68.1.14 74005 1x74A 360 1.74e+01 2cxcA 144 1.78e+01 1p35A 299 1.78e+01 1p35A b.28.1.1 23925 1qavA 90 1.81e+01 1qauA b.36.1.1 24777 1quqB 121 1.83e+01 1quqB b.40.4.3 25305 1sek 378 1.84e+01 1sek e.1.1.1 42675 1o58A 303 1.88e+01 c.79.1.1 92491 1tygB 87 1.92e+01 d.15.3.2 107455 1qi9A 556 1.95e+01 1qhbA a.111.1.2 19053 1njhA 119 2.02e+01 b.128.1.1 85787 1zpvA 91 2.04e+01 1qlmA 316 2.09e+01 1qlmA d.147.1.1 41765 1ma3A 253 2.10e+01 c.31.1.5 78883 1s9rA 410 2.15e+01 d.126.1.4 98758 1a53 247 2.25e+01 1a53 c.1.2.4 28564 1exg 110 2.26e+01 1exg b.2.2.1 22387 1ydmA 187 2.29e+01 2aefA 234 2.34e+01 1t0aA 159 2.35e+01 1ex0A 731 2.46e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1h4gA 207 2.47e+01 b.29.1.11 70863 1wlzA 105 2.49e+01 1ur1A 378 2.56e+01 c.1.8.3 99804 1ns5A 155 2.57e+01 c.116.1.3 80705 1ft5A 211 2.62e+01 1bvb a.138.1.3 19681 1ve6A 582 2.63e+01 1bg6 359 2.67e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1xdpA 687 2.69e+01 1nijA 318 2.71e+01 c.37.1.10,d.237.1.1 85741,85742 1wlyA 333 2.76e+01 1v04A 355 2.79e+01 b.68.6.2 100240 1e4mM 501 2.84e+01 1e70M c.1.8.4 59226 1g7nA 131 2.86e+01 b.60.1.2 83274 2etxA 209 2.91e+01 1epwA 1290 2.94e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1o6dA 163 2.95e+01 c.116.1.3 92567 1uc7A 125 2.98e+01 c.47.1.1 99163 1xyiA 66 2.99e+01 1hqz1 141 3.01e+01 1duvG 333 3.01e+01 1othA c.78.1.1,c.78.1.1 35228,35229 1bn8A 420 3.06e+01 1pcl b.80.1.1 28022 1i6lA 328 3.07e+01 c.26.1.1 66041 1zthA 258 3.09e+01 1bby 69 3.10e+01 2bby a.4.5.15 16149 1xtoA 311 3.13e+01 1o0yA 260 3.15e+01 c.1.10.1 80756 2cxaA 256 3.20e+01 1dkuA 317 3.21e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1o1zA 234 3.21e+01 c.1.18.3 86555 2bwbA 46 3.24e+01 2ffeA 311 3.28e+01 1fg7A 356 3.29e+01 1gewA c.67.1.1 59819 2bo4A 397 3.30e+01 1ej0A 180 3.31e+01 1ej0A c.66.1.2 34179 1of8A 370 3.46e+01 c.1.10.4 92819 1j1vA 94 3.49e+01 a.4.12.2 83981 1vcvA 226 3.50e+01 1n8jA 186 3.55e+01 c.47.1.10 85401 2bce 581 3.58e+01 2bce c.69.1.1 34625 2dfkA 402 3.59e+01 1tueA 212 3.60e+01 c.37.1.20 107323 1p8xA 344 3.60e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1v0lA 313 3.68e+01 c.1.8.3 108207 1oj4A 283 3.69e+01 d.14.1.5,d.58.26.5 93083,93084 3seb 238 3.80e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1qzgA 187 3.82e+01 b.40.4.3 96643 1ti6B 274 3.82e+01 b.3.5.1,d.58.1.5 106976,106977 1v93A 296 3.83e+01 c.1.23.1 100532 1ta8A 332 3.86e+01 1vicA 262 3.90e+01 c.68.1.13 100756 2bw0A 329 3.90e+01 2a41C 32 3.91e+01 1wrjA 156 3.92e+01 1wu3I 161 3.93e+01 1fhgA 154 4.01e+01 1tlk b.1.1.4 21706 1ydyA 356 4.03e+01 1vr4A 103 4.07e+01 2gi3A 476 4.10e+01 1tyjA 170 4.11e+01 1wcdJ 441 4.16e+01 1vjpA 394 4.21e+01 c.2.1.3,d.81.1.3 100828,100829 2fcjA 119 4.25e+01 2bwfA 77 4.29e+01 1f9vA 347 4.36e+01 1bg2 c.37.1.9 59745 1z2uA 150 4.36e+01 5nul 138 4.58e+01 5nul c.23.5.1 31191 1n8kA 374 4.66e+01 b.35.1.2,c.2.1.1 80298,80299 1yr2A 741 4.69e+01 1r64A 481 4.71e+01 b.18.1.20,c.41.1.1 97140,97141 1vddA 228 4.76e+01 e.49.1.1 108519 1u3wA 374 4.77e+01 1f2tB 148 4.78e+01 1f2tB 1xrjA 261 4.82e+01 1mixA 206 4.90e+01 a.11.2.1,b.55.1.5 79166,79167 1ok7A 366 4.95e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1cfr 285 4.96e+01 1cfr c.52.1.7 33312 1a8q 274 4.98e+01 1brt c.69.1.12 34702 1iwmA 186 5.03e+01 b.125.1.2 83758 2trcP 217 5.03e+01 1b9yC c.47.1.6 33051 1jy5A 212 5.04e+01 d.124.1.1 71940 1f5jA 199 5.08e+01 1axkA b.29.1.11 24342 1m4jA 142 5.15e+01 d.109.1.2 78602 1vqoL 165 5.16e+01 1squA 155 5.19e+01 d.252.1.1 98971 1rr7A 129 5.24e+01 a.4.1.14 105075 1uj2A 252 5.27e+01 c.37.1.6 99452 1lk2A 274 5.28e+01 b.1.1.2,d.19.1.1 91056,91057 1s0pA 176 5.30e+01 a.192.1.1 98300 2f42A 179 5.31e+01 2as9A 210 5.33e+01 1gs5A 258 5.36e+01 c.73.1.2 70395 1iruK 201 5.50e+01 d.153.1.4 71362 1r1a1 287 5.50e+01 1aym1 2aioA 269 5.56e+01 1q3lA 69 5.61e+01 2a3mA 130 5.63e+01 1mdc 133 5.74e+01 1hmt b.60.1.2 27198 1pyfA 312 5.81e+01 c.1.7.1 95334 1h6lA 353 5.82e+01 b.68.3.1 60687 1ouwA 152 5.84e+01 b.77.3.1 93571 2b2aA 199 5.84e+01 2f6hX 419 5.88e+01 1idk 359 5.93e+01 1qcxA b.80.1.2 28025 1w9zA 283 6.05e+01 1fsgA 233 6.29e+01 1qk3A c.61.1.1 34029 2av5A 120 6.45e+01 2trxA 108 6.49e+01 1thx c.47.1.1 32719 1o57A 291 6.50e+01 a.4.5.40,c.61.1.1 92483,92484 2a74A 643 6.60e+01 1kshA 186 6.61e+01 c.37.1.8 72914 1tt8A 164 6.65e+01 1vjjA 692 6.68e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1e0tA 470 6.73e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1l6xA 207 6.75e+01 b.1.1.2,b.1.1.2 73642,73643 1e9rA 437 6.76e+01 c.37.1.11 64827 1ebfA 358 6.76e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1xttA 216 6.81e+01 1vkuA 100 6.81e+01 a.28.1.1 108690 1rwzA 245 6.97e+01 d.131.1.2,d.131.1.2 98005,98006 1y2tA 142 7.11e+01 1b6g 310 7.18e+01 1b6g c.69.1.8 34661 1c7qA 445 7.22e+01 2pgi c.80.1.2 35307 1t0hA 132 7.25e+01 b.34.2.1 106207 1wq8A 110 7.26e+01 1i58A 189 7.31e+01 1b3qA d.122.1.3 61773 1yq5A 144 7.32e+01 1v95A 130 7.42e+01 c.51.1.1 108435 1fp1D 372 7.43e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1qopB 396 7.51e+01 2tysB c.79.1.1 35270 1svpA 161 7.51e+01 1svpA b.47.1.3 26384 2cygA 312 7.53e+01 1ve0A 134 7.57e+01 1q1oA 98 7.68e+01 d.15.2.2 95596 1ptf 88 7.68e+01 1ptf d.94.1.1 40549 1y96A 86 7.69e+01 1p4xA 250 7.69e+01 a.4.5.28,a.4.5.28 87784,87785 1zc6A 305 7.71e+01 1u09A 476 7.85e+01 e.8.1.4 107545 1ep0A 185 7.92e+01 1dzrA b.82.1.1 28080 2gnxA 365 7.96e+01 1g0sA 209 8.03e+01 1g0sA d.113.1.1 60187 1khbA 625 8.10e+01 c.91.1.1,c.109.1.1 68606,68607 1no5A 114 8.11e+01 d.218.1.5 92014 1v30A 124 8.20e+01 1z7aA 308 8.21e+01 2btiA 63 8.22e+01 1wwhA 119 8.29e+01 2aq4A 434 8.31e+01 1i1qB 192 8.41e+01 1qdlB c.23.16.1 61544 1fdr 248 8.41e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1u46A 291 8.45e+01 d.144.1.7 107656 1acf 125 8.52e+01 3nul d.110.1.1 40882 1owfA 99 8.52e+01 a.55.1.1 87487 2fk4A 75 8.54e+01 1meoA 209 8.55e+01 c.65.1.1 79035 1kwiA 101 8.59e+01 d.17.1.3 77564 2fn0A 437 8.63e+01 1j5sA 463 8.68e+01 c.1.9.8 71580 1i8dA 213 8.71e+01 b.43.4.3,b.43.4.3 61953,61954 1mr7A 209 8.75e+01 b.81.1.3 91430 1ri5A 298 8.75e+01 c.66.1.34 97502 2amhA 207 8.81e+01 2gh1A 301 8.84e+01 2a67A 167 8.91e+01