# List of top-scoring protein chains for t04-100-30-str2-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.soe.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 2omf 340 6.14e-23 2omf 1hxxA 340 7.24e-23 2omf f.4.3.1 61385 1e54A 332 9.25e-23 1e54A f.4.3.1 59258 2j1nA 346 1.23e-22 2fgqX 332 1.63e-22 f.4.3.1 133439 2por 301 4.26e-08 2por 2porA 301 4.26e-08 f.4.3.1 43759 1prn 289 2.07e-06 3prn 3prn 289 2.24e-06 3prn 3prnA 289 2.24e-06 f.4.3.1 43761 1a0tP 413 8.91e-05 1a0tP f.4.3.2 43794 2o4vA 411 1.31e-04 1p4tA 155 4.89e-02 f.4.1.1 87779 1i78A 297 9.17e-02 f.4.4.1 66046 2odjA 428 1.98e-01 2mprA 421 2.81e-01 2mprA f.4.3.2 43788 1qfgA 725 6.68e-01 1by5A f.4.3.3 43803 2iwvA 281 9.00e-01 1a8d 452 9.79e-01 1a8d 1a8dA 452 9.79e-01 b.29.1.6,b.42.4.2 24262,25607 1qjpA 171 1.00e+00 1bxwA f.4.1.1 43742 1qd5A 275 1.78e+00 1qd5A f.4.2.1 43748 1txnA 328 1.90e+00 d.248.1.1 112779 1yo8A 634 2.12e+00 1t16A 427 2.19e+00 f.4.3.4 106242 1cb8A 678 2.26e+00 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1ux6A 350 2.61e+00 b.29.1.16,g.75.1.1 100145,100146 2f1cX 286 3.14e+00 1bec 238 3.49e+00 1bec 1becA 238 3.49e+00 b.1.1.1,b.1.1.2 20627,21561 1qd6C 240 3.68e+00 1qd5A 1yq2A 1024 3.75e+00 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 123843,123844,123845,123846,123847 1hn0A 1021 3.77e+00 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1tk1A 260 4.05e+00 d.248.1.1 107066 1upsA 420 4.78e+00 b.29.1.2,b.42.2.3 113394,113395 1kmoA 774 5.02e+00 f.4.3.3 72753 1po0A 751 5.05e+00 f.4.3.3 94960 2jqyA 280 5.10e+00 1fx5A 242 5.35e+00 1led b.29.1.1 24135 2f1vA 197 5.60e+00 2h5oA 234 6.22e+00 2o62A 270 6.71e+00 1o6gA 710 7.00e+00 b.69.7.1,c.69.1.4 81087,81088 2ehzA 302 7.16e+00 1zgoA 223 7.26e+00 2q86B 254 7.45e+00 1ggxA 223 7.60e+00 1ggxA d.22.1.1 38367 1qj8A 148 8.10e+00 1qj8A f.4.1.1 43744 1hq0A 295 8.60e+00 1hzgA d.194.1.1 61122 1ytqA 204 9.05e+00 b.11.1.1,b.11.1.1 124012,124013 1txkA 498 9.73e+00 b.1.18.2,b.30.5.9 107425,107426 2aexA 346 9.90e+00 2gufA 594 9.98e+00 f.4.3.3 135736 1h2wA 710 9.98e+00 b.69.7.1,c.69.1.4 76596,76597 2p4mA 219 1.02e+01 2hpwA 233 1.02e+01 2bemA 170 1.10e+01 b.1.18.2 116698 1qfmA 710 1.11e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 2a46A 238 1.12e+01 1k1xA 659 1.14e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1r1a1 287 1.20e+01 1aym1 1lj5A 379 1.24e+01 e.1.1.1 73928 1jv2A 957 1.25e+01 b.1.15.1,b.1.15.1,b.1.15.1,b.69.8.1 67334,67335,67336,67337 1qexA 288 1.31e+01 1qexA b.32.1.1 24425 2icrA 237 1.31e+01 1nqeA 594 1.36e+01 f.4.3.3 86027 1m8uA 173 1.42e+01 b.11.1.1,b.11.1.1 91233,91234 1xcrA 316 1.43e+01 d.290.1.2 121860 2ej9A 237 1.52e+01 1yi9A 309 1.53e+01 b.121.1.2,b.121.1.2 123276,123277 2bjqA 345 1.53e+01 b.169.1.1,b.169.1.1 128626,128627 1phm 310 1.63e+01 1phm 2ogrA 229 1.64e+01 1sdwA 314 1.66e+01 b.121.1.2,b.121.1.2 98810,98811 1j5wA 298 1.70e+01 d.104.1.1 71589 2mev1 277 1.72e+01 2mev1 2oxaA 600 1.75e+01 2oajA 902 1.80e+01 2gw3A 225 1.80e+01 1atiA 505 1.89e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1wmxA 205 1.93e+01 b.18.1.24 109418 1who 96 1.99e+01 1who 1whoA 96 1.99e+01 b.7.3.1 23215 1q40B 219 1.99e+01 d.17.4.2 95771 1gzcA 239 2.00e+01 b.29.1.1 70803 1tv8A 340 2.03e+01 c.1.28.3 107352 2bb2 181 2.04e+01 2bb2 3psgA 370 2.07e+01 b.50.1.2 26841 2i4lA 458 2.23e+01 2bc4A 211 2.25e+01 3b9cA 144 2.29e+01 1xkwA 665 2.31e+01 2biwA 490 2.36e+01 1kxoA 184 2.42e+01 b.60.1.1 84475 1c0pA 363 2.49e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1bbpA 173 2.49e+01 1bbpA b.60.1.1 27147 2j89A 261 2.58e+01 1cid 177 2.73e+01 1cid 1cidA 177 2.73e+01 b.1.1.1,b.1.1.3 19740,21679 1hleA 345 2.73e+01 1ovaA e.1.1.1 42618 2hbtA 247 2.75e+01 1y55X 126 2.81e+01 2q7nA 488 2.81e+01 2zaiA 497 2.85e+01 3bo5A 290 2.91e+01 2qdrA 303 2.94e+01 2fb2A 340 2.95e+01 2aqqA 164 2.98e+01 2rdgA 196 3.02e+01 1p9qC 256 3.04e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 2p8eA 307 3.07e+01 2qntA 141 3.07e+01 2awkA 228 3.08e+01 1k2eA 156 3.14e+01 d.113.1.1 72010 2aj6A 159 3.16e+01 d.108.1.1 126841 1vgjA 184 3.26e+01 1aym1 285 3.31e+01 1aym1 2zb6A 481 3.35e+01 2c4xA 260 3.43e+01 1dg6A 191 3.54e+01 1d4vB b.22.1.1 23883 1xmzA 241 3.63e+01 1f0cA 305 3.65e+01 1c8oA e.1.1.1 42676 2g6yA 217 3.74e+01 2re9A 181 3.83e+01 1wd6A 123 3.93e+01 d.58.4.12 114525 2qn6A 414 3.95e+01 2ak4E 245 3.97e+01 2qtzA 539 4.12e+01 2cb4A 291 4.25e+01 1mw7A 240 4.27e+01 e.39.1.1 79557 1kypA 237 4.36e+01 d.22.1.1 73280 2aioA 269 4.37e+01 d.157.1.1 126829 2erfA 209 4.38e+01 b.29.1.4 132287 1ajoA 214 4.43e+01 1axkA b.29.1.2 24179 2ny1B 184 4.46e+01 b.1.1.1,b.1.1.3 138764,138765 1oxdA 227 4.63e+01 d.22.1.1 93687 1c8nA 276 4.64e+01 1smvA b.121.4.7 23308 1smlA 269 4.65e+01 1smlA d.157.1.1 42053 2dd7A 216 4.69e+01 2v9kA 530 4.80e+01 2vadA 223 4.85e+01 1t95A 240 4.87e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 2p52A 196 4.89e+01 1u7lA 392 4.92e+01 e.57.1.1 113093 3c0tA 207 4.97e+01 2g19A 244 4.97e+01 1qnxA 209 5.01e+01 1qnxA d.111.1.1 40914 2cm5A 166 5.02e+01 b.7.1.2 130613 2ayh 214 5.06e+01 1axkA 2ayhA 214 5.06e+01 b.29.1.2 24172 2eenA 183 5.13e+01 1eguA 731 5.24e+01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 2yueA 168 5.24e+01 1ema 236 5.30e+01 1ema 2aqmA 154 5.36e+01 2c9jA 223 5.41e+01 1uw6A 211 5.41e+01 b.96.1.1 100079 2aqpA 164 5.43e+01 1vpkA 378 5.47e+01 d.131.1.1,d.131.1.1,d.131.1.1 113963,113964,113965 1vgyA 393 5.50e+01 c.56.5.4,d.58.19.1 100620,100621 1tltA 319 5.60e+01 c.2.1.3,d.81.1.5 107135,107136 2petA 231 5.61e+01 1h4uA 265 5.66e+01 1h4uA d.22.1.2,g.3.11.5 60622,60623 1zuxA 224 5.70e+01 1uisA 231 5.74e+01 d.22.1.1 99431 1ir3A 306 5.76e+01 1fmk d.144.1.7 41702 1h54A 754 5.78e+01 a.102.1.4,b.30.5.3 60634,60635 2hx0A 154 5.80e+01 d.290.1.3 136830 2odiA 238 5.81e+01 1m93B 245 5.97e+01 2dddA 225 6.13e+01 1r0uA 148 6.24e+01 b.60.1.5 96741 1amm 174 6.44e+01 1amm 1ammA 174 6.44e+01 b.11.1.1,b.11.1.1 23587,23588 1mu5A 471 6.46e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 2bfxA 284 6.59e+01 1qpcA 279 6.59e+01 1fgkA d.144.1.7 41685 1uv6A 210 6.67e+01 b.96.1.1 100030 1g5hA 454 6.69e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 2ijrA 300 6.74e+01 3c8wA 255 6.81e+01 1bkzA 135 6.82e+01 1a3k b.29.1.3 24202 3cla 213 6.84e+01 3cla 3claA 213 6.84e+01 c.43.1.1 32610 2vovA 336 6.87e+01 1h4aX 173 6.90e+01 b.11.1.1,b.11.1.1 83479,83480 1e42A 258 6.92e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 2pieA 138 6.93e+01 2hb0A 369 7.00e+01 1ryp2 233 7.03e+01 1ryp2 1z2wA 192 7.08e+01 d.159.1.7 124390 1qwzA 235 7.13e+01 b.100.1.1 96510 1vyoA 128 7.16e+01 2e26A 725 7.18e+01 1srvA 145 7.25e+01 1derA c.8.5.1 30817 1y43B 173 7.37e+01 2ql3A 209 7.56e+01 4gcr 174 7.56e+01 1amm 2eigA 234 7.59e+01 2fi3I 58 7.71e+01 2qk0A 74 7.76e+01 1wcdJ 441 7.81e+01 b.121.4.9 120887 2gu1A 361 7.86e+01