# List of top-scoring protein chains for 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.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 2uytA 489 6.37e-02 3kd4A 506 2.98e-01 1hx8A 299 1.04e+00 1hg5A a.7.8.2 90362 a.118.9.3 90363 2z7rA 321 3.00e+00 2v94A 107 4.05e+00 d.12.1.3 152795 3a8tA 339 4.16e+00 1qorA 327 4.91e+00 1qorA b.35.1.2 24766 c.2.1.1 29782 3g51A 325 5.01e+00 1dl7H 112 5.04e+00 1f3rB b.1.1.1 20499 1bbjB 212 5.74e+00 b.1.1.1 118420 b.1.1.2 118421 2w5nA 367 5.99e+00 1g3jB 61 6.85e+00 1g3jB j.71.1.1 46366 3gsdA 122 7.32e+00 1gafH 217 7.43e+00 1mfa b.1.1.1 20083 b.1.1.2 21115 2rcsH 217 7.74e+00 1mfa b.1.1.1 20087 b.1.1.2 21119 1aupA 449 8.56e+00 c.2.1.7 30222 c.58.1.1 33870 1bgvA 449 8.84e+00 1k89 c.2.1.7 30217 c.58.1.1 33865 1hrdA 449 8.84e+00 1k89 c.2.1.7 30219 c.58.1.1 33867 1k89A 449 8.87e+00 c.2.1.7 30218 c.58.1.1 33866 3merA 202 8.88e+00 1h8tC 238 9.07e+00 b.121.4.1 70922 3f75A 224 9.21e+00 1mexH 215 9.41e+00 b.1.1.1 91257 b.1.1.2 91258 2oqcA 327 9.95e+00 1jmoA 480 1.04e+01 e.1.1.1 77138 1u7gA 385 1.18e+01 f.44.1.1 107723 1exzA 141 1.19e+01 1exzA a.26.1.2 16877 3i6aA 222 1.20e+01 1h6gA 256 1.22e+01 1h6gA a.24.9.1 60669 a.24.9.1 60670 1d5yA 292 1.25e+01 1d5yA a.4.1.8 16055 a.4.1.8 16056 d.60.1.2 39532 1t2aA 375 1.26e+01 c.2.1.2 99078 3dh0A 219 1.36e+01 1vb5A 276 1.39e+01 c.124.1.5 113604 3bgaA 1010 1.50e+01 2gojA 197 1.54e+01 2bpiA 206 1.55e+01 2awpA 198 1.55e+01 1xxeA 282 1.58e+01 d.14.1.7 116157 d.14.1.7 116158 2azwA 148 1.69e+01 d.113.1.1 127615 3hkzH 84 1.76e+01 3ag3B 227 1.76e+01 1v54B 227 1.76e+01 b.6.1.2 100322 f.17.2.1 100323 2occB 227 1.76e+01 2occB b.6.1.2 23027 f.17.2.1 43519 2waqH 84 1.78e+01 2go3A 267 1.79e+01 d.14.1.7 135422 d.14.1.7 135423 1p42A 270 1.80e+01 d.14.1.7 87754 d.14.1.7 87755 2j65A 271 1.80e+01 d.14.1.7 138074 d.14.1.7 138075 2jt2A 274 1.81e+01 d.14.1.7 148195 d.14.1.7 148196 2p54A 267 1.90e+01 a.123.1.1 139497 2npaA 270 1.91e+01 1kkqA 269 1.91e+01 a.123.1.1 68679 3g8iA 270 1.91e+01 2znnA 273 1.92e+01 1igfL 219 1.94e+01 8fabA b.1.1.1 19812 b.1.1.2 20922 3kduA 277 1.94e+01 3et1A 291 1.95e+01 2v1uA 387 1.97e+01 1k7lA 288 1.99e+01 a.123.1.1 68268 1i7gA 287 2.04e+01 a.123.1.1 71121 2g38B 198 2.06e+01 a.25.4.2 134550 2vyfA 454 2.15e+01 1scfA 273 2.16e+01 1exzA a.26.1.2 16873 1usbA 225 2.23e+01 a.45.1.1 108001 c.47.1.5 108002 3kt0A 438 2.24e+01 2k6bA 113 2.28e+01 2cruA 118 2.31e+01 a.5.6.1 130742 3g0tA 437 2.31e+01 2ftpA 302 2.32e+01 2r6kA 222 2.38e+01 a.45.1.1 151614 c.47.1.5 151615 2ip1A 432 2.39e+01 1g5aA 628 2.39e+01 b.71.1.1 65152 c.1.8.1 65153 1gseA 221 2.41e+01 1pgtA a.45.1.1 17667 c.47.1.5 32961 1k3yA 221 2.41e+01 a.45.1.1 77245 c.47.1.5 77246 1pl1A 222 2.41e+01 a.45.1.1 104178 c.47.1.5 104179 3l0hA 222 2.41e+01 3ktlA 221 2.43e+01 1xwgA 221 2.44e+01 a.45.1.1 122400 c.47.1.5 122401 1pl2A 222 2.44e+01 a.45.1.1 104182 c.47.1.5 104183 3hrfA 311 2.50e+01 3k69A 162 2.52e+01 2iyfA 430 2.52e+01 1ydkA 222 2.52e+01 a.45.1.1 122997 c.47.1.5 122998 1nstA 325 2.54e+01 1nstA c.37.1.5 31951 2r3xA 222 2.54e+01 a.45.1.1 151561 c.47.1.5 151562 1mhyB 395 2.57e+01 1mtyB a.25.1.2 16781 3gm3A 153 2.60e+01 2iqcA 210 2.63e+01 1v3yA 192 2.68e+01 d.167.1.1 113508 2wvmA 391 2.72e+01 1svfB 38 2.72e+01 1svfB h.3.2.1 45764 3eciA 122 2.75e+01 2npdA 424 2.77e+01 2d89A 119 2.78e+01 2npeA 424 2.79e+01 1vjgA 218 2.80e+01 c.23.10.6 100810 2npkA 424 2.82e+01 3c1iA 424 2.84e+01 2ns1A 412 2.85e+01 f.44.1.1 138545 1xqfA 418 2.85e+01 f.44.1.1 115843 2nopA 424 2.85e+01 f.44.1.1 138413 2nuuA 415 2.86e+01 f.44.1.1 138611 3bh1A 507 2.86e+01 2npcA 424 2.88e+01 2nowA 424 2.89e+01 1n27A 96 2.93e+01 b.34.9.2 91549 1bvuA 418 2.97e+01 1hwyA c.2.1.7 30226 c.58.1.1 33874 3hm4A 156 3.00e+01 3cvgA 294 3.11e+01 1xo1A 291 3.20e+01 1exnA a.60.7.1 18086 c.120.1.2 33356 2wvlA 391 3.21e+01 1t4bA 367 3.22e+01 c.2.1.3 106406 d.81.1.1 106407 1brmA 367 3.22e+01 1brmA c.2.1.3 30030 d.81.1.1 39945 1exnA 290 3.22e+01 1exnA a.60.7.1 18088 c.120.1.2 33358 1ut8A 291 3.23e+01 a.60.7.1 99908 c.120.1.2 99909 3dmbA 147 3.41e+01 3h4yA 156 3.43e+01 3g00A 265 3.44e+01 2fiaA 162 3.48e+01 d.108.1.1 133514 3fziA 265 3.49e+01 1l7cA 269 3.49e+01 a.24.9.1 73647 a.24.9.1 73648 3k6eA 156 3.53e+01 3fzqA 274 3.54e+01 1ffyA 917 3.67e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 3.67e+01 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 3js3A 258 3.68e+01 2npjA 424 3.70e+01 1b9oA 123 3.74e+01 3lzt d.2.1.2 36597 2r6aA 454 3.74e+01 1uu9A 286 3.79e+01 d.144.1.7 100002 2pe2A 286 3.79e+01 d.144.1.7 139666 1h1wA 289 3.80e+01 d.144.1.7 83460 3iopA 312 3.81e+01 1uu3A 310 3.82e+01 d.144.1.7 99999 3h9oA 311 3.82e+01 3g91A 265 3.87e+01 3ij3A 482 3.87e+01 2bz6H 254 3.89e+01 b.47.1.2 129552 1itwA 741 3.97e+01 c.77.1.2 76793 2clsA 198 3.99e+01 2rexB 197 3.99e+01