# List of top-scoring protein chains for T0231.t04-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 1f7sA 139 2.54e-19 1cof d.109.1.2 40857 1v6fA 151 3.07e-17 1cfyA 143 6.24e-17 1cof d.109.1.2 40858 1cnuA 137 9.93e-17 1cof d.109.1.2 40862 1ak6 174 1.28e-15 1cof d.109.1.2 40865 1m4jA 142 3.73e-14 d.109.1.2 78602 1hqz1 141 9.43e-13 1udmA 149 1.41e-07 1s4kA 120 1.11e+00 1h8bA 75 1.26e+00 a.39.1.7 60736 1jkgA 140 2.01e+00 d.17.4.2 66795 1apa 266 4.04e+00 1qi7A d.165.1.1 42205 1d4bA 122 4.31e+00 1d4bA d.15.2.1 37638 1ipeA 259 5.12e+00 c.2.1.2 83700 2ae2A 260 5.14e+00 1bdb c.2.1.2 29945 1jx9B 557 7.40e+00 1kecB 557 7.49e+00 1gk9B 557 7.51e+00 1e3aB 560 7.52e+00 1ajqB 1ajqB 557 7.53e+00 1ajqB 1fxhB 557 7.92e+00 1ajqB 1gkfB 557 7.94e+00 1a6s 87 8.03e+00 1a6s a.61.1.4 18134 1h2gB 557 8.36e+00 1mai 131 8.61e+00 1mai b.55.1.1 26951 1ae1A 273 9.16e+00 1bdb c.2.1.2 29943 1f8yA 157 1.02e+01 1f8xA c.23.14.1 31395 1vhdA 371 1.10e+01 e.22.1.2 -12000 1o2dA 371 1.11e+01 e.22.1.2 86591 1qe0A 420 1.14e+01 1adjA c.51.1.1 33186 d.104.1.1 40735 1ja9A 274 1.16e+01 c.2.1.2 62817 1qcxA 359 1.22e+01 1qcxA b.80.1.2 28028 1h6fA 193 1.22e+01 b.2.5.4 70901 1vhzA 198 1.24e+01 d.113.1.1 -10897 1d9zA 657 1.35e+01 1d2mA c.37.1.19 32421 c.37.1.19 32422 1d9xA 658 1.36e+01 1d2mA c.37.1.19 32419 c.37.1.19 32420 1oy5A 257 1.37e+01 c.116.1.4 -6699 1kwnA 207 1.46e+01 b.25.1.1 77568 1thv 207 1.48e+01 1thv b.25.1.1 23904 1rqwA 207 1.48e+01 b.25.1.1 -3313 1t5lA 658 1.54e+01 1lhpA 312 1.63e+01 c.72.1.5 77960 1qwrA 319 1.75e+01 b.82.1.3 -4880 1ipjA 416 2.52e+01 b.82.1.2 71258 b.82.1.2 71259 1oc2A 348 2.54e+01 c.2.1.2 -5753 1ipkA 416 2.57e+01 b.82.1.2 71264 b.82.1.2 71265 1qqp2 218 3.02e+01 1qqp2 1khoA 370 3.04e+01 a.124.1.1 72489 b.12.1.3 72490 1b5sA 242 3.20e+01 1eaf c.43.1.1 32626 1b8aA 438 3.33e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1j9aA 184 3.43e+01 c.55.3.5 84135 1b4aA 149 3.47e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1qd1A 325 3.50e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1ctm 250 3.52e+01 1hcz b.2.6.1 22465 b.84.2.2 28251 1hcz 252 3.53e+01 1hcz b.2.6.1 22464 b.84.2.2 28250 1j1qA 261 3.61e+01 d.165.1.1 -11546 1lixA 528 3.71e+01 b.58.1.1 77994 c.1.12.1 77995 c.49.1.1 77996 1liwA 528 3.71e+01 b.58.1.1 77982 c.1.12.1 77983 c.49.1.1 77984 1liyA 528 3.71e+01 b.58.1.1 78006 c.1.12.1 78007 c.49.1.1 78008 1liuA 528 3.72e+01 b.58.1.1 77970 c.1.12.1 77971 c.49.1.1 77972 1e33P 488 3.73e+01 1auk c.76.1.2 59186 1o6fA 710 3.73e+01 b.69.7.1 81085 c.69.1.4 81086 1i4wA 353 3.75e+01 c.66.1.24 66028 1o6gA 710 3.77e+01 b.69.7.1 81087 c.69.1.4 81088 1e8nA 710 3.78e+01 1qfmA b.69.7.1 27675 c.69.1.4 34643 1ujxA 119 3.79e+01 b.26.1.2 -3325 1h2wA 710 3.81e+01 b.69.7.1 76596 c.69.1.4 76597 1n55A 251 3.85e+01 c.1.1.1 80007 1e3cP 489 3.86e+01 1auk c.76.1.2 59187 1amk 251 3.88e+01 1amk c.1.1.1 28503 2lao 238 3.93e+01 1lst c.94.1.1 35758 1lst 239 3.95e+01 1lst c.94.1.1 35755 1auk 488 3.99e+01 1auk c.76.1.2 35030