# List of top-scoring protein chains for T0234.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.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 1dnlA 199 2.49e-07 1ci0A b.45.1.1 25753 1g79A 218 2.55e-07 1ci0A b.45.1.1 25752 1nrgA 261 1.56e-04 b.45.1.1 80694 1flmA 122 3.42e-02 1axj b.45.1.1 25747 1dhs 361 1.33e-01 1dhs c.31.1.1 31727 1orrA 347 3.93e-01 c.2.1.2 -5776 1ml5d 178 1.60e+00 1ci0A 228 1.61e+00 1ci0A b.45.1.1 25750 1rl2A 137 1.91e+00 1rl2A b.34.5.3 24610 b.40.4.5 25342 487dI 135 2.30e+00 1rl2A i.1.1.2 45836 1qrrA 394 2.49e+00 1qrrA c.2.1.2 29824 1plq 258 2.55e+00 1plq d.131.1.2 41388 d.131.1.2 41389 1ko3A 230 2.80e+00 d.157.1.1 -11454 1i24A 404 2.86e+00 c.2.1.2 83663 1nhoA 85 3.26e+00 c.47.1.1 -7408 1qp8A 303 3.63e+00 1qp8A c.2.1.4 30092 c.23.12.1 31352 1cf3A 583 3.88e+00 1gpeA c.3.1.2 30385 d.16.1.1 37949 1sxjF 283 4.02e+00 1nd4A 264 4.59e+00 d.144.1.6 -11381 1bdb 277 4.68e+00 1bdb c.2.1.2 29874 1g8pA 350 5.13e+00 1g8pA c.37.1.20 60376 4znbA 232 5.18e+00 1a7tA d.157.1.1 42047 1ffvA 163 5.30e+00 1qj2A a.56.1.1 17915 d.15.4.2 37700 1znbA 232 5.96e+00 1a7tA d.157.1.1 42039 1ojrA 274 6.03e+00 c.74.1.1 -8441 1hlkA 227 6.06e+00 d.157.1.1 65848 2bmiA 232 6.06e+00 1a7tA d.157.1.1 42043 1gt7A 274 6.10e+00 c.74.1.1 70398 1nz9A 58 6.12e+00 b.34.5.4 -3645 1a79A 171 6.92e+00 1a79A c.52.2.1 33340 d.75.1.1 39739 1fiqC 763 7.61e+00 1fiqC d.41.1.1 38588 d.133.1.1 41418 1ea0A 1479 7.72e+00 b.80.4.1 64854 c.1.4.1 64855 d.153.1.1 64856 1ego 85 8.27e+00 1kte c.47.1.1 32767 1ul5A 88 9.00e+00 unknown_sccs -12762 1s3jA 155 9.94e+00 a.4.5.28 -227 1ewkA 490 1.04e+01 1ewkA c.93.1.1 35712 1guiA 155 1.08e+01 b.18.1.14 76351 1knqA 175 1.11e+01 c.37.1.17 72786 1n5xA 1331 1.15e+01 a.56.1.1 85342 d.15.4.2 85343 d.41.1.1 85344 d.87.2.1 85345 d.133.1.1 85346 d.145.1.3 85347 1v97A 1332 1.16e+01 1mit 69 1.18e+01 1hymA d.40.1.1 38582 1tin 69 1.18e+01 2sniI d.40.1.1 38580 1fobA 334 1.20e+01 c.1.8.3 83255 1n6aA 259 1.32e+01 b.76.2.1 80121 b.85.7.1 80122 1i6lA 328 1.34e+01 c.26.1.1 66041 1mufA 257 1.35e+01 b.76.2.1 79483 b.85.7.1 79484 1fmcA 255 1.36e+01 1cydA c.2.1.2 29856 1grx 85 1.39e+01 1kte c.47.1.1 32766 1d2rA 326 1.41e+01 1d2rB c.26.1.1 31572 1mt6A 280 1.49e+01 b.76.2.1 79446 b.85.7.1 79447 1a41 234 1.59e+01 1a41 d.163.1.2 42174 1n6cA 297 1.59e+01 b.76.2.1 80123 b.85.7.1 80124 1h3iA 293 1.60e+01 b.76.2.1 76635 b.85.7.1 76636 1s0iA 648 1.67e+01 1ms9A 648 1.67e+01 b.29.1.15 85088 b.68.1.1 85089 1ms5A 648 1.68e+01 b.29.1.15 85076 b.68.1.1 85077 1uk0A 350 1.68e+01 a.41.1.1 -902 d.166.1.2 -11584 1prxA 224 1.69e+01 1prxA c.47.1.10 33076 1byfA 125 1.70e+01 1byfA d.169.1.1 42419 1dykA 394 1.72e+01 1dykA b.29.1.4 24223 b.29.1.4 24224 1pxvA 183 1.73e+01 d.3.1.1 -8881 1mz5A 638 1.79e+01 b.29.1.15 79679 b.68.1.1 79680 3cln 148 1.82e+01 1cll a.39.1.5 17286 1iq5A 149 1.89e+01 a.39.1.5 62643 1prwA 149 1.89e+01 a.39.1.5 -842 1cdlA 147 1.90e+01 1cll a.39.1.5 17272 1g4yR 148 1.90e+01 1cll a.39.1.5 60252 1cdmA 144 1.97e+01 1cll a.39.1.5 17270 1k93D 144 2.01e+01 a.39.1.5 68330 1oojA 149 2.10e+01 a.39.1.5 87198 1mxeA 148 2.12e+01 a.39.1.5 79644 1kutA 230 2.16e+01 d.143.1.1 73017 1j71A 334 2.22e+01 1eagA b.50.1.2 62669 1n1tA 641 2.24e+01 b.29.1.15 79821 b.68.1.1 79822 1vh9A 149 2.24e+01 d.38.1.5 -9693 1okqA 394 2.26e+01 b.29.1.4 -3435 b.29.1.4 -3436 1ggzA 148 2.27e+01 a.39.1.5 70176 1fo5A 85 2.29e+01 1fo5A c.47.1.1 59922 1nwhA 370 2.35e+01 c.2.1.3 -5885 d.81.1.1 -10468 1tyfA 193 2.36e+01 1tyfA c.14.1.1 30885 3pcgA 200 2.38e+01 3pchA b.3.6.1 22647 1ozaA 371 2.38e+01 1nwcA 371 2.42e+01 c.2.1.3 -5883 d.81.1.1 -10466 1qlmA 316 2.42e+01 1qlmA d.147.1.1 41765 1nxkA 400 2.50e+01 d.144.1.7 -11344 1uuqA 440 2.55e+01 c.1.8.3 -5321 1m1hA 248 2.59e+01 b.114.1.1 78415 d.58.42.1 78416 1ftxA 387 2.71e+01 b.49.2.2 76191 c.1.6.1 76192 1fpwA 190 2.72e+01 1rec a.39.1.5 17329 2sfpA 388 2.73e+01 1bd0A b.49.2.2 26484 c.1.6.1 28646 1bd0A 388 2.74e+01 1bd0A b.49.2.2 26480 c.1.6.1 28642 4gatA 66 2.81e+01 1gatA g.39.1.1 45100 1ufwA 95 2.87e+01 d.58.7.1 -10034 1rj7A 163 3.15e+01 b.22.1.1 -3269 1ohtA 215 3.17e+01 d.118.1.1 87036 1gpeA 587 3.27e+01 1gpeA c.3.1.2 30387 d.16.1.1 37951 1a7m 180 3.28e+01 1lki a.26.1.1 16830 1jeoA 180 3.34e+01 c.80.1.3 66611 1a7tA 232 3.47e+01 1a7tA d.157.1.1 42041 1efyA 350 3.50e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1rfjA 149 3.53e+01 1a26 361 3.62e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1c4zD 154 3.80e+01 1u9aA d.20.1.1 38331 1rkqA 282 3.86e+01 c.108.1.10 -6847 1dq3A 454 3.92e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1p0hA 318 3.94e+01 d.108.1.1 -10802