# List of top-scoring protein chains for t2k-100-30-str 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 1lid 131 1.91e-17 1hmt b.60.1.2 27184 1hms 132 3.46e-17 1hmt b.60.1.2 27168 1hmt 132 3.89e-17 1hmt b.60.1.2 27169 1bwyA 132 1.03e-16 1hmt b.60.1.2 27172 1crb 134 2.90e-16 1hmt b.60.1.2 27220 1opbA 135 8.87e-16 1hmt b.60.1.2 27216 1opaA 135 9.28e-16 1hmt b.60.1.2 27214 1cbs 137 1.74e-15 1hmt b.60.1.2 27201 1ifc 132 7.19e-15 b.60.1.2 27173 1ftpA 133 8.87e-15 1hmt b.60.1.2 27199 1lfo 128 1.09e-13 1hmt b.60.1.2 27223 1eal 127 2.17e-12 1hmt b.60.1.2 27227 1mdc 133 6.16e-12 1hmt b.60.1.2 27198 1ge8A 249 7.84e-01 1plq d.131.1.2 41398 d.131.1.2 41399 2eifA 136 1.80e+00 1bkb b.34.5.2 24607 b.40.4.5 25339 1fvuB 125 3.60e+00 1ixxB d.169.1.1 42346 1fyeA 229 3.82e+00 1fyeA c.23.16.4 31477 1am2 199 3.83e+00 1am2 b.86.1.2 28381 1gmiA 136 3.94e+00 b.7.1.1 65309 1plq 258 4.75e+00 1plq d.131.1.2 41388 d.131.1.2 41389 1eqnA 321 4.94e+00 1dd9A e.13.1.1 43256 1ej0A 180 5.08e+00 1ej0A c.66.1.2 34179 2cgpA 210 5.60e+00 2cgpA a.4.5.4 16102 b.82.3.2 28141 2arcA 164 6.06e+00 2arcA b.82.4.1 28148 2arcB 164 6.07e+00 2arcA b.82.4.1 28149 1hyxH 224 6.24e+00 1igtB b.1.1.1 20167 b.1.1.2 21191 1dazC 99 7.01e+00 1hvc b.50.1.1 26501 1hw5A 210 8.56e+00 2cgpA a.4.5.4 16098 b.82.3.2 28137 1efcA 393 8.89e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1f5sA 211 9.20e+00 1f5sA c.108.1.4 59656 1j97A 211 9.21e+00 1f5sA c.108.1.4 62753 1l7mA 211 9.21e+00 1l1nA 183 9.43e+00 1k1tA 99 9.68e+00 1qexA 288 9.71e+00 1qexA b.32.1.1 24425 1hvc 203 9.99e+00 1hvc b.50.1.1 26614 2aviA 128 1.05e+01 1swuA b.61.1.1 27411 1f3lA 321 1.11e+01 1g6q2 c.66.1.6 59630 1plr 258 1.13e+01 1plq d.131.1.2 41390 d.131.1.2 41391 1e01A 48 1.14e+01 1e01A d.7.1.1 37326 1fltY 95 1.15e+01 1fltX b.1.1.4 21766 1f7lA 121 1.16e+01 1f7lA d.150.1.2 59666 1ftrA 296 1.21e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1difA 99 1.32e+01 1fmb b.50.1.1 26503 1dd9A 338 1.33e+01 1dd9A e.13.1.1 43254 1cbjA 151 1.36e+01 1mfmA b.1.8.1 22213 1f3uA 118 1.36e+01 1f3uA b.65.1.1 27521 1gxrA 337 1.37e+01 1a2vA 655 1.38e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1ew3A 159 1.39e+01 1mup b.60.1.1 27114 1ij8A 128 1.41e+01 b.61.1.1 62480 1ddeA 338 1.46e+01 1dd9A e.13.1.1 43255 5hvpA 99 1.46e+01 1fmb b.50.1.1 26605 1copD 66 1.58e+01 1orc a.35.1.2 17058 1a9xB 379 1.62e+01 1c3oB c.8.3.1 30732 c.23.16.1 31409 3ebx 62 1.64e+01 3ebx g.7.1.1 44389 1qrkA 731 1.76e+01 1f13A b.1.1.5 21889 b.1.5.1 22187 b.1.5.1 22188 d.3.1.4 37119 1jguH 217 1.76e+01 b.1.1.1 66688 b.1.1.2 66689 1fnhA 271 1.79e+01 1fnhA b.1.2.1 21976 b.1.2.1 21977 b.1.2.1 21978 2ltnA 181 1.82e+01 1led b.29.1.1 24024 1eagA 342 1.85e+01 1eagA b.50.1.2 26826 1ieaA 192 1.92e+01 1iakA b.1.1.2 21631 d.19.1.1 38205 1iw2A 182 1.93e+01 1j5pA 253 1.98e+01 2hrvA 142 1.99e+01 2hrvA b.47.1.4 26429 1cvmA 353 2.02e+01 1qlgA b.68.3.1 27628 1jbgA 109 2.13e+01 a.6.1.3 66480 1ddf 127 2.16e+01 1ddf a.77.1.1 18423 1c3oB 382 2.16e+01 1c3oB c.8.3.1 30744 c.23.16.1 31421 1nxb 62 2.17e+01 3ebx g.7.1.1 44395 1gguA 731 2.19e+01 1f13A b.1.1.5 21885 b.1.5.1 22179 b.1.5.1 22180 d.3.1.4 37115 1cxlA 686 2.19e+01 1cxlA b.1.1.5 21829 b.3.1.1 22498 b.71.1.1 27736 c.1.8.1 28723 1i8kB 124 2.33e+01 1qfhA 212 2.41e+01 1qfhA b.1.1.5 21893 b.1.1.5 21894 1ravA 127 2.46e+01 1swuA b.61.1.1 27409 1evuA 731 2.53e+01 1f13A b.1.1.5 21883 b.1.5.1 22175 b.1.5.1 22176 d.3.1.4 37113 1ichA 112 2.56e+01 1kzkA 99 2.58e+01 1efvB 255 2.62e+01 1efvB c.29.1.1 31634 1i3uA 127 2.75e+01 1gc1H b.1.1.1 61636 1lf7A 182 2.82e+01 1aisB 200 2.86e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1ttbA 127 2.88e+01 1etb1 b.3.4.1 22543 1oacA 727 2.89e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1fltX 95 2.95e+01 1fltX b.1.1.4 21765 1pta 318 2.96e+01 1pscA c.1.9.3 29064 1eywA 331 2.98e+01 1pscA c.1.9.3 29057 8abp 306 3.01e+01 8abp c.93.1.1 35647 1i0dA 332 3.01e+01 1pscA c.1.9.3 61487 1a79A 171 3.01e+01 1a79A c.52.2.1 33340 d.75.1.1 39739 1hzyA 332 3.01e+01 1pscA c.1.9.3 61468 1g84A 105 3.04e+01 1g84A b.1.1.2 60345 1bqhG 129 3.10e+01 1cd8 b.1.1.1 19715 1hilB 220 3.11e+01 1igtB b.1.1.1 19787 b.1.1.2 20897 1etb1 127 3.12e+01 1etb1 1g5gB 481 3.14e+01 f.12.1.1 65157 h.3.2.1 65158 1kqrA 179 3.20e+01 1a2yB 116 3.24e+01 1gc1H b.1.1.1 19927 1hleA 345 3.26e+01 1ovaA e.1.1.1 42618 1gzcA 239 3.31e+01 1jofA 365 3.35e+01 1gotB 340 3.35e+01 1tbgA b.69.4.1 27648 1cs0B 382 3.42e+01 1c3oB c.8.3.1 30740 c.23.16.1 31417 1f13A 731 3.47e+01 1f13A b.1.1.5 21877 b.1.5.1 22163 b.1.5.1 22164 d.3.1.4 37107 1d3cA 686 3.55e+01 1cxlA b.1.1.5 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 2sodB 152 3.61e+01 1mfmA b.1.8.1 22242 1qbiA 454 3.66e+01 1c9uA b.68.2.1 27619 1jssA 224 3.70e+01 1g6gA 127 3.76e+01 1g6gA b.26.1.2 23916 1bdyA 123 3.78e+01 1bdyA b.7.1.1 23190 1fo0B 112 3.78e+01 1kb5B b.1.1.1 20631 1al0G 175 3.79e+01 2bpa2 b.10.1.1 23275 1jjgA 102 3.90e+01 1spuB 727 3.93e+01 1oacA b.30.2.1 24399 d.17.2.1 38025 d.17.2.1 38026 d.82.1.1 40012 1c9uA 454 3.95e+01 1c9uA b.68.2.1 27623 1pamA 686 3.99e+01 1cxlA b.1.1.5 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740