# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-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.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 1hn6A 110 4.57e-11 g.61.1.1 76721 1sva1 361 2.82e-01 1vpsA 1is1A 185 5.70e-01 d.67.3.1 83704 1tocR 120 1.18e+00 1tocR g.8.1.2 44558 g.8.1.2 44559 1enwA 114 1.33e+00 1enwA a.5.4.1 16291 1ap6A 198 1.48e+00 1avmA a.2.11.1 15746 d.44.1.1 38705 1abmA 198 1.63e+00 1avmA 1n0nA 199 1.64e+00 a.2.11.1 79750 d.44.1.1 79751 1efvB 255 1.84e+00 1efvB c.26.2.3 31634 1pl4A 198 2.16e+00 a.2.11.1 -132 d.44.1.1 -9733 1efpB 252 2.61e+00 1efvB c.26.2.3 31636 1k4nA 192 2.68e+00 d.32.1.5 72059 1pguA 615 3.51e+00 b.69.4.1 88069 b.69.4.1 88070 1pyaA 81 3.57e+00 1pyaA d.155.1.1 42026 1g5gB 481 3.92e+00 f.12.1.1 65157 h.3.2.1 65158 1el6B 219 4.55e+00 1el6B d.182.1.1 42607 1qbeA 132 4.77e+00 1qbeA d.85.1.1 40138 1kl9A 182 4.93e+00 b.40.4.5 72681 1p7gA 222 4.98e+00 a.2.11.1 -108 d.44.1.1 -9742 1ek8A 185 5.80e+00 1ek8A d.67.3.1 59444 1jv2B 692 6.10e+00 b.1.15.1 67338 c.62.1.1 67339 d.200.1.1 67340 g.3.11.6 67341 g.3.11.6 67342 1el6A 219 6.40e+00 1el6B d.182.1.1 42606 1nmtA 392 6.85e+00 1nmtA d.108.1.2 40823 d.108.1.2 40824 1io1A 398 6.90e+00 1io1A e.32.1.1 62611 1k28A 584 8.40e+00 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 1idsA 207 8.64e+00 1avmA a.2.11.1 15722 d.44.1.1 38730 1dyr 206 8.87e+00 1aoeA c.71.1.1 34916 1b7yB 785 9.00e+00 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 1e6oH 219 9.47e+00 1igtB b.1.1.1 20495 b.1.1.2 21453 2hgf 97 9.60e+00 1bhtA g.10.1.1 44607 1m6pA 152 9.99e+00 1m6pA b.64.1.1 27519 1jpc 109 1.00e+01 1b2pA b.78.1.1 27986 1gmnA 183 1.04e+01 g.10.1.1 65315 g.14.1.1 65316 1kb0A 677 1.05e+01 a.3.1.6 68378 b.70.1.1 68379 1dwnA 127 1.06e+01 1dwnA d.85.1.1 40141 1bmlC 362 1.10e+01 1bmlC d.15.5.1 37729 d.15.5.1 37730 d.15.5.1 37731 1fmjA 351 1.18e+01 c.37.1.5 59879 1bhtA 176 1.19e+01 1bhtA g.10.1.1 44603 g.14.1.1 44663 1msc 129 1.22e+01 1msc d.85.1.1 40039 1jofA 365 1.23e+01 b.69.10.1 71775 1bynA 128 1.23e+01 1rsy b.7.1.2 23193 1nfiC 301 1.23e+01 b.1.18.1 21943 b.2.5.3 22456 1k32A 1045 1.25e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1o97C 264 1.26e+01 c.26.2.3 81232 1ep3B 262 1.29e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1apj 74 1.30e+01 1apj g.23.1.1 44899 1lcyA 325 1.34e+01 b.36.1.4 73834 b.47.1.1 73835 1theA 260 1.44e+01 1theB d.3.1.1 37056 1ky9B 448 1.49e+01 b.36.1.4 73200 b.36.1.4 73201 b.47.1.1 73202 1jnrB 150 1.54e+01 d.58.1.5 66969 1js8A 394 1.56e+01 a.86.1.1 67219 b.112.1.1 67220 1ep2B 261 1.59e+01 1ep2B b.43.4.2 25666 c.25.1.3 31556 1omiA 248 1.62e+01 a.4.5.4 87079 b.82.3.3 87080 2mcm 112 1.65e+01 2mcm b.1.7.1 22207 1a76 326 1.68e+01 1a76 a.60.7.1 18091 c.120.1.2 33361 1jb1A 205 1.69e+01 1jb1A c.91.1.2 62832 1rsy 152 1.74e+01 1rsy b.7.1.2 23192 1knvA 293 1.76e+01 c.52.1.7 68707 1gaxA 862 1.79e+01 1gaxA a.2.7.3 75842 a.27.1.1 75843 b.51.1.1 26893 c.26.1.1 31595 1kf6A 602 1.81e+01 a.7.3.1 72394 c.3.1.4 72395 d.168.1.1 72396 1csbB 205 1.81e+01 1theB 1epfA 191 1.84e+01 2ncm b.1.1.4 21694 b.1.1.4 21695 1theB 260 1.85e+01 1theB d.3.1.1 37057 1lf2A 331 1.86e+01 b.50.1.2 77914 1jf2A 195 2.00e+01 1ej3A a.39.1.5 62930 1jb0D 138 2.01e+01 1jb0D d.187.1.1 62823 1n27A 96 2.12e+01 b.34.9.2 -3585 1fc1A 224 2.14e+01 1igtB b.1.1.2 21520 b.1.1.2 21521 1qhlA 227 2.14e+01 1qhlA c.37.1.12 32382 1pkoA 139 2.15e+01 b.1.1.1 88147 1kv9A 668 2.22e+01 a.3.1.6 73056 b.70.1.1 73057 1n0wB 35 2.26e+01 j.97.1.1 79773 1fhoA 119 2.36e+01 1fhoA b.55.1.1 26982 1qubA 319 2.39e+01 1qubA g.18.1.1 44863 g.18.1.1 44864 g.18.1.1 44865 g.18.1.1 44866 g.18.1.1 44867 1mzbA 136 2.40e+01 unknown_sccs -266 1zmeC 70 2.49e+01 1zmeC g.38.1.1 45081 h.1.3.1 45514 1b0pA 1231 2.58e+01 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1dtoA 221 2.66e+01 1dtoA b.91.1.1 28405 1qqrA 138 2.71e+01 1bmlC d.15.5.1 37721 1o7fA 469 2.75e+01 a.4.5.31 81131 b.82.3.2 81132 b.82.3.2 81133 1l8rA 101 2.83e+01 a.6.1.4 73700 1hrnA 337 2.85e+01 1smrA b.50.1.2 26869 1cvjA 190 2.87e+01 1cvjB d.58.7.1 39191 d.58.7.1 39192 1viwB 198 2.87e+01 1led b.29.1.1 24170 1izlA 360 2.99e+01 i.5.1.1 76994 1a6jA 163 3.03e+01 1a6jA d.112.1.1 40915 1r44A 202 3.04e+01 1gmyA 261 3.04e+01 d.3.1.1 76236 1jeyB 565 3.12e+01 1jeqB unknown_sccs -4431 unknown_sccs -7995 1fu9A 36 3.14e+01 1fu9A g.37.1.2 45074 1apa 266 3.16e+01 1qi7A d.165.1.1 42205 1eiyB 785 3.19e+01 1pysB a.6.1.1 16305 a.6.1.1 16306 b.40.4.4 25314 d.58.13.1 39313 d.104.1.1 40782 d.138.1.1 41458 1iscA 192 3.19e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1dgwA 178 3.21e+01 1dgwA b.82.1.2 28090 1jy2O 56 3.24e+01 h.1.8.1 67441 1jy3O 56 3.24e+01 h.1.8.1 67447 2bbkH 355 3.27e+01 2bbkH b.69.2.1 27634 1el4A 195 3.31e+01 1ej3A a.39.1.5 59453 1bpoA 494 3.39e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1isaA 192 3.39e+01 1avmA a.2.11.1 15731 d.44.1.1 38724 1gg6B 131 3.41e+01 5ptp 1n6eA 1071 3.43e+01 b.36.1.3 80149 b.68.7.1 80150 b.69.9.1 80151 c.14.1.2 80152 1cojA 212 3.45e+01 1avmA a.2.11.1 15737 d.44.1.1 38734 1unnC 115 3.53e+01 unknown_sccs -10216 1ewjA 126 3.56e+01 1ecsA d.32.1.2 59526 1kcmA 270 3.62e+01 d.129.3.4 72300 1wad 112 3.70e+01 3cyr a.138.1.1 19658 1qh0A 295 3.71e+01 b.43.4.2 68891 c.25.1.1 68892 1ilk 151 3.72e+01 2ilk a.26.1.3 16886 1g8eA 116 3.73e+01 1g8eA a.145.1.1 60346 1ry6A 360 3.75e+01 c.37.1.9 -7111 1kkcA 221 3.76e+01 a.2.11.1 68660 d.44.1.1 68661 1nfiA 301 3.84e+01 1a3qA b.1.18.1 21942 b.2.5.3 22455 1jy3P 48 3.88e+01 h.1.8.1 67448 1msaA 109 3.90e+01 1b2pA b.78.1.1 27987 1bfi 112 3.94e+01 1qadA d.93.1.1 40499 1ry3A 64 3.94e+01 unknown_sccs -13301 1pysB 785 3.99e+01 1pysB a.6.1.1 16299 a.6.1.1 16300 b.40.4.4 25311 d.58.13.1 39310 d.104.1.1 40779 d.138.1.1 41455