# List of top-scoring protein chains for t04-100-30-str2 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 1ap6A 198 1.05e-02 1avmA a.2.11.1 15746 d.44.1.1 38705 1n0nA 199 1.32e-02 a.2.11.1 79750 d.44.1.1 79751 1pl4A 198 1.37e-02 a.2.11.1 -132 d.44.1.1 -9733 1tocR 120 1.96e-02 1tocR g.8.1.2 44558 g.8.1.2 44559 1grj 158 2.54e-01 1grj a.2.1.1 15691 d.26.1.2 38433 1vmoA 163 4.14e-01 1vmoA b.77.1.1 27974 1qe3A 489 8.07e-01 2bce c.69.1.1 34630 1bbzA 58 8.79e-01 1bbzA b.34.2.1 24477 1aboA 62 9.31e-01 1bbzA b.34.2.1 24474 1ne6A 283 1.54e+00 b.82.3.2 -4918 b.82.3.2 -4919 1dkuA 317 2.26e+00 1dkuA c.61.1.2 34118 c.61.1.2 34119 1jb7B 260 2.33e+00 1otcB b.40.4.3 62839 1f5mA 180 3.58e+00 1f5mB d.110.2.1 40895 1idsA 207 3.88e+00 1avmA a.2.11.1 15722 d.44.1.1 38730 1aohA 147 4.03e+00 1aohA b.2.2.2 22401 1kkcA 221 4.10e+00 a.2.11.1 68660 d.44.1.1 68661 1igqA 62 4.30e+00 b.34.1.3 66130 1rypC 244 6.16e+00 1rypC d.153.1.4 41934 1v33A 366 7.08e+00 unknown_sccs -11384 1gps 47 7.11e+00 1gpt g.3.7.5 44176 1pwxA 254 7.75e+00 c.2.1.2 -5858 153l 185 8.20e+00 153l d.2.1.5 36984 2ccyA 128 8.47e+00 2ccyA a.24.3.2 16544 1rypD 241 8.72e+00 1rypD d.153.1.4 41935 1q87A 221 8.89e+00 unknown_sccs -12028 1mjnA 179 9.00e+00 c.62.1.1 79210 1fr2B 134 9.02e+00 d.4.1.1 83257 1noa 113 9.04e+00 2mcm b.1.7.1 22208 1nm8A 616 9.67e+00 c.43.1.3 85872 c.43.1.3 85873 1dgfA 497 9.86e+00 1cf9A e.5.1.1 42782 1lfaA 187 1.01e+01 1ido c.62.1.1 34122 1gbs 185 1.01e+01 153l d.2.1.5 36986 1g72B 69 1.06e+01 4aahB a.137.2.1 19627 2hgf 97 1.09e+01 1bhtA g.10.1.1 44607 1qwlA 505 1.10e+01 e.5.1.1 -11823 1behA 187 1.13e+01 1a44 b.17.1.1 23700 1p7gA 222 1.15e+01 a.2.11.1 -108 d.44.1.1 -9742 1b06A 210 1.15e+01 1avmA a.2.11.1 15740 d.44.1.1 38737 1qw9A 502 1.17e+01 b.71.1.2 -4677 c.1.8.3 -5348 1k3sA 113 1.21e+01 d.198.1.1 68120 1g13A 162 1.27e+01 1g13A b.95.1.1 60194 1g7sA 594 1.31e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1ovlA 271 1.31e+01 a.123.1.1 87455 1pu5A 164 1.39e+01 1mngA 203 1.46e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1iscA 192 1.50e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1uroA 367 1.59e+01 1uroA c.1.22.1 29675 1avpA 204 1.61e+01 1avpA d.3.1.7 37132 1qhlA 227 1.65e+01 1qhlA c.37.1.12 32382 1r3sA 367 1.69e+01 c.1.22.1 -5648 1gv3A 248 1.85e+01 a.2.11.1 70585 d.44.1.1 70586 1gxqA 106 1.87e+01 a.4.6.1 70721 1gcb 454 1.88e+01 3gcb d.3.1.1 37034 1d8bA 81 1.92e+01 1d8bA a.60.8.1 18094 3gcb 470 1.94e+01 3gcb d.3.1.1 37032 1o5uA 101 1.97e+01 b.82.1.8 -4845 1qo3C 137 2.01e+01 1qo3C d.169.1.1 42350 1oafA 261 2.03e+01 a.93.1.1 86734 1emvB 134 2.04e+01 1bxiB d.4.1.1 37135 1ig8A 486 2.05e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1p0iA 529 2.09e+01 c.69.1.1 -8291 1qksA 567 2.20e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 1rypK 198 2.29e+01 d.153.1.4 41879 1kf6D 119 2.34e+01 f.21.2.2 72400 1aop 497 2.39e+01 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1eu1A 780 2.42e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1ep3B 262 2.61e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1vf6C 72 2.64e+01 unknown_sccs -1180 1ixkA 315 2.71e+01 unknown_sccs -8099 1oqvA 192 2.71e+01 d.24.1.2 87320 1nlnA 204 2.77e+01 d.3.1.7 -8897 1f6bA 198 2.81e+01 c.37.1.8 64986 1r9cA 139 2.86e+01 d.32.1.2 -9557 1ea5A 537 2.93e+01 2bce c.69.1.1 34592 1h4vB 421 2.94e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1oxwA 373 2.98e+01 c.19.1.3 87539 1j0hA 588 3.05e+01 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 1mm4A 170 3.06e+01 f.4.1.2 79294 1eguA 731 3.08e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.5.2 24423 1ej8A 140 3.08e+01 1qupA b.1.8.1 22300 1ej0A 180 3.27e+01 1ej0A c.66.1.2 34179 1k8tA 510 3.32e+01 e.41.1.1 68316 1lm4A 194 3.44e+01 d.167.1.1 84626 1n8fA 350 3.45e+01 c.1.10.4 85397 1ut0A 190 3.49e+01 1k0dA 260 3.51e+01 a.45.1.1 67930 c.47.1.5 67931 1jyhA 157 3.56e+01 d.60.1.3 71956 1pvmA 184 3.58e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1td5A 202 3.69e+01 1m7sA 484 3.72e+01 e.5.1.1 74574 1sg1X 161 3.77e+01 1bkjA 240 3.80e+01 1bkjA d.90.1.1 40243 1vcbA 118 3.94e+01 1vcbA d.15.1.1 37603