# List of top-scoring protein chains for t04-100-30-alpha 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 1pl4A 198 4.03e-02 a.2.11.1 -132 d.44.1.1 -9733 1n0nA 199 5.25e-02 a.2.11.1 79750 d.44.1.1 79751 1ap6A 198 5.26e-02 1avmA a.2.11.1 15746 d.44.1.1 38705 1vmoA 163 2.00e-01 1vmoA b.77.1.1 27974 1psdA 409 8.11e-01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1tocR 120 1.41e+00 1tocR g.8.1.2 44558 g.8.1.2 44559 1v33A 366 2.26e+00 unknown_sccs -11384 1nb8A 353 3.38e+00 d.3.1.9 80385 2ccyA 128 3.51e+00 2ccyA a.24.3.2 16544 1mjnA 179 4.31e+00 c.62.1.1 79210 1c44A 123 4.50e+00 1qndA d.106.1.1 40795 1mk0A 97 4.55e+00 d.226.1.1 79216 1qw9A 502 4.73e+00 b.71.1.2 -4677 c.1.8.3 -5348 1lfaA 187 5.11e+00 1ido c.62.1.1 34122 1rypD 241 7.60e+00 1rypD d.153.1.4 41935 1h10A 125 7.90e+00 b.55.1.1 83446 1idsA 207 8.49e+00 1avmA a.2.11.1 15722 d.44.1.1 38730 1b06A 210 9.50e+00 1avmA a.2.11.1 15740 d.44.1.1 38737 1ixkA 315 9.88e+00 unknown_sccs -8099 1qz8A 113 1.04e+01 unknown_sccs -4264 1dik 874 1.07e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1ud0A 113 1.10e+01 unknown_sccs -450 1k1fA 72 1.22e+01 a.147.1.1 68007 1oafA 261 1.32e+01 a.93.1.1 86734 1h09A 338 1.39e+01 b.109.1.1 83420 c.1.8.8 83421 1ei7A 158 1.39e+01 1rmvA a.24.5.1 16584 1rypC 244 1.42e+01 1rypC d.153.1.4 41934 1nlnA 204 1.42e+01 d.3.1.7 -8897 1p7gA 222 1.45e+01 a.2.11.1 -108 d.44.1.1 -9742 1avpA 204 1.49e+01 1avpA d.3.1.7 37132 1g7sA 594 1.59e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1nbfA 353 1.60e+01 d.3.1.9 80387 1ej0A 180 1.63e+01 1ej0A c.66.1.2 34179 1g8lA 411 1.64e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1n7zA 334 1.68e+01 b.127.1.1 85380 1idpA 172 1.70e+01 d.17.4.1 83685 1eu1A 780 1.73e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1ne6A 283 1.77e+01 b.82.3.2 -4918 b.82.3.2 -4919 1pwxA 254 1.84e+01 c.2.1.2 -5858 1g71A 347 1.85e+01 1g71A unknown_sccs 43268 1gy8A 397 1.93e+01 c.2.1.2 83376 1jwiB 125 1.93e+01 d.169.1.1 67384 1hm9A 468 1.97e+01 b.81.1.4 65866 c.68.1.5 65867 1kkcA 221 1.99e+01 a.2.11.1 68660 d.44.1.1 68661 1mo7A 213 2.04e+01 d.220.1.1 85028 1m48A 133 2.10e+01 a.26.1.2 74443 1skz 119 2.22e+01 1skz g.3.15.1 44366 g.3.15.1 44367 1bt3A 345 2.22e+01 1bt3A a.86.1.2 18507 1r4vA 171 2.22e+01 unknown_sccs -1221 3ladA 476 2.30e+01 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1bkjA 240 2.36e+01 1bkjA d.90.1.1 40243 1c4kA 730 2.39e+01 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 1bbpA 173 2.49e+01 1bbpA b.60.1.1 27147 1jb7B 260 2.55e+01 1otcB b.40.4.3 62839 1gxqA 106 2.61e+01 a.4.6.1 70721 1gotB 340 2.69e+01 1tbgA b.69.4.1 27648 1g97A 459 2.73e+01 1fwyA b.81.1.4 60394 c.68.1.5 60395 1igqA 62 2.81e+01 b.34.1.3 66130 1iscA 192 2.82e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1uf2C 421 2.86e+01 unknown_sccs -1522 b.19.1.1 -3155 1f6bA 198 2.90e+01 c.37.1.8 64986 1jdc 429 2.96e+01 1jdc b.71.1.1 27789 c.1.8.1 28776 1std 172 3.02e+01 3stdA d.17.4.1 38089 1o5uA 101 3.12e+01 b.82.1.8 -4845 1fl2A 310 3.16e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 1eaiC 61 3.17e+01 1eaiC g.22.1.1 44894 1q87A 221 3.19e+01 unknown_sccs -12028 1gv3A 248 3.20e+01 a.2.11.1 70585 d.44.1.1 70586 1viuA 203 3.29e+01 d.113.1.1 -10889 1sly 618 3.37e+01 1qsaA a.118.5.1 19184 d.2.1.6 36990 1n7hA 381 3.41e+01 c.2.1.2 80250 1ghqB 134 3.42e+01 1ghqB g.18.1.1 60522 g.18.1.1 60523 1i1wA 303 3.44e+01 c.1.8.3 76732 1nlbH 218 3.46e+01 b.1.1.1 80621 b.1.1.2 80622 2hgf 97 3.52e+01 1bhtA g.10.1.1 44607 1g72B 69 3.54e+01 4aahB a.137.2.1 19627 1kblA 873 3.54e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 7aatA 401 3.58e+01 1ajsA c.67.1.1 34250 1bi5A 389 3.70e+01 1bi5A c.95.1.2 35985 c.95.1.2 35986 1josA 128 3.76e+01 d.52.7.1 84191 3stdA 165 3.82e+01 3stdA d.17.4.1 38073 1j3gA 187 3.84e+01 d.118.1.1 77075 1i88A 389 3.86e+01 c.95.1.2 66070 c.95.1.2 66071 1ly2A 130 3.99e+01 g.18.1.1 74335 g.18.1.1 74336