# List of top-scoring protein chains for t04-100-30-bys 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 1.41e-19 g.61.1.1 76721 1g5aA 628 1.71e-01 b.71.1.1 65152 c.1.8.1 65153 1tocR 120 2.24e-01 1tocR g.8.1.2 44558 g.8.1.2 44559 1ndh 272 1.37e+00 1ndh b.43.4.2 25662 c.25.1.1 31552 1jb7B 260 2.26e+00 1otcB b.40.4.3 62839 1ep3B 262 2.29e+00 1ep2B b.43.4.2 25664 c.25.1.3 31554 2hgf 97 2.73e+00 1bhtA g.10.1.1 44607 1r5rA 119 2.75e+00 a.39.2.1 -893 1sxjE 354 3.56e+00 1oj6A 151 3.93e+00 a.1.1.2 -85 1a6o 332 4.09e+00 1a6o 1b6g 310 4.18e+00 1b6g c.69.1.8 34661 1mhnA 59 4.37e+00 b.34.9.1 84964 1p63A 144 4.68e+00 b.42.1.1 -4002 2eng 210 4.92e+00 2eng b.52.1.1 26895 1ig8A 486 5.70e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 1b3tA 147 6.21e+00 1b3tA d.58.8.1 39228 1bhtA 176 6.29e+00 1bhtA g.10.1.1 44603 g.14.1.1 44663 1om1A 332 6.40e+00 d.144.1.7 -11318 1bkjA 240 6.40e+00 1bkjA d.90.1.1 40243 1poc 134 6.75e+00 1poc a.133.1.1 19513 1v8gA 329 6.81e+00 a.46.2.1 -953 c.27.1.1 -6644 2knt 58 6.88e+00 1bpi g.8.1.1 44537 1kthA 58 6.91e+00 g.8.1.1 68863 1ede 310 7.00e+00 1b6g c.69.1.8 34662 1kf6D 119 7.04e+00 f.21.2.2 72400 1rypJ 204 7.44e+00 d.153.1.4 41878 1i7pA 274 7.55e+00 b.43.4.2 66048 c.25.1.1 66049 1m2rA 327 8.25e+00 d.144.1.7 84760 1kxoA 184 8.35e+00 b.60.1.1 84475 1efnB 152 8.64e+00 1efnB d.102.1.1 40699 1te5A 257 9.41e+00 5ptp 223 9.78e+00 5ptp b.47.1.2 25831 1a4sA 503 1.10e+01 1bpwA c.82.1.1 35361 1gyfA 62 1.11e+01 1gyfA d.76.1.1 39749 1n9bA 265 1.12e+01 e.3.1.1 85463 1e0wA 313 1.22e+01 1taxA c.1.8.3 59150 1vhiA 142 1.29e+01 1b3tA d.58.8.1 39230 1iybA 208 1.31e+01 d.124.1.1 -10977 4ptp 223 1.40e+01 1kkeA 210 1.53e+01 b.21.1.2 68669 b.83.1.2 68670 1k9jA 139 1.56e+01 d.169.1.1 68353 2cb5A 453 1.62e+01 3gcb d.3.1.1 37035 1a49A 530 1.72e+01 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1e3mA 800 1.75e+01 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 2cthA 107 1.79e+01 3cyr a.138.1.1 19652 2pspA 106 1.84e+01 2pspA g.16.1.1 44730 g.16.1.1 44731 1lkdA 297 1.89e+01 d.32.1.3 78059 d.32.1.3 78060 1fxoA 293 1.96e+01 1g0rA c.68.1.6 34524 1j0pA 108 1.97e+01 a.138.1.1 -2031 1iqqA 200 2.06e+01 d.124.1.1 66274 1nu7D 282 2.08e+01 unknown_sccs -433 unknown_sccs -434 1smd 496 2.18e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1g6aA 271 2.38e+01 1btl e.3.1.1 42704 1h7dA 49 2.42e+01 j.88.1.1 65701 1uekA 275 2.44e+01 d.14.1.5 88483 d.58.26.5 88484 1fmb 104 2.45e+01 1fmb b.50.1.1 26777 1iq4A 179 2.46e+01 1iq4A d.77.1.1 62641 1ir3A 306 2.46e+01 1fmk d.144.1.7 41702 1t3nA 388 2.56e+01 1hcb 260 2.63e+01 2cba b.74.1.1 27814 1btl 263 2.86e+01 1btl e.3.1.1 42691 1clc 639 2.88e+01 1clc a.102.1.2 18835 b.1.18.2 21872 2afgA 140 2.89e+01 1bfg b.42.1.1 25514 1agi 125 2.93e+01 7rsa d.5.1.1 37303 1isiA 265 2.98e+01 e.4.1.1 71394 1kb9A 431 3.01e+01 d.185.1.1 77311 d.185.1.1 77312 1m6yA 301 3.02e+01 a.60.13.1 78716 c.66.1.23 78717 1ut0A 190 3.02e+01 1nxcA 478 3.08e+01 a.102.2.1 -1333 1od8A 313 3.09e+01 c.1.8.3 86838 1qd6C 240 3.09e+01 1qd5A 1p65A 73 3.16e+01 unknown_sccs -10331 1lwjA 441 3.21e+01 b.71.1.1 74303 c.1.8.1 74304 7aatA 401 3.29e+01 1ajsA c.67.1.1 34250 1ad2 228 3.30e+01 1ad2 e.24.1.1 43353 1h5qA 265 3.31e+01 1cydA c.2.1.2 60643 1nw1A 429 3.32e+01 d.144.1.8 86286 1avpA 204 3.33e+01 1avpA d.3.1.7 37132 1iq8A 582 3.41e+01 b.122.1.1 83074 c.1.20.1 71270 d.17.6.1 83075 1seiA 130 3.44e+01 1seiA d.140.1.1 41463 1jyoA 130 3.45e+01 d.198.1.1 67483 1nstA 325 3.51e+01 1nstA c.37.1.5 31951 1a48 306 3.53e+01 1a48 d.143.1.1 41590 1el5A 389 3.59e+01 1b3mA c.3.1.2 30369 d.16.1.3 37937 1jae 471 3.68e+01 1smd b.71.1.1 27773 c.1.8.1 28760 1sn4A 64 3.72e+01 1aho g.3.7.1 44136 1vdwA 254 3.72e+01 e.7.1.1 -11868 1mqeA 207 3.91e+01 d.113.1.1 -10884 1o04A 500 3.98e+01 c.82.1.1 86508