# 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 1ihrA 76 7.48e-14 1ihrA d.212.1.2 62392 1lr0A 129 7.39e-06 d.212.1.1 74213 1f5mA 180 1.77e-01 1f5mB d.110.2.1 40895 1cm5A 759 1.91e-01 1cm5A c.7.1.1 30671 1h16A 759 2.08e-01 c.7.1.1 76462 1n8jA 186 3.75e-01 c.47.1.10 85401 1avyA 74 3.87e-01 1avyB h.1.17.1 45656 1iow 306 4.96e-01 1iow c.30.1.2 31713 d.142.1.1 41481 1ox3A 109 5.11e-01 h.1.17.1 -12938 1gqiA 708 5.45e-01 c.1.8.10 76279 d.92.2.2 76280 1qmvA 197 6.12e-01 1qq2A c.47.1.10 33066 1q0rA 298 6.28e-01 unknown_sccs -8330 1rh6A 55 7.51e-01 1orc 71 8.13e-01 1orc a.35.1.2 17054 1gt1A 159 1.09e+00 b.60.1.1 -4436 1hn2A 159 1.12e+00 b.60.1.1 65890 1ospO 257 1.16e+00 1ospO b.76.1.1 27971 1fjgJ 105 1.38e+00 1fjfJ d.58.15.1 39330 3cox 507 1.40e+00 1b8sA c.3.1.2 30332 d.16.1.1 37863 1obpA 159 1.48e+00 1obpA b.60.1.1 27092 1b6rA 355 1.53e+00 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1a2vA 655 1.54e+00 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1urrA 102 1.69e+00 1o1zA 234 1.79e+00 c.1.18.3 86555 5croA 66 1.91e+00 1orc a.35.1.2 17044 1kngA 156 2.18e+00 c.47.1.10 72777 1oe1A 336 2.46e+00 b.6.1.3 86891 b.6.1.3 86892 1ei5A 520 2.63e+00 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1pm6A 72 2.84e+00 a.6.1.7 -386 2trxA 108 3.26e+00 1thx c.47.1.1 32719 1rkuA 206 3.60e+00 unknown_sccs -6823 1dkzA 219 4.14e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1jj2L 194 4.24e+00 1ffkI d.12.1.2 63097 1bykA 255 5.50e+00 1bykA c.93.1.1 35706 1gp1A 198 5.70e+00 1gp1A c.47.1.10 33059 1svpA 161 5.79e+00 1svpA b.47.1.3 26384 1cc1L 498 5.80e+00 1h2rL e.18.1.1 43301 1fecA 490 5.81e+00 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1avmA 201 5.85e+00 1avmA a.2.11.1 15782 d.44.1.1 38745 1st9A 143 6.15e+00 c.47.1.10 -7503 1pj5A 830 6.26e+00 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1tuhA 156 6.27e+00 1bh9B 89 6.37e+00 1bh9B a.22.1.3 16485 1seiA 130 6.40e+00 1seiA d.140.1.1 41463 1r26A 125 6.71e+00 c.47.1.1 -7389 1js3A 486 6.87e+00 c.67.1.6 67215 1aqb 183 7.03e+00 1aqb b.60.1.1 27084 1n9lA 109 7.08e+00 d.110.3.6 85468 1pmmA 466 7.30e+00 c.67.1.6 -8159 1hbq 183 8.68e+00 1aqb b.60.1.1 27078 1sdjA 310 1.01e+01 d.21.1.2 -9420 d.21.1.2 -9421 1nt0A 286 1.01e+01 b.23.1.1 86143 b.23.1.1 86144 g.3.11.1 86145 1erzA 303 1.03e+01 1erzA d.160.1.2 59498 1qb5D 99 1.05e+01 b.40.2.1 88357 1nkiA 135 1.07e+01 d.32.1.2 -9544 1kt6A 183 1.09e+01 b.60.1.1 84466 1lqpA 135 1.11e+01 d.32.1.2 78151 1esiA 262 1.13e+01 1skf e.3.1.1 42682 1i50B 1224 1.14e+01 e.29.1.1 61755 1i2kA 269 1.21e+01 e.17.1.1 -11995 1tiiD 99 1.26e+01 1tiiD b.40.2.1 24965 1uz5A 402 1.26e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1nwzA 125 1.28e+01 d.110.3.1 86370 1uf5A 303 1.30e+01 3pyp 125 1.32e+01 3pyp d.110.3.1 40897 1dnlA 199 1.33e+01 1ci0A b.45.1.1 25753 1lkdA 297 1.38e+01 d.32.1.3 78059 d.32.1.3 78060 1n7eA 97 1.39e+01 b.36.1.1 -3745 1f0kA 364 1.39e+01 1f0kA c.87.1.2 35465 1ocvA 125 1.55e+01 d.17.4.3 86810 1dbtA 239 1.58e+01 1dbtA c.1.2.3 28539 1qe3A 489 1.63e+01 2bce c.69.1.1 34630 1udzA 182 1.66e+01 b.51.1.1 -4307 1uc2A 481 1.67e+01 unknown_sccs -11725 1mxgA 435 1.73e+01 b.71.1.1 85193 c.1.8.1 85194 1qo0D 196 1.74e+01 1qo0D c.23.1.3 31125 1n4kA 381 1.75e+01 unknown_sccs 79992 b.42.6.1 79993 1iloA 77 1.76e+01 c.47.1.1 66205 1ubkL 534 1.78e+01 e.18.1.1 88422 1qyaA 307 1.79e+01 1iwlA 182 1.88e+01 b.125.1.1 83757 1eluA 390 1.90e+01 1elqA c.67.1.3 34434 1gakA 141 1.93e+01 1gakA a.19.1.1 16415 1p5tA 127 1.93e+01 b.55.1.2 -4368 1lm8V 160 1.97e+01 b.3.3.1 74035 1fp3A 402 1.97e+01 1fp3A a.102.1.3 18842 1exqA 154 1.97e+01 1b9dA c.55.3.2 33646 1lngA 87 2.01e+01 d.201.1.1 74045 1bsmA 201 2.04e+01 1avmA a.2.11.1 15780 d.44.1.1 38743 1ehiA 377 2.05e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1elqA 390 2.06e+01 1elqA c.67.1.3 34436 1qauA 112 2.07e+01 1qauA b.36.1.1 24779 1v1hA 103 2.10e+01 1ggxA 223 2.13e+01 1ggxA d.22.1.1 38367 1b5pA 385 2.21e+01 c.67.1.1 -8133 1c25 161 2.21e+01 1c25 c.46.1.1 32698 1xgsA 295 2.27e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1f39A 101 2.27e+01 1umuA b.87.1.1 28386 1gxuA 91 2.29e+01 d.58.10.1 76378 1kbvA 327 2.31e+01 b.6.1.3 68395 b.6.1.3 68396 1lm6A 215 2.32e+01 d.167.1.1 84628 1h2rL 534 2.46e+01 1h2rL e.18.1.1 43298 1jd5A 124 2.46e+01 g.52.1.1 66544 1fzqA 181 2.46e+01 1hurA c.37.1.8 32060 1g6gA 127 2.47e+01 1g6gA b.26.1.2 23916 1vcbC 160 2.47e+01 1vcbC b.3.3.1 22535 3ladA 476 2.48e+01 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1oo0A 147 2.59e+01 d.232.1.1 87182 1v2yA 105 2.64e+01 d.15.1.1 -9148 1skoB 130 2.65e+01 1o4vA 183 2.67e+01 c.23.8.1 86628 1vc4A 254 2.70e+01 c.1.2.4 -5172 1pjcA 361 2.80e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 1e25A 282 2.92e+01 1e25A e.3.1.1 42731 1lvwA 295 2.92e+01 c.68.1.6 84723 4fgf 146 2.97e+01 1bfg b.42.1.1 25486 1lshB 319 2.97e+01 f.7.1.1 74245 1sgvA 316 2.98e+01 b.122.1.1 -5120 unknown_sccs -10148 1b71A 191 2.99e+01 1ryt a.25.1.1 16647 g.41.5.1 45246 1pru 56 3.05e+01 1pru a.35.1.5 17104 1a9xA 1058 3.07e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1thx 115 3.14e+01 1thx c.47.1.1 32732 1lssA 140 3.16e+01 c.2.1.9 74246 1odhA 174 3.19e+01 d.239.1.1 86850 1ri6A 343 3.21e+01 unknown_sccs -4621 1l6rA 227 3.23e+01 c.108.1.10 77768 1ecsA 126 3.24e+01 1ecsA d.32.1.2 59407 1mrg 263 3.40e+01 1mrj d.165.1.1 42183 1vi4A 174 3.55e+01 c.8.7.1 -6073 1bfg 146 3.58e+01 1bfg b.42.1.1 25485 1g291 372 3.61e+01 1g291 1l4iA 206 3.61e+01 b.1.11.1 73564 b.7.2.1 73565 1eqjA 511 3.66e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1k5nA 276 3.67e+01 b.1.1.2 77266 d.19.1.1 77267 1vhsA 175 3.69e+01 d.108.1.1 -10794 1tif 78 3.72e+01 1tif d.15.8.1 37836 1q98A 165 3.85e+01 c.47.1.10 -7499 1qksA 567 3.87e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 1h7zA 194 3.88e+01 1qhvA b.21.1.1 60733 1ne9A 335 3.90e+01 d.108.1.4 -10805 d.108.1.4 -10806 2pii 112 3.91e+01 2pii d.58.5.1 39071 1a79A 171 3.92e+01 1a79A c.52.2.1 33340 d.75.1.1 39739 1o98A 511 3.94e+01 c.105.1.1 86684 c.76.1.3 86685 1dp4A 435 3.95e+01 1dp4A c.93.1.1 35710 1nif 340 3.98e+01 1nif b.6.1.3 23048 b.6.1.3 23049 1lkoA 191 3.99e+01 a.25.1.1 78063 g.41.5.1 78064