# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 8.30e-12 1ihrA d.212.1.2 62392 1lr0A 129 1.56e-05 d.212.1.1 74213 1f5mA 180 9.44e-01 1f5mB d.110.2.1 40895 1a2vA 655 9.63e-01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1iow 306 1.19e+00 1iow c.30.1.2 31713 d.142.1.1 41481 1dkzA 219 1.68e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1esiA 262 2.87e+00 1skf e.3.1.1 42682 1gt1A 159 3.09e+00 b.60.1.1 -4436 1hn2A 159 3.27e+00 b.60.1.1 65890 1obpA 159 3.34e+00 1obpA b.60.1.1 27092 1orc 71 3.40e+00 1orc a.35.1.2 17054 1v3eA 431 3.58e+00 b.68.1.1 -4584 1oyeA 1049 5.64e+00 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1v2yA 105 5.67e+00 d.15.1.1 -9148 1tuhA 156 6.07e+00 1fjgJ 105 6.47e+00 1fjfJ d.58.15.1 39330 1qmvA 197 6.77e+00 1qq2A c.47.1.10 33066 1qe3A 489 6.94e+00 2bce c.69.1.1 34630 1q48A 134 7.27e+00 unknown_sccs -9776 1nxiA 132 7.61e+00 d.58.47.1 86381 1q0rA 298 7.71e+00 unknown_sccs -8330 1h16A 759 8.85e+00 c.7.1.1 76462 1cm5A 759 1.10e+01 1cm5A c.7.1.1 30671 1e25A 282 1.12e+01 1e25A e.3.1.1 42731 1h0pA 182 1.16e+01 b.62.1.1 76450 1xgsA 295 1.32e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1olrA 224 1.34e+01 b.29.1.11 -3489 1fecA 490 1.44e+01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1aisA 182 1.48e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 2pii 112 1.50e+01 2pii d.58.5.1 39071 1b6rA 355 1.59e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1iloA 77 1.69e+01 c.47.1.1 66205 1avmA 201 1.90e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 1us8A 147 1.93e+01 c.37.1.12 -7194 1lm8V 160 1.97e+01 b.3.3.1 74035 1mrg 263 1.98e+01 1mrj d.165.1.1 42183 1bsmA 201 1.99e+01 1avmA a.2.11.1 15780 d.44.1.1 38743 1r26A 125 2.04e+01 c.47.1.1 -7389 1pj5A 830 2.04e+01 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1dywA 173 2.10e+01 2cpl b.62.1.1 27505 1i4wA 353 2.24e+01 c.66.1.24 66028 5croA 66 2.25e+01 1orc a.35.1.2 17044 1j5yA 187 2.29e+01 a.4.5.1 71592 d.94.2.1 71593 1q47A 495 2.33e+01 1o1zA 234 2.36e+01 c.1.18.3 86555 1quqB 121 2.41e+01 1quqB b.40.4.3 25305 1bu8A 452 2.74e+01 1gpl b.12.1.2 23647 c.69.1.19 34795 1q18A 332 2.79e+01 1rh6A 55 2.82e+01 1f60B 94 2.83e+01 1b64 d.58.12.1 39307 1mp9A 198 3.02e+01 a.74.1.2 -1127 a.74.1.2 -1128 1crzA 403 3.07e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 1ockA 412 3.18e+01 c.117.1.1 86802 1i9zA 347 3.25e+01 1i9yA d.151.1.2 62102 1iazA 179 3.26e+01 1iazA b.97.1.1 62131 1p4kA 295 3.31e+01 d.153.1.5 87772 1n4kA 381 3.33e+01 unknown_sccs 79992 b.42.6.1 79993 1iwlA 182 3.34e+01 b.125.1.1 83757 1elqA 390 3.37e+01 1elqA c.67.1.3 34436 1dnlA 199 3.41e+01 1ci0A b.45.1.1 25753 1gpl 432 3.53e+01 1gpl b.12.1.2 23645 c.69.1.19 34793 1gsoA 431 3.57e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1ghhA 81 3.60e+01 1ghhA d.57.1.1 38940 1cqyA 99 3.61e+01 1b9zA b.3.1.1 22527 1s8fA 177 3.61e+01 1vns 609 3.70e+01 1vns a.111.1.3 19061 1ei5A 520 3.72e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 3pcgM 238 3.74e+01 3pchM b.3.6.1 22742 1ggxA 223 3.75e+01 1ggxA d.22.1.1 38367 1kngA 156 3.94e+01 c.47.1.10 72777