# List of top-scoring protein chains for T0230.t2k-w0.5 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 1nrzA 164 1.97e-01 c.38.1.1 86131 1ads 315 7.41e-01 1frb c.1.7.1 28671 2acu 315 7.41e-01 1frb c.1.7.1 28676 1el3A 316 7.42e-01 1frb c.1.7.1 28672 1az1 315 7.43e-01 1frb c.1.7.1 28677 1us0A 316 7.45e-01 c.1.7.1 -5233 1abn 315 7.47e-01 1frb c.1.7.1 28683 1tib 269 1.69e+00 3tgl c.69.1.17 34738 1nhoA 85 1.75e+00 c.47.1.1 -7408 1gt6A 269 1.80e+00 c.69.1.17 76342 1gnlA 544 2.12e+00 e.26.1.1 70287 1d3gA 367 2.18e+00 1d3gA c.1.4.1 28600 1cv8 174 2.26e+00 1cv8 d.3.1.1 37089 1uumA 372 2.46e+00 c.1.4.1 -5193 1shwB 181 2.49e+00 1kgyA 181 2.50e+00 b.18.1.4 72449 1nukA 183 2.54e+00 1nukA b.18.1.4 23721 1a8l 226 2.60e+00 1a8l c.47.1.2 32777 c.47.1.2 32778 1j08A 226 2.63e+00 c.47.1.2 83855 c.47.1.2 83856 2ayqA 366 3.70e+00 1cnzA c.77.1.1 35057 1cpzA 68 3.89e+00 1aw0 d.58.17.1 39351 1h8mA 140 3.99e+00 1h8mA d.110.4.1 60782 1lehA 364 4.68e+00 1bw9A c.2.1.7 30268 c.58.1.1 33916 1deg 142 4.72e+00 1cll a.39.1.5 17280 1opzA 76 4.74e+00 d.58.17.1 -10069 1jhb 106 5.15e+00 1kte c.47.1.1 32772 3rpbA 140 5.41e+00 1rsy b.7.1.2 23199 1f82A 424 5.87e+00 1f82A d.92.1.7 40307 1f83A 425 5.88e+00 1f82A d.92.1.7 40306 1osdA 72 6.28e+00 1jkgA 140 6.79e+00 d.17.4.2 66795 1iy9A 275 6.91e+00 c.66.1.17 76943 1kte 105 7.09e+00 1kte c.47.1.1 32771 1rro 108 9.44e+00 1a75A a.39.1.4 17195 1ukgA 252 1.01e+01 b.29.1.1 -3390 1r26A 125 1.02e+01 c.47.1.1 -7389 1iclA 27 1.03e+01 k.26.1.1 62268 1r53A 382 1.08e+01 unknown_sccs -11177 1iyrA 111 1.15e+01 a.164.1.1 76973 1fmcA 255 1.20e+01 1cydA c.2.1.2 29856 1egzA 291 1.21e+01 7a3hA c.1.8.3 28828 1uvjA 664 1.30e+01 e.8.1.6 -11964 1pa4A 116 1.34e+01 d.52.7.1 -9780 1dptA 117 1.40e+01 1dptA d.80.1.3 39862 1qxrA 189 1.41e+01 b.82.1.7 -4834 1n62C 288 1.42e+01 d.87.2.1 80094 d.145.1.3 80095 1amf 233 1.43e+01 1wod c.94.1.1 35833 1h2tC 723 1.45e+01 unknown_sccs 76580 unknown_sccs 76581 unknown_sccs 76582 1ic9A 27 1.59e+01 k.26.1.1 62261 1udkA 51 1.68e+01 g.3.14.1 -12520 1s1hC 192 1.72e+01 1obvA 169 1.78e+01 c.23.5.1 86782 1rcf 169 1.78e+01 1rcf c.23.5.1 31170 1qheA 168 1.79e+01 1rcf c.23.5.1 31177 1dx9A 169 1.87e+01 1rcf c.23.5.1 31171 1danT 80 1.92e+01 1boy b.1.2.1 21953 1s1iT 83 2.00e+01 1agqA 135 2.01e+01 1agqA g.17.1.2 44789 1k38A 254 2.02e+01 e.3.1.1 84303 1sw8A 79 2.06e+01 a.39.1.5 -841 1durA 55 2.07e+01 2fdn d.58.1.1 38943 1khyA 148 2.08e+01 a.174.1.1 77410 1n52A 790 2.09e+01 unknown_sccs 79999 unknown_sccs 80000 unknown_sccs 80001 1h2vC 771 2.11e+01 unknown_sccs 76592 unknown_sccs 76593 unknown_sccs 76594 1h6kA 757 2.13e+01 unknown_sccs 60675 unknown_sccs 60676 unknown_sccs 60677 1qrhA 261 2.15e+01 1ckqA c.52.1.1 33232 1qpsA 261 2.16e+01 1ckqA c.52.1.1 33234 1qriA 261 2.16e+01 1ckqA c.52.1.1 33233 1epwA 1290 2.19e+01 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1qhbA 596 2.36e+01 1qhbA a.111.1.2 19055 1oboA 169 2.39e+01 c.23.5.1 86776 1pnsE 150 2.40e+01 i.1.1.1 88172 1cl8A 276 2.43e+01 1ckqA c.52.1.1 33230 1v6gA 81 2.43e+01 1dun 134 2.46e+01 1dun b.85.4.1 28371 1n32E 161 2.47e+01 d.14.1.1 79873 d.50.1.2 79874 1hh2P 344 2.48e+01 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1fjgE 162 2.48e+01 1pkp d.14.1.1 37553 d.50.1.2 38789 1flgA 582 2.49e+01 4aahA b.70.1.1 27682 1l2fA 369 2.52e+01 b.40.4.5 -3933 d.52.3.1 -9777 d.52.3.1 -9778 d.202.1.1 -9816 1nnwA 252 2.56e+01 d.159.1.5 80674 1sr3A 136 2.62e+01 b.40.9.1 -3894 1trqA 104 2.63e+01 9rnt d.1.1.4 36127 1bxm 99 2.63e+01 1bxm a.134.1.1 19618 1trpA 104 2.63e+01 9rnt d.1.1.4 36134 1beo 98 2.64e+01 1bxm a.134.1.1 19619 1lriA 98 2.65e+01 a.134.1.1 74223 1i36A 264 2.68e+01 a.100.1.8 71108 c.2.1.6 71109 1ebdA 455 2.69e+01 1lvl c.3.1.5 30577 c.3.1.5 30578 d.87.1.1 40210 1brmA 367 2.70e+01 1brmA c.2.1.3 30030 d.81.1.1 39945 1f00I 282 2.78e+01 1f00I b.1.14.1 22368 b.1.14.1 22369 d.169.1.3 42439 1q08A 99 2.79e+01 a.6.1.3 -381 1ljpA 98 2.81e+01 a.134.1.1 73942 1ahr 146 2.90e+01 1cll a.39.1.5 17287 1afi 72 2.91e+01 1aw0 d.58.17.1 39339 1p6tA 151 2.97e+01 d.58.17.1 -10067 d.58.17.1 -10068 1ge9A 184 2.98e+01 1dd5A d.67.3.1 60463 1mxiA 160 3.01e+01 c.116.1.1 79646 1a8p 258 3.12e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1pg7H 217 3.15e+01 b.1.1.1 -2307 b.1.1.2 -2445 1mxeA 148 3.26e+01 a.39.1.5 79644 1k93D 144 3.26e+01 a.39.1.5 68330 1cdmA 144 3.27e+01 1cll a.39.1.5 17270 1oojA 149 3.28e+01 a.39.1.5 87198 1f6yA 262 3.32e+01 1f6yA c.1.21.2 29673 1cdlA 147 3.32e+01 1cll a.39.1.5 17272 1g4yR 148 3.32e+01 1cll a.39.1.5 60252 1prwA 149 3.33e+01 a.39.1.5 -842 1iq5A 149 3.33e+01 a.39.1.5 62643 1fiwA 290 3.35e+01 5ptp 3cln 148 3.37e+01 1cll a.39.1.5 17286 2birA 104 3.40e+01 9rnt d.1.1.4 36133 1sjdA 368 3.58e+01 1g55A 343 3.62e+01 1g55A c.66.1.26 34247 1rsy 152 3.67e+01 1rsy b.7.1.2 23192 1up8A 598 3.68e+01 a.111.1.2 -1480 1aw0 72 3.70e+01 1aw0 d.58.17.1 39342 1g8jB 133 3.80e+01 1g8jB b.33.1.1 24439 1b7yA 350 3.81e+01 1pysA d.104.1.1 40776 1rffA 485 3.86e+01 d.136.1.3 -11120 d.136.1.3 -11121 1g8kB 133 3.89e+01 1g8jB b.33.1.1 24435