# List of top-scoring protein chains for T0352.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 1w36C 1122 3.47e+00 1ad3A 452 4.17e+00 1ad3A c.82.1.1 35335 1myo 118 7.69e+00 2myo d.211.1.1 19174 1m6jA 261 8.80e+00 c.1.1.1 78693 1eptA 43 1.41e+01 5ptp b.47.1.2 25966 1tqyB 415 1.63e+01 c.95.1.1,c.95.1.1 107247,107248 1jb0I 38 1.88e+01 1jb0I f.23.17.1 62826 1bj8 109 2.07e+01 1bquA b.1.2.1 22070 2etrA 415 2.38e+01 1ewfA 456 2.66e+01 1bp1 d.83.1.1,d.83.1.1 40024,40025 1bp1 456 2.66e+01 1bp1 d.83.1.1,d.83.1.1 40026,40027 1wkvA 389 2.73e+01 1w7lA 422 2.77e+01 c.67.1.1 109226 2fmcA 82 2.90e+01 1yzxA 226 2.99e+01 2acxA 576 3.05e+01 1trnA 224 3.17e+01 5ptp b.47.1.2 26000 1jk2A 90 3.26e+01 g.37.1.1,g.37.1.1,g.37.1.1 66787,66788,66789 1a1hA 90 3.29e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45004,45005,45006 1a1iA 90 3.30e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 44998,44999,45000 1p47A 87 3.31e+01 g.37.1.1,g.37.1.1,g.37.1.1 87758,87759,87760 1zaaC 87 3.36e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45013,45014,45015 1aayA 90 3.42e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45001,45002,45003 2f2uA 402 3.44e+01 1pvhA 201 3.57e+01 b.1.2.1,b.1.2.1 95165,95166 1a1gA 90 3.61e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45010,45011,45012 1llmC 88 3.67e+01 g.37.1.1,g.37.1.1 91059,91060 2mev2 256 3.67e+01 1aym2 2fpoA 202 3.89e+01 1h4wA 224 3.91e+01 b.47.1.2 65622 1trrA 107 3.97e+01 1jhgA a.4.12.1 19017 1vqyA 116 4.05e+01 2cpyA 114 4.10e+01 1im5A 180 4.56e+01 c.33.1.3 66211 1m2jA 249 4.63e+01 c.31.1.5 84753 1fmtA 314 4.73e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1g2dC 90 4.86e+01 k.12.1.1 60220 1o4vA 183 4.91e+01 c.23.8.1 86628 1bquA 215 4.92e+01 1bquA b.1.2.1,b.1.2.1 22066,22067 1r4wA 226 5.07e+01 c.47.1.13 97050 1plc 99 5.15e+01 1plc b.6.1.1 22846 1iciA 256 5.29e+01 1iciA c.31.1.5 62266 1m2gA 249 5.29e+01 c.31.1.5 84750 1uyrA 737 5.30e+01 c.14.1.4,c.14.1.4 100188,100189 1uyvA 737 5.34e+01 c.14.1.4,c.14.1.4 100204,100205 2a10A 125 5.34e+01 1m2hA 249 5.35e+01 c.31.1.5 84751 1aksA 125 5.35e+01 5ptp b.47.1.2 25969 1z6xA 180 5.43e+01 1w2xA 758 5.48e+01 c.14.1.4,c.14.1.4 109134,109135 1hc1 657 5.53e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18494,18505,21870 2g6tA 306 5.59e+01 1v9nA 360 5.73e+01 1od2A 805 5.76e+01 c.14.1.4,c.14.1.4 86821,86822 1utmA 242 5.88e+01 b.47.1.2 99966 1ituA 369 6.18e+01 c.1.9.7 71423 1sxeA 97 6.19e+01 a.60.1.1 106080 1g2fC 90 6.20e+01 k.12.1.1 60222 1w1oA 534 6.28e+01 d.58.32.4,d.145.1.1 109071,109072 2stbE 222 6.33e+01 5ptp b.47.1.2 26006 1iuhA 198 6.37e+01 d.61.1.2 83711 1m2kA 249 6.44e+01 c.31.1.5 84754 1s7jA 262 6.58e+01 d.21.1.2 98647 1mbqA 220 6.60e+01 b.47.1.2 78920 1m2nA 249 6.63e+01 c.31.1.5 84756 1wh3A 87 6.74e+01 1hj8A 222 6.89e+01 b.47.1.2 65844 3wrp 108 6.89e+01 1jhgA a.4.12.1 19015 1p9mA 299 6.99e+01 b.1.2.1,b.1.2.1,b.1.2.1 87991,87992,87993 1i1rA 303 7.03e+01 1bquA b.1.2.1,b.1.2.1,b.1.2.1 61545,61546,61547 2wrpR 107 7.03e+01 1jhgA a.4.12.1 19010 1pvgA 418 7.08e+01 d.14.1.3,d.122.1.2 95161,95162 1oowA 99 7.19e+01 b.6.1.1 93387 1vzoA 355 7.29e+01 d.144.1.7 108971 2fnqA 699 7.40e+01 1troA 108 7.43e+01 1jhgA a.4.12.1 19011 1rcsA 105 7.54e+01 1jhgA a.4.12.1 19025 1ewrA 649 7.67e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1 19073,32387,33744 2ap6A 112 7.84e+01 1ngkA 128 8.11e+01 a.1.1.1 85673 1hdiA 413 8.25e+01 16pk c.86.1.1 60964 1thg 544 8.44e+01 1thg c.69.1.17 34763 2fciA 105 8.45e+01 1vjkA 98 8.62e+01 d.15.3.1 108631 1ewqA 765 8.71e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1fw6A 768 8.72e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19071,32385,33742,39745 1xfjA 261 8.76e+01 d.194.1.2 109585 1ihp 438 8.86e+01 1ihp c.60.1.2 33993 1vqsA 116 8.93e+01 2et2A 186 8.98e+01 4wbcA 183 8.98e+01 1wba b.42.4.1 25596