# List of top-scoring protein chains for T0342.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 1ebbA 202 2.60e+00 c.60.1.1 64900 1h2eA 207 2.73e+00 c.60.1.1 70857 1novA 355 6.21e+00 2bbvA b.121.4.4 23326 1e6cA 173 1.06e+01 1shkA c.37.1.2 59296 1pytD 251 1.11e+01 5ptp b.47.1.2 26058 1r45A 204 1.12e+01 1z6nA 167 1.24e+01 1utg 70 1.30e+01 1utg a.101.1.1 18813 1zd1A 284 1.38e+01 2a22A 215 1.40e+01 1agi 125 1.42e+01 7rsa d.5.1.1 37303 1ejfA 125 1.47e+01 1ejfA b.15.1.2 23683 1eysL 280 1.61e+01 6prcL f.26.1.1 43515 1cpy 421 1.71e+01 1ivyA c.69.1.5 34651 1zcbA 362 1.72e+01 1wpxA 421 1.73e+01 2a30A 248 1.86e+01 2es9A 115 2.11e+01 1p5zB 263 2.13e+01 c.37.1.1 87815 1shzA 340 2.15e+01 2bfeA 400 2.23e+01 2bfdA 400 2.24e+01 2bfcA 400 2.52e+01 1wwhA 119 2.53e+01 2eboA 74 2.53e+01 2eboA h.3.2.1 45754 2dayA 128 2.59e+01 1mwwA 128 2.67e+01 d.80.1.4 91483 1jvwA 167 2.68e+01 d.26.1.1 71907 1d4dA 572 2.68e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19702,30439,42322 2bfbA 400 2.73e+01 1d4cA 572 2.75e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19698,30435,42318 1knwA 425 2.81e+01 b.49.2.3,c.1.6.1 90969,90970 1v16A 400 2.86e+01 c.36.1.11 108240 1v1rA 400 2.86e+01 c.36.1.11 108272 1v11A 400 2.86e+01 c.36.1.11 108227 1x7xA 400 2.86e+01 2bewA 400 2.86e+01 1x7wA 400 2.86e+01 2bffA 400 2.87e+01 1x7zA 400 2.87e+01 1x7yA 400 2.88e+01 1qhhC 115 3.06e+01 1pjr 1a6zA 275 3.10e+01 1agdA b.1.1.2,d.19.1.1 20781,38280 1uu1A 335 3.56e+01 c.67.1.1 99993 1qpiA 203 3.57e+01 2tct a.4.1.9,a.121.1.1 16072,19249 1bjz 207 3.65e+01 2tct a.4.1.9,a.121.1.1 16065,19242 2tct 207 3.65e+01 2tct a.4.1.9,a.121.1.1 16063,19240 2f8jA 347 3.65e+01 1sezA 504 3.80e+01 c.3.1.2,d.16.1.5 98822,98823 1a6i 217 3.87e+01 2tct a.4.1.9,a.121.1.1 16066,19243 1s62A 106 3.89e+01 2trt 217 3.92e+01 2tct a.4.1.9,a.121.1.1 16064,19241 1lk5A 229 3.96e+01 c.124.1.4,d.58.40.1 73960,73961 1mvyA 628 3.97e+01 b.71.1.1,c.1.8.1 79547,79548 1jgiA 628 4.02e+01 b.71.1.1,c.1.8.1 66676,66677 1wlmA 151 4.13e+01 1fpmA 557 4.16e+01 c.37.1.10 59945 1eg7A 557 4.18e+01 1eg7A c.37.1.10 32241 1g5aA 628 4.27e+01 b.71.1.1,c.1.8.1 65152,65153 1jvr 137 4.27e+01 1jvr a.61.1.2 18132 1frd 98 4.48e+01 1awd d.15.4.1 37648 1tuc 63 4.58e+01 1tuc b.34.2.1 24492 1c2yA 156 4.72e+01 1rvv1 c.16.1.1 30972 1keaA 221 4.87e+01 a.96.1.2 68491 2g9iA 249 5.12e+01 1nbwB 117 5.23e+01 c.51.3.2 80396 1q3eA 207 5.41e+01 b.82.3.2 95669 1uhcA 79 5.72e+01 b.34.2.1 99397 1t8pA 267 5.83e+01 c.60.1.1 106667 1s1hO 65 5.99e+01 i.1.1.1 105167 1hkvA 453 6.11e+01 b.49.2.3,c.1.6.1 83559,83560 1xsvA 113 6.25e+01 2bnwA 53 6.31e+01 1o20A 427 6.50e+01 c.82.1.1 86556 1pzqA 60 6.54e+01 a.34.3.1 95466 1ee2A 373 6.73e+01 2ohxA b.35.1.2,c.2.1.1 24663,29679 2d0oB 125 6.74e+01 1m8uA 173 6.82e+01 b.11.1.1,b.11.1.1 91233,91234 1zbmA 280 6.83e+01 2bwkA 121 7.00e+01 1qlhA 374 7.39e+01 2ohxA b.35.1.2,c.2.1.1 24685,29701 1f0iA 504 7.51e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1n8kA 374 7.52e+01 b.35.1.2,c.2.1.1 80298,80299 1heuA 374 7.52e+01 2ohxA b.35.1.2,c.2.1.1 60979,60980 1bw3 125 7.55e+01 1bw4 b.52.1.2 26899 1ju9A 374 7.56e+01 b.35.1.2,c.2.1.1 63293,63294 1qv6A 374 7.63e+01 b.35.1.2,c.2.1.1 96348,96349 1wdeA 294 7.66e+01 1a45 173 7.69e+01 1amm b.11.1.1,b.11.1.1 23602,23603 1tdtA 259 7.88e+01 3tdt b.81.1.2 28055 1e6hA 62 7.91e+01 b.34.2.1 70084 1axgA 374 7.95e+01 2ohxA b.35.1.2,c.2.1.1 24691,29707 1e7oA 62 8.09e+01 b.34.2.1 83169 1zcaA 359 8.17e+01 1axeA 374 8.24e+01 2ohxA b.35.1.2,c.2.1.1 24681,29697 1smxA 96 8.44e+01 b.40.4.5 105772 1deqA 390 8.51e+01 i.9.1.1 45987 2b3nA 159 8.53e+01 1a71A 374 8.64e+01 2ohxA b.35.1.2,c.2.1.1 24673,29689 1mgoA 374 8.64e+01 b.35.1.2,c.2.1.1 79094,79095 1t07A 94 8.73e+01 d.279.1.1 106196 1a7qL 106 8.78e+01 8fabA b.1.1.1 19954