# List of top-scoring protein chains for T0361.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 1jj2B 337 2.00e+00 1ffkB b.43.3.2 63086 1vqoB 338 2.01e+00 1ffkB 337 2.25e+00 1ffkB b.43.3.2 25719 1yl3E 338 2.33e+00 2bvfA 459 3.10e+00 1aba 87 3.65e+00 1aba c.47.1.1 32760 1aazA 87 3.88e+00 1aba c.47.1.1 32761 1ehyA 294 5.44e+00 1ehyA c.69.1.11 34693 1j4aA 333 6.39e+00 c.2.1.4,c.23.12.1 71502,71503 1dq3A 454 6.72e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1j49A 333 6.82e+00 c.2.1.4,c.23.12.1 71498,71499 1av6A 295 8.07e+00 3mag c.66.1.25 34218 4dcg 307 8.11e+00 3mag c.66.1.25 34208 1jteA 307 8.14e+00 c.66.1.25 71860 3mct 297 8.14e+00 3mag c.66.1.25 34215 3mag 307 8.24e+00 3mag c.66.1.25 34205 1eamA 307 8.33e+00 3mag c.66.1.25 34212 1eqa 297 8.35e+00 3mag c.66.1.25 34216 1v39 322 8.58e+00 3mag c.66.1.25 34206 1vp3 348 8.84e+00 3mag c.66.1.25 34209 2ga9A 297 1.07e+01 1vpt 348 1.16e+01 3mag c.66.1.25 34207 2hrvA 142 1.35e+01 2hrvA b.47.1.4 26429 1v4aA 440 1.48e+01 a.24.16.4,d.218.1.9 108350,108351 1l3aA 227 1.54e+01 d.18.1.2 73531 2iugA 120 1.55e+01 2a08A 60 1.60e+01 1n4xH 120 2.12e+01 b.1.1.1 85324 1nx8A 273 2.16e+01 b.82.2.8 86374 1cl7H 135 2.23e+01 1gc1H b.1.1.1,b.1.1.2 20419,21389 1uulA 202 2.30e+01 2exrA 524 2.36e+01 1eepA 404 2.46e+01 1ak5 c.1.5.1 28636 1ft2A 315 2.72e+01 1ft1A a.118.6.1 19190 1nl4A 312 2.82e+01 a.118.6.1 80617 1ni1A 315 2.84e+01 a.118.6.1 91888 1g8xA 1010 2.90e+01 1lvk k.1.1.1 46378 1xf5L 80 2.91e+01 1xctL 80 2.94e+01 1qbqA 333 3.07e+01 1ft1A a.118.6.1 19187 1jcrA 377 3.17e+01 a.118.6.1 66506 1j6qA 136 3.25e+01 b.40.9.1 77091 1o5mA 377 3.33e+01 a.118.6.1 92507 1o1tA 380 3.34e+01 a.118.6.1 86551 1s8eA 333 3.35e+01 d.159.1.4 105368 1bev3 242 3.38e+01 1aym3 1ootA 60 3.56e+01 b.34.2.1 93386 1q8fA 313 3.76e+01 c.70.1.1 96203 1xpvA 78 3.88e+01 1ttzA 87 4.13e+01 c.47.1.1 107309 1msk 331 4.28e+01 1msk d.173.1.1 42495 1ebdC 41 4.51e+01 1ebdC a.9.1.1 16355 1ark 60 4.54e+01 1bb9 b.34.2.1 24473 1wxqA 397 4.55e+01 2pdd 43 4.57e+01 1ebdC a.9.1.1 16358 1t3kA 152 4.72e+01 c.46.1.1 106357 1ii7A 333 4.74e+01 1ii7A d.159.1.4 62415 1svzA 247 4.77e+01 1v3eA 431 4.98e+01 b.68.1.1 100287 1wcuA 153 5.33e+01 1tn6A 382 5.36e+01 1q5xA 161 5.53e+01 c.8.7.1 95947 1v2aA 210 5.74e+01 a.45.1.1,c.47.1.5 100263,100264 2bjnA 160 5.83e+01 1lp3A 519 5.95e+01 b.121.5.2 74169 1id3A 135 5.99e+01 a.22.1.1 66112 1w85I 49 6.00e+01 1gw5B 591 6.15e+01 a.118.1.10 70630 2cycA 375 6.40e+01 1rtg 210 6.60e+01 1gen b.66.1.1 27537 1gen 218 6.60e+01 1gen b.66.1.1 27536 1w4gA 47 6.63e+01 3gcb 470 6.71e+01 3gcb d.3.1.1 37032 1gcb 454 6.76e+01 3gcb d.3.1.1 37034 1a6r 471 6.78e+01 3gcb d.3.1.1 37033 1w9jA 770 6.81e+01 1lmzA 187 6.89e+01 a.96.1.4 74037 1htjF 210 6.93e+01 1htjF a.91.1.1 61254 1w9lA 770 7.01e+01 1w3dA 55 7.04e+01 a.9.1.1 109151 1k7yA 577 7.28e+01 a.46.1.1,c.23.6.1,d.173.1.1 68272,68273,68274 1ekeA 230 7.37e+01 1ekeA c.55.3.1 33572 2cknA 95 7.40e+01 2dpkA 152 7.47e+01 1xrhA 351 7.86e+01 2aqiA 269 7.96e+01 1e2yA 188 8.05e+01 1qq2A c.47.1.10 59173 1ymhE 65 8.09e+01 1enz 268 8.20e+01 1eny c.2.1.2 29912 2aqkA 269 8.28e+01 1m8fA 181 8.29e+01 c.26.1.3 84873 2fwsA 139 8.32e+01 1hybA 181 8.33e+01 1f9aA c.26.1.3 61399 1m8kA 181 8.33e+01 c.26.1.3 84876 1ej2A 181 8.33e+01 1f9aA c.26.1.3 59414 1m8gA 181 8.38e+01 c.26.1.3 84874 1eny 268 8.45e+01 1eny c.2.1.2 29910 1bvrA 268 8.46e+01 1eny c.2.1.2 29913 2aqhA 269 8.51e+01 2aq8A 269 8.52e+01 1tzzA 392 8.61e+01 1hn6A 110 8.63e+01 g.61.1.1 76721 2ahqA 76 8.83e+01 2c7bA 311 8.88e+01