# List of top-scoring protein chains for T0301.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 2gkeA 274 5.28e-02 1bwzA 274 5.92e-02 1bwzA d.21.1.1,d.21.1.1 38337,38338 1s5jA 847 6.04e+00 1re5A 450 7.04e+00 a.127.1.1 104911 1kkoA 413 7.84e+00 c.1.11.2,d.54.1.1 68675,68676 2b3nA 159 7.94e+00 1b1cA 181 8.97e+00 1amoA c.23.5.2 31212 1sdjA 310 9.02e+00 d.21.1.2,d.21.1.2 98807,98808 1qyaA 307 9.37e+00 d.21.1.2,d.21.1.2 104653,104654 1qy9A 297 9.44e+00 d.21.1.2,d.21.1.2 104645,104646 1uf2K 506 9.99e+00 2f6uA 234 1.09e+01 1w61A 414 1.10e+01 1y9kA 157 1.21e+01 1hfeL 421 1.25e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 2fug3 783 1.31e+01 1ygs 234 1.32e+01 1ygs b.26.1.1 23907 1mr1A 235 1.33e+01 b.26.1.1 79418 1o9jA 501 1.35e+01 c.82.1.1 86694 1u7vB 236 1.36e+01 b.26.1.1 107730 1u7fB 239 1.38e+01 b.26.1.1 107721 1udeA 195 1.40e+01 b.40.5.1 99208 1e08A 371 1.40e+01 i.4.1.1 45914 1g88A 268 1.40e+01 1ygs b.26.1.1 23911 1qasA 622 1.41e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17340,23157,29585 1djxA 624 1.41e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1dd1A 268 1.42e+01 b.26.1.1 23908 1xhkA 187 1.46e+01 1xa6A 466 1.56e+01 2g23A 612 1.58e+01 2cakA 154 1.61e+01 1shzC 233 1.79e+01 2a9aA 372 2.07e+01 2a9bA 372 2.19e+01 1ja1A 622 2.35e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1ja0A 620 2.38e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62798,62799,62800 1j9zA 622 2.38e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62792,62793,62794 1amoA 615 2.39e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 25669,31210,31557 1hus 155 2.40e+01 1rss a.75.1.1 18391 2g6yA 217 2.42e+01 1soxA 466 2.42e+01 1soxA b.1.18.6,d.120.1.1,d.176.1.1 21947,41090,42563 1zo1I 501 2.59e+01 1xfjA 261 2.64e+01 d.194.1.2 109585 1oe4A 247 2.65e+01 c.18.1.3 86895 2ftsA 419 3.10e+01 1t3eA 421 3.10e+01 b.85.6.1,b.103.1.1,c.57.1.2 106348,106349,106350 2f4lA 297 3.37e+01 1h21A 247 3.56e+01 a.138.1.3 76510 1pgjA 478 3.89e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 1moq 368 4.45e+01 1moq c.80.1.1 35302 1d4dA 572 4.51e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19702,30439,42322 1wchA 315 4.55e+01 1d4cA 572 5.18e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19698,30435,42318 1de0A 289 5.27e+01 1cp2A c.37.1.10 32255 2a6hC 1119 5.27e+01 1ewrA 649 5.28e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1 19073,32387,33744 1ewqA 765 5.50e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1fw6A 768 5.51e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19071,32385,33742,39745 1l1nA 183 5.69e+01 b.47.1.4 73476 2biwA 490 5.78e+01 1lm6A 215 5.83e+01 d.167.1.1 84628 1uc2A 481 5.97e+01 d.261.1.1 99161 1w78A 422 5.97e+01 2afhE 289 6.09e+01 1xd8A 289 6.24e+01 1yeeL 219 6.31e+01 32c2A b.1.1.1,b.1.1.2 20156,21186 1n1jB 97 6.56e+01 a.22.1.3 79814 1st8A 543 6.57e+01 1yejL 219 6.61e+01 8fabA b.1.1.1,b.1.1.2 20140,21170 2a5vA 213 6.63e+01 1ym3A 215 6.65e+01 1wbpA 397 6.68e+01 1ioaA 240 6.70e+01 1led b.29.1.1 24168 1ci0A 228 6.72e+01 1ci0A b.45.1.1 25750 1g2iA 166 6.74e+01 1g2iA c.23.16.2 31438 1yedA 219 6.82e+01 32c2A b.1.1.1,b.1.1.2 20150,21180 1i6vC 1118 6.99e+01 e.29.1.1 61856 1l9uC 1118 6.99e+01 i.8.1.1 73750 1ynjC 1119 7.03e+01 1hqmC 1119 7.03e+01 i.8.1.1 45974 2aiaA 203 7.13e+01 2aieP 203 7.20e+01 1hl9A 449 7.24e+01 b.71.1.3,c.1.8.11 90650,90651 1fc9A 388 7.41e+01 1fc6A b.36.1.3,c.14.1.2 64742,64743 1hixA 190 7.56e+01 b.29.1.11 65839 2aw5A 541 7.58e+01 1mxmA 254 7.59e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1o0pA 104 7.65e+01 d.58.7.1 86535 2bw0A 329 7.66e+01 1fc6A 388 7.70e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1oi4A 193 7.92e+01 c.23.16.2 87047 1c7qA 445 8.00e+01 2pgi c.80.1.2 35307 1g20E 289 8.03e+01 1cp2A c.37.1.10 32247 1rw4A 272 8.14e+01 c.37.1.10 97962 1jscA 630 8.32e+01 c.31.1.3,c.36.1.5,c.36.1.9 67224,67225,67226 1viuA 203 8.36e+01 d.113.1.1 100771 1t9bA 677 8.44e+01 1cp2A 269 8.46e+01 1cp2A c.37.1.10 32269 1lw7A 365 8.49e+01 c.26.1.3,c.37.1.1 74295,74296 1xdbA 289 8.50e+01 1f3dJ 219 8.52e+01 32c2A b.1.1.1,b.1.1.2 20461,21425 1baiA 124 8.69e+01 2rspB b.50.1.1 26773 1s6yA 450 8.85e+01 c.2.1.5,d.162.1.2 105314,105315