# 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 1y9kA 157 1.31e+00 2a9aA 372 2.47e+00 1soxA 466 2.62e+00 1soxA b.1.18.6,d.120.1.1,d.176.1.1 21947,41090,42563 2a9bA 372 2.91e+00 1h21A 247 6.00e+00 a.138.1.3 76510 1djxA 624 8.60e+00 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1qasA 622 8.60e+00 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17340,23157,29585 2a9dA 372 1.16e+01 1j7jA 178 1.24e+01 c.61.1.1 84131 2gkeA 274 1.26e+01 1bwzA 274 1.40e+01 1bwzA d.21.1.1,d.21.1.1 38337,38338 2ftcB 136 1.41e+01 2f6uA 234 1.44e+01 1pyiA 96 1.89e+01 1pyiA g.38.1.1,h.1.3.1 45079,45512 1pca 403 2.25e+01 1aye c.56.5.1,d.58.3.1 33822,39063 1z7wA 322 2.35e+01 1z7yA 322 2.44e+01 1cp2A 269 2.60e+01 1cp2A c.37.1.10 32269 1f76A 336 2.71e+01 c.1.4.1 76160 1ri7A 171 2.74e+01 a.4.5.32,d.58.4.2 97504,97505 1e9pB 151 3.06e+01 1mfmA b.1.8.1 22216 1w61A 414 3.14e+01 1uc2A 481 3.31e+01 d.261.1.1 99161 1omzA 293 3.65e+01 c.68.1.15 87093 1g6bA 106 3.73e+01 1a6l d.58.1.2 38963 1s03G 129 4.02e+01 d.140.1.1 105144 1e9pA 151 4.13e+01 1mfmA b.1.8.1 22215 1r7sA 106 4.18e+01 d.15.4.1 97207 1zbpA 273 4.19e+01 1xlqA 106 4.19e+01 1pdxA 106 4.29e+01 1ayfA d.15.4.1 37682 5fivA 113 4.30e+01 1fmb b.50.1.1 26765 1oqqA 106 4.37e+01 d.15.4.1 93422 1fri 106 4.47e+01 1a6l d.58.1.2 38964 1baiA 124 4.50e+01 2rspB b.50.1.1 26773 1g3oA 106 4.54e+01 1a6l d.58.1.2 38959 1a6l 106 4.54e+01 1a6l d.58.1.2 38966 1b0tA 106 4.54e+01 1a6l d.58.1.2 38965 1gpx 106 4.55e+01 1ayfA d.15.4.1 37681 1fd2 106 4.57e+01 1a6l d.58.1.2 38962 2fd2 106 4.57e+01 1a6l d.58.1.2 38961 1frx 106 4.59e+01 1a6l d.58.1.2 38981 1d3wA 106 4.64e+01 1a6l d.58.1.2 38957 1f5bA 106 4.66e+01 1a6l d.58.1.2 38956 1frh 106 4.68e+01 1a6l d.58.1.2 38972 7fd1A 106 4.69e+01 1a6l d.58.1.2 38953 1frk 106 4.80e+01 1a6l d.58.1.2 38967 1bk8 50 4.81e+01 1ayj g.3.7.5 44178 1f5cA 106 4.84e+01 1a6l d.58.1.2 38958 1e0fI 57 4.89e+01 1e0fI g.3.15.2 44377 1oh4A 179 4.91e+01 b.18.1.18 92978 1frl 106 4.92e+01 1a6l d.58.1.2 38976 1hixA 190 5.01e+01 b.29.1.11 65839 1wflA 74 5.02e+01 1frj 106 5.03e+01 1a6l d.58.1.2 38969 1fdd 106 5.14e+01 1a6l d.58.1.2 38960 1put 106 5.19e+01 1ayfA d.15.4.1 37680 1e9qB 151 5.25e+01 1mfmA b.1.8.1 22218 1e9oB 152 5.27e+01 1mfmA b.1.8.1 22228 1cb4A 151 5.29e+01 1mfmA b.1.8.1 22236 1ftcA 106 5.39e+01 1a6l d.58.1.2 38974 2fq1A 287 5.39e+01 2rspA 124 5.54e+01 2rspB b.50.1.1 26771 2a8yA 270 5.60e+01 1mkeA 152 5.62e+01 b.55.1.4 79231 1eysH 259 6.05e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 2afhE 289 6.14e+01 1z21A 112 6.18e+01 1de0A 289 6.42e+01 1cp2A c.37.1.10 32255 1zghA 260 6.84e+01 1pc5A 107 6.87e+01 d.58.1.2 94429 1mvpA 124 6.96e+01 2rspB b.50.1.1 26775 1seiA 130 7.14e+01 1seiA d.140.1.1 41463 1pc4A 107 7.18e+01 d.58.1.2 94428 1ioaA 240 7.18e+01 1led b.29.1.1 24168 1frm 106 7.32e+01 1a6l d.58.1.2 38973 1e9qA 151 7.39e+01 1mfmA b.1.8.1 22217 1e9oA 152 7.43e+01 1mfmA b.1.8.1 22227 1ivhA 394 7.52e+01 3mdeA a.29.3.1,e.6.1.1 16608,42869 1xdbA 289 7.75e+01 1q47A 495 7.95e+01 b.69.12.1 104532 4fiv 113 7.97e+01 1fmb b.50.1.1 26762 1xd8A 289 8.00e+01 1l5jA 865 8.03e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1st8A 543 8.04e+01 6fivA 113 8.14e+01 1fmb b.50.1.1 26763 1o7bT 98 8.20e+01 d.169.1.4 92620 1hy3A 294 8.31e+01 c.37.1.5 71090 3fivA 116 8.32e+01 1fmb b.50.1.1 26768 1g3mA 294 8.32e+01 c.37.1.5 83268 2fz0A 149 8.56e+01 1h8uA 117 8.60e+01 1h8uA d.169.1.1 60793 2ah5A 210 8.75e+01 2ew1A 201 8.79e+01