# List of top-scoring protein chains for T0222.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 1ops 64 8.61e-02 1msi b.85.1.1 28302 3nla 74 2.17e-01 1msi b.85.1.1 28316 1c89A 134 2.66e-01 1msi b.85.1.1 28314 b.85.1.1 28315 9ameA 66 3.03e-01 1msi b.85.1.1 28294 1ucsA 64 3.20e-01 b.85.1.1 88466 1b7jA 66 9.08e-01 1msi b.85.1.1 28283 2jiaA 66 1.25e+00 1msi b.85.1.1 28286 7msi 66 1.37e+00 1msi b.85.1.1 28290 2msi 66 1.42e+00 1msi b.85.1.1 28297 1msi 70 1.53e+00 1msi b.85.1.1 28281 5msi 66 1.59e+00 1msi b.85.1.1 28293 6msi 66 1.62e+00 1msi b.85.1.1 28296 1eklA 66 1.74e+00 1msi b.85.1.1 28289 3ameA 66 1.81e+00 1msi b.85.1.1 28304 1kde 70 1.81e+00 1msi b.85.1.1 28310 4msi 66 1.82e+00 1msi b.85.1.1 28292 1gydB 315 1.88e+00 b.67.2.1 70751 3msi 66 1.90e+00 1msi b.85.1.1 28282 2msjA 66 1.96e+00 1msi b.85.1.1 28303 1ame 67 1.99e+00 1msi b.85.1.1 28285 1hg7A 66 2.03e+00 1msi b.85.1.1 28280 1b7iA 66 2.05e+00 1msi b.85.1.1 28288 1gzi 65 2.15e+00 1msi b.85.1.1 28295 1tfaA 329 2.41e+00 1nnt c.94.1.2 35880 1iejA 332 2.43e+00 1nnt c.94.1.2 62328 8msiA 66 2.55e+00 1msi b.85.1.1 28308 2spgA 66 2.58e+00 1msi b.85.1.1 28291 1nnt 328 2.62e+00 1nnt c.94.1.2 35884 1jabA 66 2.96e+00 1msi b.85.1.1 28284 9msiA 66 3.64e+00 1msi b.85.1.1 28307 8ameA 66 3.73e+00 1msi b.85.1.1 28301 1ovt 686 3.96e+00 1nnt c.94.1.2 35882 c.94.1.2 35883 7ameA 66 4.15e+00 1msi b.85.1.1 28287 6ameA 66 4.34e+00 1msi b.85.1.1 28299 1b7kA 66 4.70e+00 1msi b.85.1.1 28306 2ameA 66 4.85e+00 1msi b.85.1.1 28300 1gyeB 315 4.96e+00 b.67.2.1 70752 1gyhA 318 5.01e+00 b.67.2.1 70757 1msjA 66 5.38e+00 1msi b.85.1.1 28305 4ameA 66 5.70e+00 1msi b.85.1.1 28298 1mq9A 180 6.57e+00 c.62.1.1 79411 1plq 258 7.04e+00 1plq d.131.1.2 41388 d.131.1.2 41389 1sxjF 283 7.43e+00 1rd4A 191 8.59e+00 c.62.1.1 -7968 1lfaA 187 8.63e+00 1ido c.62.1.1 34122 1dot 686 8.67e+00 1nnt c.94.1.2 35876 c.94.1.2 35877 1f1uA 323 8.99e+00 d.32.1.3 83200 d.32.1.3 83201 1dgqA 188 9.39e+00 1ido c.62.1.1 34131 1cqpA 182 9.57e+00 1ido c.62.1.1 34127 1d4xA 375 9.96e+00 1yagA c.55.1.1 59107 c.55.1.1 59108 1o5oA 221 1.04e+01 c.61.1.1 -7954 1ml9A 302 1.10e+01 b.85.7.1 79282 1fiuA 286 1.16e+01 1fiuA c.52.1.10 33317 1gvcA 157 1.16e+01 c.94.1.2 65607 1gv8A 159 1.17e+01 c.94.1.2 65606 1cm8A 367 1.18e+01 1hcl d.144.1.7 41651 1io2A 213 1.24e+01 1ekeA c.55.3.1 62612 1ovb 159 1.24e+01 1nnt c.94.1.2 35875 1jtdB 273 1.43e+01 b.69.5.2 67265 1hjoA 380 1.73e+01 1ba1 c.55.1.1 33425 c.55.1.1 33426 1s3xA 382 1.75e+01 c.55.1.1 -7584 c.55.1.1 -7585 1k28D 391 1.90e+01 b.106.1.1 68052 b.106.1.1 68053 1e6vA 553 2.05e+01 1mroA a.89.1.1 18527 d.58.31.2 39445 1mjnA 179 2.06e+01 c.62.1.1 79210 1ex7A 186 2.07e+01 1gky c.37.1.1 59537 1qz5A 375 2.07e+01 c.55.1.1 -7590 c.55.1.1 -7591 1atnA 373 2.07e+01 1yagA c.55.1.1 33437 c.55.1.1 33438 1j6zA 376 2.07e+01 1yagA c.55.1.1 62667 c.55.1.1 62668 1esvA 377 2.07e+01 1yagA c.55.1.1 33433 c.55.1.1 33434 1lcuA 371 2.08e+01 c.55.1.1 73830 c.55.1.1 73831 1gky 187 2.08e+01 1gky c.37.1.1 31839 1ma9B 376 2.08e+01 c.55.1.1 78890 c.55.1.1 78891 1mq8B 177 2.08e+01 c.62.1.1 79407 1n62C 288 2.10e+01 d.87.2.1 80094 d.145.1.3 80095 1nkwS 115 2.18e+01 i.1.1.2 80604 1yoo 396 2.20e+01 1ajsA c.67.1.1 34295 1czeA 396 2.20e+01 1ajsA c.67.1.1 34301 2btfA 375 2.23e+01 1yagA c.55.1.1 33429 c.55.1.1 33430 1ithA 141 2.23e+01 1ithA a.1.1.2 15623 1v04A 355 2.32e+01 unknown_sccs -4592 1a3aA 148 2.35e+01 1a3aA d.112.1.1 40917 1bev3 242 2.36e+01 1aym3 1qhfA 240 2.37e+01 1qhfA c.60.1.1 33960 5pgmA 246 2.39e+01 1qhfA c.60.1.1 33962 1utbB 315 2.42e+01 1rh5B 74 2.46e+01 unknown_sccs -12198 1uw4B 248 2.53e+01 unknown_sccs -1560 1d6sA 322 2.53e+01 1oasA c.79.1.1 35295 1f1xA 322 2.53e+01 d.32.1.3 83208 d.32.1.3 83209 1pnuS 113 2.68e+01 i.1.1.1 88216 1rl1A 114 2.75e+01 unknown_sccs -3054 1q0cA 365 2.79e+01 d.32.1.3 88343 d.32.1.3 88344 1fjcA 96 2.82e+01 1fjcA d.58.7.1 39212 1ao0A 459 2.87e+01 1ecfB c.61.1.1 34049 d.153.1.1 41816 1ni9A 338 2.94e+01 e.7.1.2 85739 1e19A 314 2.95e+01 1b7bA c.73.1.1 34967 1jpaA 312 2.98e+01 d.144.1.7 67011 1pmzA 86 2.99e+01 1feuA 206 3.00e+01 1feuA b.53.1.1 59801 1p8sA 314 3.01e+01 c.42.1.1 87979 1gph1 465 3.05e+01 1ecfB 1vjeA 166 3.08e+01 d.185.1.2 -10261 1fcjA 322 3.18e+01 1oasA c.79.1.1 35289 2rlaA 323 3.24e+01 1d3vA c.42.1.1 32573 1rcsA 105 3.43e+01 1jhgA a.4.12.1 19025 1r1uA 106 3.44e+01 1hqgA 323 3.45e+01 1d3vA c.42.1.1 61136 1p8nA 314 3.45e+01 c.42.1.1 87965 2wrpR 107 3.45e+01 1jhgA a.4.12.1 19010 1trrA 107 3.46e+01 1jhgA a.4.12.1 19017 1p8mA 314 3.46e+01 c.42.1.1 87962 1p8pA 314 3.46e+01 c.42.1.1 87971 1p8oA 314 3.46e+01 c.42.1.1 87968 3wrp 108 3.47e+01 1jhgA a.4.12.1 19015 1troA 108 3.47e+01 1jhgA a.4.12.1 19011 1hqxA 323 3.48e+01 1d3vA c.42.1.1 61161 1d3vA 323 3.49e+01 1d3vA c.42.1.1 32559 1p8rA 308 3.49e+01 c.42.1.1 87977 3rlaA 323 3.50e+01 1d3vA c.42.1.1 32564 1v13A 134 3.55e+01 1p8qA 314 3.64e+01 c.42.1.1 87974 1mpgA 282 3.66e+01 1mpgA a.96.1.3 18747 d.129.1.2 41296 1yvnA 375 3.79e+01 1yagA c.55.1.1 33451 c.55.1.1 33452 1yagA 375 3.87e+01 1yagA c.55.1.1 33449 c.55.1.1 33450 1etzB 228 4.00e+01 1igtB b.1.1.1 20481 b.1.1.2 21445 1giyD 178 4.00e+01 i.1.1.1 60551