# List of top-scoring protein chains for T0222.t04-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 1c89A 134 3.14e-03 1msi b.85.1.1 28314 b.85.1.1 28315 3nla 74 4.26e-03 1msi b.85.1.1 28316 1ucsA 64 7.08e-03 b.85.1.1 88466 9ameA 66 8.14e-03 1msi b.85.1.1 28294 1ops 64 1.22e-02 1msi b.85.1.1 28302 1b7jA 66 6.39e-02 1msi b.85.1.1 28283 7msi 66 8.88e-02 1msi b.85.1.1 28290 2msi 66 9.14e-02 1msi b.85.1.1 28297 1msi 70 9.37e-02 1msi b.85.1.1 28281 5msi 66 1.04e-01 1msi b.85.1.1 28293 1kde 70 1.14e-01 1msi b.85.1.1 28310 4msi 66 1.26e-01 1msi b.85.1.1 28292 6msi 66 1.29e-01 1msi b.85.1.1 28296 1eklA 66 1.37e-01 1msi b.85.1.1 28289 3msi 66 1.48e-01 1msi b.85.1.1 28282 3ameA 66 1.61e-01 1msi b.85.1.1 28304 1ame 67 1.62e-01 1msi b.85.1.1 28285 1hg7A 66 1.65e-01 1msi b.85.1.1 28280 2msjA 66 1.70e-01 1msi b.85.1.1 28303 1gzi 65 1.80e-01 1msi b.85.1.1 28295 1b7iA 66 2.05e-01 1msi b.85.1.1 28288 8msiA 66 2.12e-01 1msi b.85.1.1 28308 2jiaA 66 2.23e-01 1msi b.85.1.1 28286 2spgA 66 2.43e-01 1msi b.85.1.1 28291 1jabA 66 2.84e-01 1msi b.85.1.1 28284 8ameA 66 3.07e-01 1msi b.85.1.1 28301 9msiA 66 4.22e-01 1msi b.85.1.1 28307 2ameA 66 4.25e-01 1msi b.85.1.1 28300 7ameA 66 4.25e-01 1msi b.85.1.1 28287 1b7kA 66 4.62e-01 1msi b.85.1.1 28306 6ameA 66 5.00e-01 1msi b.85.1.1 28299 1msjA 66 5.23e-01 1msi b.85.1.1 28305 4ameA 66 5.49e-01 1msi b.85.1.1 28298 1iejA 332 5.95e-01 1nnt c.94.1.2 62328 1tfaA 329 6.42e-01 1nnt c.94.1.2 35880 1nnt 328 6.83e-01 1nnt c.94.1.2 35884 1ovt 686 1.04e+00 1nnt c.94.1.2 35882 c.94.1.2 35883 1f1uA 323 1.56e+00 d.32.1.3 83200 d.32.1.3 83201 1ao0A 459 1.65e+00 1ecfB c.61.1.1 34049 d.153.1.1 41816 1gph1 465 1.68e+00 1ecfB 1plq 258 2.64e+00 1plq d.131.1.2 41388 d.131.1.2 41389 1sxjF 283 2.81e+00 1mq9A 180 2.89e+00 c.62.1.1 79411 1dot 686 4.07e+00 1nnt c.94.1.2 35876 c.94.1.2 35877 1f1xA 322 4.42e+00 d.32.1.3 83208 d.32.1.3 83209 1lfaA 187 4.53e+00 1ido c.62.1.1 34122 1rd4A 191 4.54e+00 c.62.1.1 -7968 1dgqA 188 4.68e+00 1ido c.62.1.1 34131 1cqpA 182 4.77e+00 1ido c.62.1.1 34127 1q0cA 365 5.07e+00 d.32.1.3 88343 d.32.1.3 88344 1viwA 471 5.50e+00 1smd b.71.1.1 27776 c.1.8.1 28763 1rcsA 105 6.05e+00 1jhgA a.4.12.1 19025 1trrA 107 6.08e+00 1jhgA a.4.12.1 19017 2wrpR 107 6.08e+00 1jhgA a.4.12.1 19010 3wrp 108 6.09e+00 1jhgA a.4.12.1 19015 1troA 108 6.11e+00 1jhgA a.4.12.1 19011 1hjoA 380 6.32e+00 1ba1 c.55.1.1 33425 c.55.1.1 33426 1s3xA 382 6.38e+00 c.55.1.1 -7584 c.55.1.1 -7585 1ithA 141 6.99e+00 1ithA a.1.1.2 15623 1e6vA 553 7.14e+00 1mroA a.89.1.1 18527 d.58.31.2 39445 1jhgA 101 7.31e+00 1jhgA a.4.12.1 19009 1ml9A 302 7.37e+00 b.85.7.1 79282 1nkwS 115 7.96e+00 i.1.1.2 80604 1jae 471 8.40e+00 1smd b.71.1.1 27773 c.1.8.1 28760 1k28D 391 8.88e+00 b.106.1.1 68052 b.106.1.1 68053 1gvcA 157 1.01e+01 c.94.1.2 65607 1gv8A 159 1.01e+01 c.94.1.2 65606 1mjnA 179 1.02e+01 c.62.1.1 79210 1pnuS 113 1.02e+01 i.1.1.1 88216 1mq8B 177 1.03e+01 c.62.1.1 79407 1ten 90 1.07e+01 1ten b.1.2.1 21990 1ovb 159 1.09e+01 1nnt c.94.1.2 35875 1e19A 314 1.19e+01 1b7bA c.73.1.1 34967 1rl1A 114 1.21e+01 unknown_sccs -3054 1gydB 315 1.21e+01 b.67.2.1 70751 1aohA 147 1.29e+01 1aohA b.2.2.2 22401 1odzA 386 1.41e+01 c.1.8.3 86889 1a3aA 148 1.50e+01 1a3aA d.112.1.1 40917 1n62C 288 1.51e+01 d.87.2.1 80094 d.145.1.3 80095 1gw1A 376 1.57e+01 c.1.8.3 76361 1keqA 248 1.63e+01 b.74.1.1 72387 1dmxA 248 1.65e+01 2cba b.74.1.1 27959 1fw1A 216 1.65e+01 a.45.1.1 60051 c.47.1.5 60052 1o5oA 221 1.65e+01 c.61.1.1 -7954 1t0bA 252 1.71e+01 1gvyA 383 1.74e+01 c.1.8.3 76359 1j9yA 385 1.74e+01 1j9yA c.1.8.3 62791 1r7oA 395 1.74e+01 c.1.8.3 -5322 1ex7A 186 1.82e+01 1gky c.37.1.1 59537 1gky 187 1.83e+01 1gky c.37.1.1 31839 1cm8A 367 1.84e+01 1hcl d.144.1.7 41651 1vjeA 166 1.91e+01 d.185.1.2 -10261 1fr1A 361 1.93e+01 1gceA e.3.1.1 42734 1h3fA 432 2.00e+01 c.26.1.1 76631 d.66.1.4 76632 1io2A 213 2.05e+01 1ekeA c.55.3.1 62612 1jtdB 273 2.25e+01 b.69.5.2 67265 1kfcA 268 2.31e+01 c.1.2.4 77371 1qopA 268 2.34e+01 2tysA c.1.2.4 28570 1kfbA 268 2.35e+01 c.1.2.4 77369 1etzB 228 2.37e+01 1igtB b.1.1.1 20481 b.1.1.2 21445 1k8yA 268 2.37e+01 c.1.2.4 72183 1beuA 268 2.49e+01 2tysA c.1.2.4 28574 1nzoA 363 2.63e+01 b.105.1.1 -2933 e.3.1.1 -11784 1jyoA 130 2.83e+01 d.198.1.1 67483 1nj4A 363 2.83e+01 b.105.1.1 80545 e.3.1.1 80546 1oy0A 281 2.90e+01 c.1.12.8 87543 1e0tA 470 2.91e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1m5sA 297 2.95e+01 d.58.33.1 74511 d.58.33.1 74512 1v04A 355 2.96e+01 unknown_sccs -4592 1e0uA 470 3.09e+01 1a49A b.58.1.1 27072 c.1.12.1 29300 c.49.1.1 33154 1mgtA 174 3.09e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1rgyA 360 3.29e+01 e.3.1.1 -11768 1qusA 322 3.40e+01 1ltm d.2.1.6 36991 1ixcA 294 3.45e+01 a.4.5.37 83764 c.94.1.1 83765 1ltm 320 3.47e+01 1ltm d.2.1.6 36992 1pkyA 470 3.51e+01 1a49A b.58.1.1 27068 c.1.12.1 29296 c.49.1.1 33150 1rh5B 74 3.57e+01 unknown_sccs -12198 1oxwA 373 3.64e+01 c.19.1.3 87539 1sr7A 259 3.68e+01 1cto 109 3.71e+01 1cto b.1.2.1 22054 1sqnA 261 3.77e+01 2yfpA 236 3.86e+01 1ema d.22.1.1 38364 1gyeB 315 3.89e+01 b.67.2.1 70752 1gyhA 318 3.94e+01 b.67.2.1 70757 1jbzA 236 3.97e+01 d.22.1.1 77103 1qfjA 232 3.99e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 1fiuA 286 3.99e+01 1fiuA c.52.1.10 33317