# List of top-scoring protein chains for T0202.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 2pfkC 320 1.70e-02 3pfk c.89.1.1 35579 1pfkA 320 1.71e-02 3pfk c.89.1.1 35575 1mtoA 319 1.44e-01 c.89.1.1 79458 6pfkA 319 1.51e-01 3pfk c.89.1.1 35583 4pfk 319 2.70e-01 3pfk c.89.1.1 35582 1o8oA 167 4.43e-01 1j0aA 325 6.50e-01 c.79.1.1 83871 1pwhA 327 1.82e+00 1c0mA 238 1.85e+00 1cxqA b.34.7.1 24635 c.55.3.2 33640 1v4vA 376 2.01e+00 1vhnA 318 3.05e+00 1rcuA 195 7.49e+00 1nj8A 459 7.67e+00 c.51.1.1 85769 d.68.5.1 85770 d.104.1.1 85771 1lkdA 297 7.92e+00 d.32.1.3 78059 d.32.1.3 78060 1kfiA 572 8.06e+00 c.84.1.1 68555 c.84.1.1 68556 c.84.1.1 68557 d.129.2.1 68558 1m54A 363 8.28e+00 c.79.1.1 74463 1h4vB 421 8.73e+00 1adjA c.51.1.1 60624 d.104.1.1 60625 1jbqA 435 8.80e+00 1oasA c.79.1.1 62850 1o5iA 249 9.67e+00 1su4A 994 9.76e+00 1jhdA 396 1.00e+01 b.122.1.3 66712 c.26.1.5 66713 1kfeB 394 1.02e+01 c.79.1.1 77374 1k8yB 396 1.02e+01 c.79.1.1 72184 1qopB 396 1.02e+01 2tysB c.79.1.1 35270 1kfcB 397 1.03e+01 c.79.1.1 77372 1qoqB 396 1.03e+01 2tysB c.79.1.1 35271 1afqC 96 1.03e+01 5ptp 2tysB 397 1.03e+01 2tysB c.79.1.1 35272 1ubsB 397 1.03e+01 2tysB c.79.1.1 35273 1gg6C 97 1.03e+01 5ptp 1a50B 396 1.04e+01 2tysB c.79.1.1 35280 1ttqB 397 1.04e+01 2tysB c.79.1.1 35268 1beuB 397 1.04e+01 2tysB c.79.1.1 35274 1fuyB 396 1.04e+01 2tysB c.79.1.1 35279 1eg0B 148 1.07e+01 1pkp i.1.1.1 45808 1pkp 150 1.07e+01 1pkp d.14.1.1 37551 d.50.1.2 38787 1dv4E 145 1.07e+01 i.1.1.3 45875 1f6mA 320 1.11e+01 1trb c.3.1.5 30537 c.3.1.5 30538 1eavA 162 1.11e+01 c.57.1.1 64877 1uirA 314 1.12e+01 1o8qA 167 1.14e+01 c.57.1.1 86669 1tde 316 1.19e+01 1trb c.3.1.5 30531 c.3.1.5 30532 1cl0A 320 1.20e+01 1trb c.3.1.5 30535 c.3.1.5 30536 1kjvA 284 1.23e+01 b.1.1.2 77421 d.19.1.1 77422 1o0wA 252 1.26e+01 a.149.1.1 80751 d.50.1.1 80752 1o8nA 167 1.34e+01 c.57.1.1 86665 2pna 104 1.42e+01 1qadA d.93.1.1 40501 1ou0A 207 1.45e+01 1jl3A 139 1.46e+01 c.44.1.1 66826 1nowA 507 1.56e+01 c.1.8.6 85936 d.92.2.1 85937 1o7aA 515 1.57e+01 1tdf 316 1.63e+01 1trb c.3.1.5 30533 c.3.1.5 30534 1trb 320 1.64e+01 1trb c.3.1.5 30529 c.3.1.5 30530 1f6dA 376 1.70e+01 1f6dA c.87.1.3 35467 1vgvA 384 1.70e+01 1dlkB 230 1.87e+01 5ptp 1evyA 366 1.90e+01 1evyA a.100.1.6 18811 c.2.1.6 30215 1p2mA 245 1.91e+01 1gctA 241 2.02e+01 5ptp b.47.1.2 26021 1j0eA 341 2.06e+01 c.79.1.1 83906 1f2dA 341 2.10e+01 1f2dA c.79.1.1 35298 1l0qA 390 2.11e+01 b.1.3.1 77644 b.69.2.3 77645 1m0sA 219 2.13e+01 c.35.1.2 78351 d.58.40.1 78352 2admA 421 2.18e+01 2admA c.66.1.27 34238 1aqjA 421 2.18e+01 2admA c.66.1.27 34242 1nhcA 336 2.18e+01 1iy9A 275 2.24e+01 c.66.1.17 76943 1hx6A 394 2.24e+01 1cjdA b.121.2.1 58995 b.121.2.1 58996 1cx4A 305 2.27e+01 b.82.3.2 59099 b.82.3.2 59100 1g38A 393 2.31e+01 2admA c.66.1.27 60235 1ncnA 110 2.32e+01 b.1.1.1 85553 1qgc5 24 2.32e+01 1eysH 259 2.41e+01 6prcH b.41.1.1 25484 f.23.10.1 43517 1g62A 224 2.42e+01 1g61A d.126.1.1 41128 1j0dA 341 2.53e+01 c.79.1.1 83902 1jb0D 138 2.69e+01 1jb0D d.187.1.1 62823 1lwdA 413 2.76e+01 c.77.1.1 78265 1m2nA 249 2.83e+01 c.31.1.5 84756 1m2kA 249 2.86e+01 c.31.1.5 84754 1l2gA 287 3.02e+01 1m2gA 249 3.02e+01 c.31.1.5 84750 1orrA 347 3.02e+01 1jmaA 290 3.02e+01 b.1.1.1 63177 1m2jA 249 3.03e+01 c.31.1.5 84753 2mhaA 270 3.04e+01 1agdA b.1.1.2 20803 d.19.1.1 38291 1m2hA 249 3.05e+01 c.31.1.5 84751 1lk2A 274 3.06e+01 1namH 275 3.07e+01 b.1.1.2 85490 d.19.1.1 85491 1fo0H 276 3.07e+01 1agdA b.1.1.2 20797 d.19.1.1 38288 1n59A 276 3.08e+01 b.1.1.2 80008 d.19.1.1 80009 1o6dA 163 3.09e+01 1kj2H 277 3.09e+01 b.1.1.2 72563 d.19.1.1 72564 1iciA 256 3.10e+01 1iciA c.31.1.5 62266 1nanH 278 3.11e+01 b.1.1.2 85493 d.19.1.1 85494 1kj3H 279 3.11e+01 b.1.1.2 72569 d.19.1.1 72570 1fzoA 274 3.12e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1lekA 274 3.17e+01 b.1.1.2 73872 d.19.1.1 73873 1mwaH 275 3.18e+01 b.1.1.2 79566 d.19.1.1 79567 1v9fA 325 3.24e+01 1qyuA 349 3.24e+01 1m50A 365 3.25e+01 b.75.1.1 78632 1ksaA 366 3.27e+01 4bcl b.75.1.1 27969 1ps9A 671 3.30e+01 1gp1A 197 3.39e+01 1gp1A c.47.1.10 33059 1n9sA 93 3.42e+01 b.38.1.1 80351 1qqdA 273 3.43e+01 1agdA b.1.1.2 20769 d.19.1.1 38274 1im9A 276 3.45e+01 1agdA b.1.1.2 62582 d.19.1.1 62583 1culB 208 3.59e+01 1azsA d.58.29.1 39424 1g59A 468 3.59e+01 a.97.1.1 60257 c.26.1.1 60258 1cliA 345 3.59e+01 1cliA d.79.4.1 39816 d.139.1.1 41459 1j09A 468 3.65e+01 a.97.1.1 77025 c.26.1.1 77026 1azsB 212 3.66e+01 1azsA d.58.29.1 39423 1fzkA 274 3.74e+01 1agdA b.1.1.2 60149 d.19.1.1 60150 1s7qA 348 3.85e+01 1qdlB 195 3.86e+01 1qdlB c.23.16.1 31437 1ab8A 220 3.86e+01 1azsA d.58.29.1 39414 1ld9A 268 3.88e+01 1agdA b.1.1.2 20835 d.19.1.1 38307 1ldpH 272 3.93e+01 1agdA b.1.1.2 20839 d.19.1.1 38309 1e9oA 152 3.96e+01 1mfmA b.1.8.1 22227