# List of top-scoring protein chains for T0226.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 1c7qA 445 2.26e-01 2pgi c.80.1.2 35307 1o58A 303 8.29e-01 c.79.1.1 -8503 1j42A 189 1.77e+00 c.23.16.2 -6513 1pe0A 197 1.77e+00 c.23.16.2 88045 1p5fA 189 1.83e+00 c.23.16.2 -6508 1pdvA 197 1.85e+00 c.23.16.2 88036 1f50A 227 2.42e+00 1c3wA f.13.1.1 43406 1fbkA 248 2.70e+00 1c3wA f.13.1.1 43426 1mgyA 249 2.72e+00 f.13.1.1 84959 1jv6A 249 2.76e+00 f.13.1.1 67346 1brrA 247 3.06e+00 1c3wA f.13.1.1 43421 1cwqA 248 3.07e+00 1c3wA f.13.1.1 43412 1p8hA 249 3.07e+00 f.13.1.1 87944 1qhjA 248 3.07e+00 1c3wA f.13.1.1 43409 1s54A 227 3.08e+00 f.13.1.1 -12083 1e0pA 228 3.08e+00 1c3wA f.13.1.1 43416 1s51A 227 3.09e+00 f.13.1.1 -12077 1r84A 232 3.11e+00 f.13.1.1 -12064 1kgbA 231 3.11e+00 f.13.1.1 68581 1s52A 227 3.12e+00 f.13.1.1 -12079 1p8iA 249 3.12e+00 f.13.1.1 87945 1s53A 227 3.13e+00 f.13.1.1 -12081 1m0kA 262 3.14e+00 f.13.1.1 78344 1pxrA 249 3.21e+00 f.13.1.1 -12065 1l0mA 212 3.23e+00 f.13.1.1 73402 1p8uA 249 3.38e+00 f.13.1.1 87983 1c8rA 249 3.49e+00 1c3wA f.13.1.1 43407 1pxsA 249 3.54e+00 f.13.1.1 -12067 1q5jA 249 4.01e+00 f.13.1.1 -12075 1ojt 482 4.98e+00 1lvl c.3.1.5 30581 c.3.1.5 30582 d.87.1.1 40212 1bhy 482 4.98e+00 1lvl c.3.1.5 30583 c.3.1.5 30584 d.87.1.1 40213 1eujA 166 5.36e+00 1eujA b.40.4.4 25316 1fl0A 171 5.36e+00 1eujA b.40.4.4 25315 1e7zA 174 5.45e+00 1eujA b.40.4.4 25318 1moq 368 5.81e+00 1moq c.80.1.1 35302 1jxaA 608 6.77e+00 c.80.1.1 67407 d.153.1.1 67408 1j0aA 325 7.25e+00 c.79.1.1 83871 1m65A 245 7.87e+00 c.6.3.1 84847 1b6sA 355 9.13e+00 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1b6rA 355 9.42e+00 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1cc1S 283 1.13e+01 2frvA e.19.1.1 43313 1typA 487 1.29e+01 3grs c.3.1.5 30509 c.3.1.5 30510 d.87.1.1 40186 1tytB 486 1.31e+01 3grs c.3.1.5 30515 c.3.1.5 30516 d.87.1.1 40189 2tprA 490 1.31e+01 3grs c.3.1.5 30505 c.3.1.5 30506 d.87.1.1 40184 1tytA 487 1.31e+01 3grs c.3.1.5 30513 c.3.1.5 30514 d.87.1.1 40188 1fecA 490 1.32e+01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1dqsA 393 1.42e+01 1dqsA e.22.1.1 43347 1bxnA 485 1.49e+01 1burA c.1.14.1 29376 d.58.9.1 39282 1aogA 485 1.57e+01 3grs c.3.1.5 30517 c.3.1.5 30518 d.87.1.1 40190 1bzlA 486 1.57e+01 3grs c.3.1.5 30521 c.3.1.5 30522 d.87.1.1 40192 1gxfA 492 1.58e+01 c.3.1.5 -6042 c.3.1.5 -6043 d.87.1.1 -10498 1lnqA 336 1.59e+01 c.2.1.9 74049 f.14.1.1 74050 1ndaA 491 1.68e+01 3grs c.3.1.5 30525 c.3.1.5 30526 d.87.1.1 40194 1fsaA 337 1.92e+01 1frpA e.7.1.1 42903 5fbpA 335 2.02e+01 1frpA e.7.1.1 42873 1kz8A 337 2.02e+01 e.7.1.1 77633 1frpA 335 2.10e+01 1frpA e.7.1.1 42875 1r9oA 477 2.11e+01 1nj8A 459 2.15e+01 c.51.1.1 85769 d.68.5.1 85770 d.104.1.1 85771 1levA 337 2.18e+01 e.7.1.1 77911 1lwdA 413 2.19e+01 c.77.1.1 78265 1fj9A 337 2.24e+01 1frpA e.7.1.1 42907 1c3wA 222 2.28e+01 1c3wA f.13.1.1 43405 1nuyA 337 2.28e+01 e.7.1.1 86213 1ipjA 416 2.37e+01 b.82.1.2 71258 b.82.1.2 71259 1ny6A 267 2.57e+01 c.37.1.20 -7221 1dznA 560 2.64e+01 1qltA d.58.32.1 39471 d.145.1.1 41734 1e0yA 560 2.65e+01 1qltA d.58.32.1 39467 d.145.1.1 41730 1vimA 200 2.67e+01 c.80.1.3 -8532 1gynA 358 2.70e+01 c.1.10.2 83385 1dosA 358 2.73e+01 1dosA c.1.10.2 29175 1nr6A 473 2.84e+01 a.104.1.1 -1464 1ufoA 238 2.98e+01 unknown_sccs -8303 2mspA 126 3.03e+01 1mspA b.1.11.2 22335 1fnnA 389 3.10e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1lu1 253 3.21e+01 1led b.29.1.1 24116 1rdzA 337 3.24e+01 1frpA e.7.1.1 42882 1v7cA 351 3.26e+01 c.79.1.1 -8512 1a87 321 3.28e+01 1a87 f.1.1.1 43380 1tikA 213 3.29e+01 1rg9A 383 3.41e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1ipkA 416 3.47e+01 b.82.1.2 71264 b.82.1.2 71265 7ceiB 206 3.63e+01 1bxiB d.4.1.1 37134 1o9rA 162 3.95e+01 a.25.1.1 86706