# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1d5wC 126 1.69e-01 1dbwA c.23.1.1 31101 1dbwA 126 4.27e-01 1dbwA c.23.1.1 31095 1dckA 126 5.48e-01 1dbwA c.23.1.1 31097 1fggA 261 1.25e+00 1fggA c.68.1.7 34576 1kwsA 261 1.25e+00 1pcfA 66 1.52e+00 1pcfA d.18.1.1 38142 1hf2A 210 2.06e+00 1hf2A b.80.3.1 60992 c.102.1.1 60993 1jjfA 268 2.80e+00 c.69.1.2 66765 2dkb 433 2.83e+00 2dkb c.67.1.4 34438 1d7uA 433 2.84e+00 2dkb c.67.1.4 34439 1bouB 302 3.76e+00 1bouB c.56.6.1 33859 2aaa 484 4.02e+00 7taa b.71.1.1 27777 c.1.8.1 28764 1delA 241 5.11e+00 1dekA c.37.1.1 31844 1nif 340 5.17e+00 1nif b.6.1.3 23048 b.6.1.3 23049 1dekA 241 5.29e+00 1dekA c.37.1.1 31842 1fgjA 546 6.38e+00 1fgjA a.138.1.3 19679 1j5eK 129 6.52e+00 1fjgK 129 7.94e+00 1fjfK c.55.4.1 33733 1pfkA 320 9.24e+00 3pfk c.89.1.1 35575 1liiA 363 9.40e+00 1thm 279 1.04e+01 1gci c.41.1.1 32544 1kzhA 555 1.16e+01 2pfkA 320 1.18e+01 3pfk c.89.1.1 35577 1ekeA 230 1.26e+01 1ekeA c.55.3.1 33572 1psdA 409 1.27e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1hzpA 335 1.34e+01 1hn9A c.95.1.1 61455 c.95.1.1 61456 1ef8A 261 1.51e+01 1ef8A c.14.1.3 30921 1behA 187 1.58e+01 1a44 b.17.1.1 23700 1fezA 256 1.62e+01 1fezA c.108.1.3 43343 1azwA 313 1.67e+01 1qtrA c.69.1.7 34658 1a44 185 1.82e+01 1a44 b.17.1.1 23704 3pga1 337 1.84e+01 4pgaA 1b9yC 246 1.86e+01 1b9yC c.47.1.6 33052 1qguB 519 1.89e+01 1qguB c.92.2.3 35626 1k78A 149 1.89e+01 a.4.1.5 68255 a.4.1.5 68256 1pvdA 537 1.92e+01 1zpdA c.31.1.3 31737 c.36.1.1 31777 c.36.1.1 31778 2trcP 217 2.02e+01 1b9yC c.47.1.6 33051 1maz 221 2.06e+01 1maz f.1.4.1 43393 1ewkA 490 2.07e+01 1ewkA c.93.1.1 35712 1g9oA 91 2.14e+01 1pdr b.36.1.1 60400 1iufA 144 2.23e+01 1j5eB 256 2.25e+01 1fiuA 286 2.29e+01 1fiuA c.52.1.10 33317 6pfkA 319 2.38e+01 3pfk c.89.1.1 35583 1kgsA 225 2.39e+01 a.4.6.1 68596 c.23.1.1 68597 1cvrA 435 2.40e+01 1cvrA b.1.1.5 21949 c.17.1.2 31006 1fiqC 763 2.41e+01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1i3kA 348 2.55e+01 1xel c.2.1.2 61595 1ek6A 348 2.63e+01 1xel c.2.1.2 29800 1d3yA 301 2.64e+01 1d3yA e.12.1.1 43252 3pfk 319 2.67e+01 3pfk c.89.1.1 35581 1dmlA 319 2.70e+01 1dmlA d.131.1.2 41380 d.131.1.2 41381 1fbnA 230 2.78e+01 1fbnA c.66.1.3 34181 1gn0A 108 2.79e+01 c.46.1.3 65358 1fo4A 1332 2.82e+01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1kay 381 2.84e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1agx 331 2.85e+01 4pgaA c.88.1.1 35564 1jagA 241 2.91e+01 c.37.1.1 66463 1gzcA 239 3.00e+01 1jilA 420 3.02e+01 c.26.1.1 66745 1jscA 630 3.07e+01 c.31.1.3 67224 c.36.1.1 67225 c.36.1.1 67226 1iirA 415 3.14e+01 1iirA c.87.1.5 62453 1ntr 124 3.16e+01 1dbwA c.23.1.1 31092 1ba1 386 3.24e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1bupA 386 3.24e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1nox 205 3.26e+01 1nox d.90.1.1 40242 1qlwA 328 3.28e+01 1qlwA c.69.1.15 34722 1qh8B 519 3.29e+01 1qguB c.92.2.3 35634 1fjgB 256 3.29e+01 1fjfB c.23.15.1 31400 1jr3A 373 3.32e+01 a.80.1.1 63245 c.37.1.13 63246 1jsrA 327 3.45e+01 c.88.1.1 67237 4pgaA 337 3.53e+01 4pgaA c.88.1.1 35565 1fg7A 356 3.65e+01 1gewA c.67.1.1 59819 1gt91 357 3.73e+01 1c4oA 664 3.89e+01 1d2mA c.37.1.13 32415 c.37.1.13 32416 1ble 163 3.91e+01 1ble c.38.1.1 32475 1vhiA 142 3.91e+01 1b3tA d.58.8.1 39230 1fil 139 3.96e+01 1pne d.110.1.1 40869 2ts1 419 3.99e+01 2ts1 c.26.1.1 31564