# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1pw4A 451 1.38e-28 f.38.1.1 95198 2gfpA 375 2.31e-26 1pv6A 417 1.39e-11 f.38.1.2 95151 2cfqA 417 2.84e-11 1vl6A 388 1.24e+00 c.2.1.7 108724 c.58.1.3 108725 2a65A 519 2.73e+00 1w5qA 337 4.92e+00 1gzgA 337 4.95e+00 c.1.10.3 70805 1w5nA 337 5.25e+00 2iufA 688 5.35e+00 1kgnA 329 5.58e+00 a.25.1.2 68584 2c2aA 258 6.74e+00 1b4kA 337 6.75e+00 1b4kA c.1.10.3 29184 1b5sA 242 7.01e+00 1eaf c.43.1.1 32626 1eysH 259 8.42e+00 6prcH b.41.1.1 25484 f.23.10.1 43517 1qwlA 505 8.83e+00 e.5.1.1 96483 1kimA 366 8.86e+00 1qhiA c.37.1.1 31864 2cm2A 304 1.04e+01 1qhiA 366 1.10e+01 1qhiA c.37.1.1 31860 1sczA 233 1.12e+01 c.43.1.1 98802 1sesA 421 1.25e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 2ki5A 366 1.32e+01 1qhiA c.37.1.1 31862 1reqD 637 1.54e+01 1reqB c.1.19.1 29623 c.23.6.1 31250 3vtk 343 1.57e+01 1qhiA c.37.1.1 31884 1d8iA 311 1.61e+01 1d8iA d.63.1.1 39541 1qi9A 556 1.64e+01 1qhbA a.111.1.2 19053 1sy7A 715 1.67e+01 2hb6A 491 1.70e+01 7reqB 637 1.70e+01 1reqB c.1.19.1 29617 c.23.6.1 31244 1wgzA 510 1.71e+01 1kinA 366 1.74e+01 2hc9A 491 1.76e+01 1e2o 233 1.78e+01 1eaf c.43.1.1 32631 1eulA 994 1.79e+01 1eulA 2if1 126 1.79e+01 2if1 d.64.1.1 39547 1tbgA 340 1.90e+01 1tbgA b.69.4.1 27649 2c82A 413 1.95e+01 1k87A 669 1.97e+01 a.176.1.1 77286 c.1.23.2 77287 1reqB 637 1.98e+01 1reqB c.1.19.1 29621 c.23.6.1 31248 1wpgA 994 2.04e+01 1d8hA 311 2.15e+01 1d8iA d.63.1.1 39544 1cjl 312 2.21e+01 1cs8A d.3.1.1 37066 1wchA 315 2.25e+01 2bm8A 236 2.28e+01 1a4eA 488 2.33e+01 1cf9A e.5.1.1 42806 1g6oA 330 2.37e+01 1g6oA c.37.1.11 32430 1gotB 340 2.38e+01 1tbgA b.69.4.1 27648 1cs8A 316 2.38e+01 1cs8A d.3.1.1 37065 1a5y 330 2.44e+01 1pty c.45.1.2 32673 1e2kA 331 2.48e+01 1qhiA c.37.1.1 31854 2bcjB 340 2.49e+01 1o4sA 389 2.49e+01 c.67.1.1 86620 1jjyA 636 2.51e+01 1jjyA 1a0rB 340 2.56e+01 1tbgA b.69.4.1 27658 1dceA 567 2.79e+01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 2bzpA 226 2.83e+01 2gnxA 365 2.94e+01 1sr9A 644 3.00e+01 a.5.7.1 105960 c.1.10.5 105961 d.270.1.1 105962 1p2zA 968 3.01e+01 b.121.2.2 93962 b.121.2.2 93963 5reqA 727 3.04e+01 1reqA c.1.19.1 29632 c.23.6.1 31259 1p30A 952 3.14e+01 b.121.2.2 93964 b.121.2.2 93965 1reqA 727 3.21e+01 1reqA c.1.19.1 29620 c.23.6.1 31247 1mhyB 395 3.23e+01 1mtyB a.25.1.2 16781 1aym1 285 3.23e+01 1aym1 1akaA 401 3.29e+01 1ajsA c.67.1.1 34258 1yymG 313 3.31e+01 1dx5I 118 3.48e+01 1dx5I g.3.11.1 44302 g.3.11.1 44303 g.3.11.1 44304 1bh5A 183 3.48e+01 1qipA d.32.1.1 38476 1ap8 213 3.50e+01 1ap8 d.86.1.1 40151 1b4eA 323 3.51e+01 1b4kA c.1.10.3 29186 1ruxA 951 3.51e+01 1dhx 1tmxA 293 3.53e+01 1ohgA 282 3.54e+01 d.183.1.1 93018 7aatA 401 3.58e+01 1ajsA c.67.1.1 34250 1zodA 433 3.62e+01 1su4A 994 3.63e+01 b.82.7.1 98993 c.108.1.7 98994 d.220.1.1 98995 f.33.1.1 98996 1euvA 221 3.63e+01 1euvA d.3.1.7 37133 1th0A 226 3.66e+01 d.3.1.7 106903 1ek9A 428 3.68e+01 1ek9A f.5.1.1 43809 1ireA 204 3.81e+01 d.149.1.1 76769 2hnp 321 3.90e+01 1pty c.45.1.2 32678 1ugpA 203 3.99e+01 d.149.1.1 107831 2bolA 314 4.00e+01