# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1g79A 218 1.67e-06 1ci0A b.45.1.1 25752 1dnlA 199 1.81e-06 1ci0A b.45.1.1 25753 1nrgA 261 4.53e-05 b.45.1.1 80694 1axj 122 1.91e-04 1axj b.45.1.1 25749 1flmA 122 9.18e-04 1axj b.45.1.1 25747 1ci0A 228 1.72e-02 1ci0A b.45.1.1 25750 1tin 69 1.84e+00 2sniI d.40.1.1 38580 1plq 258 2.48e+00 1plq d.131.1.2 41388 d.131.1.2 41389 1plr 258 2.51e+00 1plq d.131.1.2 41390 d.131.1.2 41391 1j71A 334 3.40e+00 1eagA b.50.1.2 62669 1ko3A 230 3.58e+00 d.157.1.1 -11454 1ytbA 180 4.25e+00 1ytbA d.129.1.1 41276 d.129.1.1 41277 1r6lA 239 4.43e+00 d.14.1.4 -9057 d.101.1.1 -10747 1t5yA 190 4.52e+00 1cdwA 179 4.83e+00 1ytbA d.129.1.1 41212 d.129.1.1 41213 1qnaA 200 6.65e+00 1ytbA d.129.1.1 41226 d.129.1.1 41227 1tbaB 180 7.04e+00 1ytbA d.129.1.1 41286 d.129.1.1 41287 1f1xA 322 1.03e+01 d.32.1.3 83208 d.32.1.3 83209 1cf3A 583 1.05e+01 1gpeA c.3.1.2 30385 d.16.1.1 37949 1vokA 200 1.15e+01 1ytbA d.129.1.1 41242 d.129.1.1 41243 1gal 583 1.15e+01 1gpeA c.3.1.2 30386 d.16.1.1 37950 1vdeA 454 1.42e+01 1vdeA b.86.1.2 28378 d.95.2.2 40581 d.95.2.2 40582 1ytbB 180 1.42e+01 1ytbA d.129.1.1 41278 d.129.1.1 41279 1gci 269 1.55e+01 1gci c.41.1.1 32503 1f0iA 504 1.64e+01 1f0iA d.136.1.2 59566 d.136.1.2 59567 1azo 232 1.73e+01 1azo c.52.1.14 33329 1uocA 289 1.89e+01 unknown_sccs -7671 1iq8A 582 1.91e+01 b.122.1.1 83074 c.1.20.1 71270 d.17.6.1 83075 1orrA 347 1.96e+01 c.2.1.2 -5776 1v0wA 506 1.97e+01 1rkqA 282 2.21e+01 c.108.1.10 -6847 1a6r 471 2.25e+01 3gcb d.3.1.1 37033 1qk4A 233 2.26e+01 1qk3A c.61.1.1 34037 3gcb 470 2.27e+01 3gcb d.3.1.1 37032 1nnt 328 2.34e+01 1nnt c.94.1.2 35884 1b6e 128 2.34e+01 1b6e d.169.1.1 42326 1d8hA 311 2.38e+01 1d8iA d.63.1.1 39544 1efyA 350 2.55e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1knqA 175 2.63e+01 c.37.1.17 72786 1fy7A 278 2.64e+01 1fy7A d.108.1.1 40817 1fthA 122 2.67e+01 d.150.1.2 60028 1ejhA 190 2.67e+01 1ejhA d.86.1.1 40147 1a26 361 2.71e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1roaA 122 2.79e+01 1gcb 454 2.82e+01 3gcb d.3.1.1 37034 1ea0A 1479 2.95e+01 b.80.4.1 64854 c.1.4.1 64855 d.153.1.1 64856 1kuuA 202 3.01e+01 d.153.2.1 73019 1qbeA 132 3.12e+01 1qbeA d.85.1.1 40138 1e8oB 106 3.20e+01 1914 d.49.1.1 38775 1ibvB 229 3.22e+01 1pyaB 228 3.24e+01 1pyaB 1exmA 405 3.31e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1j5wA 298 3.40e+01 d.104.1.1 71589 1k5dC 386 3.42e+01 c.10.1.2 68170 1kllA 130 3.47e+01 d.32.1.2 72720 1gt7A 274 3.63e+01 c.74.1.1 70398 1lgr 468 3.64e+01 1lgr d.15.9.1 37837 d.128.1.1 41167 1bd0A 388 3.65e+01 1bd0A b.49.2.2 26480 c.1.6.1 28642 1sftA 388 3.67e+01 1bd0A b.49.2.2 26482 c.1.6.1 28644 2lgsA 468 3.68e+01 1lgr d.15.9.1 37838 d.128.1.1 41168 1j5qA 437 3.71e+01 b.121.2.3 77084 b.121.2.3 77085 1fo5A 85 3.79e+01 1fo5A c.47.1.1 59922 1ha3A 405 3.88e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1lw6E 281 3.90e+01 c.41.1.1 74293 1f52A 468 3.91e+01 1lgr d.15.9.1 37839 d.128.1.1 41169 1bio 228 3.93e+01 5ptp b.47.1.2 26314 1nr4A 71 3.97e+01 d.9.1.1 -8957 1ojrA 274 3.99e+01 c.74.1.1 -8441