# 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 1gdgA 293 8.05e-03 1kw3B 292 8.54e-03 d.32.1.3 77549 d.32.1.3 77550 1dhy 292 6.70e-02 1han d.32.1.3 38504 d.32.1.3 38505 1lkdA 297 7.66e-02 d.32.1.3 78059 d.32.1.3 78060 1han 297 9.40e-02 1han d.32.1.3 38506 d.32.1.3 38507 1lgtA 297 9.92e-02 d.32.1.3 77956 d.32.1.3 77957 1qqgA 264 7.70e+00 1qqgA b.55.1.2 26987 b.55.1.2 26988 1egiA 147 9.04e+00 1eggA d.169.1.1 42331 1eggA 147 9.84e+00 1eggA d.169.1.1 42333 1abrB 267 1.22e+01 1abrB b.42.2.1 25563 b.42.2.1 25564 1kllA 130 1.24e+01 d.32.1.2 72720 1nb8A 353 1.24e+01 d.3.1.9 80385 1vjnA 220 1.35e+01 unknown_sccs -11458 1ewkA 490 1.54e+01 1ewkA c.93.1.1 35712 1q0pA 223 1.61e+01 c.62.1.1 -7979 1hl9A 449 1.70e+01 unknown_sccs -4694 unknown_sccs -5365 1jc4A 148 1.84e+01 1jc4A d.32.1.4 62863 1g3qA 237 1.85e+01 1hyqA c.37.1.10 60237 1bed 181 1.98e+01 1fvkA unknown_sccs -7444 1hl8A 449 2.06e+01 unknown_sccs -4690 unknown_sccs -5361 1l9vA 317 2.37e+01 d.13.2.1 73760 d.216.1.1 73761 1s6yA 450 2.45e+01 1nfdA 203 2.47e+01 1tcrA b.1.1.1 20612 b.1.1.2 21550 1jj2Q 154 2.47e+01 1ffkO d.55.1.1 63102 1s72R 155 2.48e+01 1na3A 91 2.52e+01 k.38.1.1 85481 1f9zA 135 2.57e+01 1qipA d.32.1.1 38484 1q9uA 130 2.58e+01 unknown_sccs -11025 1ge9A 184 2.60e+01 1dd5A d.67.3.1 60463 1je3A 97 2.65e+01 d.68.3.3 71637 1ej5A 107 2.69e+01 1ej5A a.68.1.1 18268 4ubpB 126 2.69e+01 1ubpB b.85.3.1 28345 1fjgL 135 2.77e+01 1fjfL b.40.4.5 25346 1rzjG 321 2.82e+01 d.172.1.1 -11666 1gs5A 258 2.92e+01 c.73.1.2 70395 1ffkO 154 3.06e+01 1ffkO d.55.1.1 38899 1ycsB 239 3.10e+01 1ycsB b.34.2.1 24553 d.211.1.1 19155 1hxmD 242 3.17e+01 b.1.1.1 61373 b.1.1.2 61374 1f3yA 165 3.24e+01 d.113.1.1 59635 1ubpB 122 3.29e+01 1ubpB b.85.3.1 28346 1kdoA 227 3.29e+01 c.37.1.1 68478 1q7bA 244 3.35e+01 c.2.1.2 -5826 1gc1G 321 3.44e+01 1gc1G d.172.1.1 42493 1ionA 243 3.47e+01 c.37.1.10 62633 1l0wA 580 3.57e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1e42A 258 3.62e+01 1e42A b.1.10.1 22316 d.105.1.1 40792 1kqzA 273 3.83e+01 c.1.8.5 68844 1mpyA 307 3.86e+01 1mpyA d.32.1.3 38508 d.32.1.3 38509 1aisB 200 3.88e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1akz 223 3.93e+01 3eugA c.18.1.1 31007 1g9mG 321 3.94e+01 1gc1G d.172.1.1 42492 1kqyA 273 3.98e+01 c.1.8.5 68843 1qsaA 618 3.99e+01 1qsaA a.118.5.1 19182 d.2.1.6 36988