# 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 1l7mA 211 9.39e-01 c.108.1.4 73664 1j97A 211 9.42e-01 1f5sA c.108.1.4 62753 1f5sA 211 1.07e+00 1f5sA c.108.1.4 59656 1yaiA 151 1.98e+00 1yaiA b.1.8.1 22289 1gcuA 295 2.06e+00 1gcuA c.2.1.3 30063 d.81.1.4 39978 1e19A 314 2.16e+00 1b7bA c.73.1.1 34967 1b3qA 379 2.43e+00 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1i58A 189 2.68e+00 1b3qA d.122.1.3 61773 1aoa 275 2.80e+00 1aoa a.40.1.1 17396 a.40.1.1 17397 1zug 71 2.90e+00 1r69 a.35.1.2 17041 1lc0A 294 3.09e+00 c.2.1.3 73823 d.81.1.4 73824 1tbgA 340 3.19e+00 1tbgA b.69.4.1 27649 1dguA 183 3.32e+00 1dguA a.39.1.5 17333 1kwhA 492 3.61e+00 c.94.1.1 68876 1skoA 143 3.68e+00 2cro 71 3.71e+00 1r69 a.35.1.2 17038 1gotB 340 4.39e+00 1tbgA b.69.4.1 27648 1jj2P 95 4.55e+00 1ffkN b.34.5.1 63101 1s72Q 96 4.88e+00 1ffkN 95 4.94e+00 1ffkN b.34.5.1 24606 1v7wA 807 5.27e+00 1fnd 314 8.15e+00 1fnc b.43.4.2 25626 c.25.1.1 31516 1fo1A 271 8.21e+00 1fo1A c.10.2.3 30869 d.58.7.2 39213 1cs0B 382 8.89e+00 1c3oB c.8.3.1 30740 c.23.16.1 31417 1fnc 314 8.92e+00 1fnc b.43.4.2 25627 c.25.1.1 31517 1f60B 94 8.98e+00 1b64 d.58.12.1 39307 1g7cB 94 9.12e+00 1b64 d.58.12.1 39308 1fnb 314 9.49e+00 1fnc b.43.4.2 25628 c.25.1.1 31518 1ir3A 306 9.64e+00 1fmk d.144.1.7 41702 1j1nA 492 9.86e+00 c.94.1.1 83978 1tph1 247 1.00e+01 1amk 1ffyA 917 1.03e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 1.03e+01 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 1fnf 368 1.10e+01 1fnf b.1.2.1 21972 b.1.2.1 21973 b.1.2.1 21974 b.1.2.1 21975 1k0wA 231 1.15e+01 c.74.1.1 77220 1bdo 80 1.21e+01 1bdo b.84.1.1 28214 1a9xB 379 1.21e+01 1c3oB c.8.3.1 30732 c.23.16.1 31409 1c3oB 382 1.22e+01 1c3oB c.8.3.1 30744 c.23.16.1 31421 1k3rA 268 1.35e+01 b.40.4.10 72018 c.116.1.2 72019 1jk0B 345 1.46e+01 a.25.1.2 63143 1ush 550 1.50e+01 1ush d.114.1.1 40923 d.159.1.2 42079 1sv6A 269 1.65e+01 1gveA 327 1.67e+01 c.1.7.1 70597 1fljA 260 1.69e+01 2cba b.74.1.1 27954 1qfhA 212 1.78e+01 1qfhA b.1.18.10 21893 b.1.18.10 21894 8fabA 212 1.78e+01 8fabA b.1.1.1 19772 b.1.1.2 20882 1r6jA 82 1.83e+01 b.36.1.1 -3732 1rzfL 213 1.84e+01 b.1.1.1 -2147 b.1.1.2 -2438 1nteA 82 1.87e+01 b.36.1.1 86163 3crd 100 1.91e+01 3crd a.77.1.3 18429 1f8xA 157 2.10e+01 1f8xA c.23.14.1 31397 1jdiA 231 2.11e+01 c.74.1.1 66551 1cx4A 305 2.23e+01 b.82.3.2 59099 b.82.3.2 59100 1bj7 156 2.24e+01 1bj7 b.60.1.1 27113 1id0A 152 2.24e+01 d.122.1.3 66111 1erjA 393 2.26e+01 1erjA b.69.4.1 27660 1r2rA 248 2.33e+01 c.1.1.1 -5147 1mw9X 592 2.33e+01 e.10.1.1 -11986 1oalA 151 2.45e+01 b.1.8.1 86739 1jykA 254 2.52e+01 c.68.1.13 67458 1fehA 574 2.57e+01 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1n99A 166 2.57e+01 b.36.1.1 85459 b.36.1.1 85460 1h54A 754 2.66e+01 a.102.1.4 60634 b.30.5.3 60635 1st9A 143 2.70e+01 c.47.1.10 -7503 1s5lB 510 2.83e+01 1vokA 200 2.95e+01 1ytbA d.129.1.1 41242 d.129.1.1 41243 1jr2A 286 2.99e+01 c.113.1.1 67111 3lck 271 3.02e+01 1fmk d.144.1.7 41686 1ubi 76 3.03e+01 1ubi d.15.1.1 37584 2fokA 579 3.05e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1f8yA 157 3.17e+01 1f8xA c.23.14.1 31395 1umgA 362 3.21e+01 1ehiA 377 3.31e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1gw5S 142 3.35e+01 d.110.4.2 70633 1jztA 246 3.37e+01 c.104.1.1 63319 1tfe 145 3.41e+01 1tfe d.43.1.1 38680 1ux5A 411 3.42e+01 unknown_sccs -1768 1vjzA 341 3.44e+01 c.1.8.3 -5318 1dq3A 454 3.49e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1qpcA 279 3.50e+01 1fgkA d.144.1.7 41685 1yal 218 3.54e+01 1cs8A d.3.1.1 37025 1hfh 120 3.54e+01 1hfh g.18.1.1 44821 g.18.1.1 44822 1bfi 112 3.57e+01 1qadA d.93.1.1 40499 2sas 185 3.58e+01 2sas a.39.1.5 17258 1i1gA 141 3.69e+01 a.4.5.32 65982 d.58.4.2 65983 1j6pA 418 3.71e+01 b.92.1.4 77089 c.1.9.9 77090 1ubq 76 3.75e+01 1ubi d.15.1.1 37585 1pxwA 128 3.77e+01 d.79.3.1 -10406 1nqeA 594 3.82e+01 f.4.3.3 86027 4dpvZ 584 3.89e+01 2cas b.121.5.2 23377 1scfA 273 3.97e+01 1exzA a.26.1.2 16873 1ld4M 439 4.00e+01 i.6.1.1 77898