# List of top-scoring protein chains for t2k-100-40-40-str2+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 1jmeA 455 2.70e-02 a.104.1.1 66885 6prcM 323 3.99e-01 6prcM f.26.1.1 43435 2bmhA 455 4.27e-01 1bu7A a.104.1.1 18941 1dxrM 323 5.26e-01 6prcM f.26.1.1 43432 1bu7A 455 5.87e-01 1bu7A a.104.1.1 18937 1a7aA 432 6.70e-01 1b3rA c.2.1.4 30104 c.23.12.3 31364 1jpzA 473 7.01e-01 a.104.1.1 67069 2pgd 482 9.49e-01 2pgd a.100.1.1 18778 c.2.1.6 30190 1li4A 432 1.66e+00 c.2.1.4 84616 c.23.12.3 84617 1j7nA 776 2.15e+00 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1b3rA 431 2.72e+00 1b3rA c.2.1.4 30106 c.23.12.3 31366 1oaoC 729 2.73e+00 e.26.1.3 86746 1d4fA 431 3.37e+00 1b3rA c.2.1.4 30110 c.23.12.3 31370 1jb0A 755 3.96e+00 1jb0A f.29.1.1 62820 1i6iA 366 4.26e+00 1bg2 c.37.1.9 61844 1mjgM 729 4.83e+00 e.26.1.3 79204 1aoa 275 5.06e+00 1aoa a.40.1.1 17396 a.40.1.1 17397 1j93A 353 5.26e+00 c.1.22.1 66454 1qo7A 394 5.97e+00 1qo7A c.69.1.11 34697 1vfvA 366 6.26e+00 1uynX 308 6.41e+00 1i5sA 367 6.47e+00 1bg2 c.37.1.9 61822 2hmx 133 8.06e+00 1hiwA a.61.1.1 18129 1h21A 247 9.11e+00 a.138.1.3 76510 1aroP 883 9.26e+00 1cezA e.8.1.3 43112 1q41A 424 9.44e+00 6prcH 258 9.46e+00 6prcH b.41.1.1 25457 f.23.10.1 43436 1dxrH 258 9.87e+00 6prcH b.41.1.1 25456 f.23.10.1 43433 1ca1 370 1.02e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1q5nA 454 1.12e+01 1ddcA 247 1.20e+01 1ddcA 1j1bA 420 1.24e+01 1h38D 883 1.67e+01 e.8.1.3 76628 1t7pA 698 1.67e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1fqyA 269 1.69e+01 1fqyA f.19.1.1 43649 1wer 334 1.73e+01 1wer a.116.1.2 19108 1b8fA 509 1.82e+01 1b8fA a.127.1.2 19434 1h38B 883 1.86e+01 e.8.1.3 76626 1fi4A 416 1.89e+01 1fi4A d.14.1.5 59847 d.58.26.2 59848 1kmnD 424 1.94e+01 1adjA c.51.1.1 33185 d.104.1.1 40734 1tlqA 189 1.95e+01 1h38C 883 1.96e+01 e.8.1.3 76627 1iznB 277 1.98e+01 e.43.1.2 83848 1dkqA 410 2.05e+01 1dklA c.60.1.3 33998 1j7nB 776 2.11e+01 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1gxyA 226 2.19e+01 d.166.1.3 76380 1yts 278 2.20e+01 1ytw c.45.1.2 32690 1dkmA 410 2.22e+01 1dklA c.60.1.3 34000 1f74A 293 2.22e+01 1nal3 c.1.10.1 29079 3vtk 343 2.31e+01 1qhiA c.37.1.1 31884 1f6kA 293 2.34e+01 1nal3 c.1.10.1 29081 1odoA 408 2.45e+01 1yptA 305 2.49e+01 1ytw c.45.1.2 32686 1f24A 402 2.63e+01 1rom a.104.1.1 18953 1ukvG 453 2.65e+01 1l4sA 112 2.72e+01 d.204.1.1 77693 1ei6A 406 2.72e+01 1itzA 675 2.77e+01 c.36.1.6 76798 c.36.1.10 76797 c.48.1.1 76799 1ytw 306 2.85e+01 1ytw c.45.1.2 32689 1jkvA 266 2.88e+01 a.25.1.2 71719 4xiaA 393 2.97e+01 4xis c.1.15.3 29439 1x9mA 698 3.05e+01 1gkmA 509 3.14e+01 a.127.1.2 70228 1cmnA 402 3.26e+01 1rom a.104.1.1 18958 2lbd 267 3.60e+01 2lbd a.123.1.1 19287 1vkhA 273 3.65e+01 1o9iA 266 3.89e+01 5eat 548 3.90e+01 5eat a.102.4.1 18853 a.128.1.3 19445 1bgc 174 3.93e+01 1bgc a.26.1.1 16822 1pot 325 3.96e+01 1pot c.94.1.1 35807