# List of top-scoring protein chains for t2k-w0.5 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 1kxlA 199 6.33e-02 1sgfA 238 2.02e+00 5ptp b.47.1.2 26308 1jvxA 372 2.58e+00 c.94.1.1 63307 1hvc 203 2.66e+00 1hvc b.50.1.1 26614 1jvyA 372 2.68e+00 c.94.1.1 63308 1mdq 371 2.72e+00 4mbp c.94.1.1 35783 1d5aA 733 3.20e+00 1tgoA c.55.3.5 33723 e.8.1.1 43012 1arb 268 3.33e+00 1arb b.47.1.1 25766 1ezoA 370 3.91e+00 4mbp c.94.1.1 59539 1fqaA 370 3.91e+00 4mbp c.94.1.1 59984 4mbp 370 3.92e+00 4mbp c.94.1.1 35777 1anf 370 3.92e+00 4mbp c.94.1.1 35776 1omp 370 3.92e+00 4mbp c.94.1.1 35778 1mh3A 421 4.03e+00 1a7lA 389 4.13e+00 4mbp c.94.1.1 35787 1mpb 370 4.13e+00 4mbp c.94.1.1 35780 1mg1A 450 4.24e+00 4mbp c.94.1.1 35790 h.3.2.1 45753 1fgjA 546 4.70e+00 1fgjA a.138.1.3 19679 1giyE 338 5.46e+00 i.1.1.1 60552 1nfdE 212 5.52e+00 8fabA b.1.1.1 20186 b.1.1.2 21202 1hsjA 487 6.39e+00 4mbp a.4.5.28 61237 c.94.1.1 61238 1hsoA 374 6.41e+00 2ohxA b.35.1.2 24731 c.2.1.1 29747 1ho8A 480 6.67e+00 1ho8A a.118.1.9 61107 1tgoA 773 8.37e+00 1tgoA c.55.3.5 33721 e.8.1.1 43010 1i50A 1733 9.55e+00 e.29.1.1 61754 7adh 374 1.03e+01 b.35.1.2 24708 c.2.1.1 29724 1ikoP 178 1.06e+01 1g6lA 203 1.08e+01 1hvc b.50.1.1 26559 b.50.1.1 26560 1lv1A 203 1.15e+01 1lml 478 1.16e+01 1lml d.92.1.3 40295 1hg4E 279 1.18e+01 1lbd a.123.1.1 19337 1xsoA 150 1.18e+01 1mfmA b.1.8.1 22273 1iqvA 218 1.25e+01 1rss a.75.1.1 62661 1jmsA 381 1.42e+01 a.60.6.1 66889 e.9.1.1 66890 1iavA 269 1.54e+01 1gci c.41.1.1 62125 1lqtA 456 1.56e+01 2hpdA 471 1.63e+01 1bu7A a.104.1.1 18939 1c9nA 269 1.64e+01 1gci c.41.1.1 32505 1qa1A 554 1.64e+01 1tyv b.80.1.6 28047 1jpzA 473 1.67e+01 a.104.1.1 67069 1kdhA 363 1.72e+01 1bg6 359 1.73e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1ah2 269 1.95e+01 1gci c.41.1.1 32542 1ee2A 373 2.05e+01 2ohxA b.35.1.2 24663 c.2.1.1 29679 1ee2B 373 2.05e+01 2ohxA b.35.1.2 24664 c.2.1.1 29680 1c9jA 269 2.07e+01 1gci c.41.1.1 32507 1tyv 542 2.14e+01 1tyv b.80.1.6 28038 1tyu 543 2.18e+01 1tyv b.80.1.6 28037 1r2fA 319 2.37e+01 1r2fA a.25.1.2 16800 1koqB 221 2.52e+01 2cba b.74.1.1 27965 1koqA 222 2.54e+01 2cba b.74.1.1 27964 1qr4A 186 2.54e+01 1qr4B b.1.2.1 21986 b.1.2.1 21987 1qr4B 186 2.54e+01 1qr4B b.1.2.1 21988 b.1.2.1 21989 1kopA 223 2.55e+01 2cba b.74.1.1 27966 1mdp1 363 2.61e+01 4mbp 1gci 269 2.63e+01 1gci c.41.1.1 32503 1i60A 278 2.76e+01 1ejfA 125 2.84e+01 1ejfA b.15.1.2 23683 1hurA 180 2.86e+01 1hurA c.37.1.8 32052 1rrgA 181 2.89e+01 1hurA c.37.1.8 32054 1ad0B 220 2.96e+01 1igtB b.1.1.1 20125 b.1.1.2 21155 1sva1 361 3.09e+01 1vpsA 1a71A 374 3.24e+01 2ohxA b.35.1.2 24673 c.2.1.1 29689 1bvyA 458 3.29e+01 1bu7A a.104.1.1 18943 1epwA 1290 3.33e+01 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1axeA 374 3.33e+01 2ohxA b.35.1.2 24681 c.2.1.1 29697 1thjA 214 3.34e+01 1qreA b.81.1.5 28072 1bu7A 455 3.34e+01 1bu7A a.104.1.1 18937 2bmhA 455 3.34e+01 1bu7A a.104.1.1 18941 1kwhA 492 3.36e+01 c.94.1.1 68876 1jmeA 455 3.42e+01 a.104.1.1 66885 1axgA 374 3.53e+01 2ohxA b.35.1.2 24691 c.2.1.1 29707 1hetA 374 3.63e+01 2ohxA b.35.1.2 60975 c.2.1.1 60976 1heuA 374 3.63e+01 2ohxA b.35.1.2 60979 c.2.1.1 60980 2ohxA 374 3.63e+01 2ohxA b.35.1.2 24669 c.2.1.1 29685 8adh 374 3.63e+01 2ohxA b.35.1.2 24690 c.2.1.1 29706 1auz 116 3.73e+01 1auz c.13.2.1 30883 1buz 116 3.76e+01 1auz c.13.2.1 30884 1iud 380 3.76e+01 4mbp c.94.1.1 35786 2otcA 333 3.91e+01 1othA c.78.1.1 35234 c.78.1.1 35235 1fce 629 3.93e+01 1fce a.102.1.2 18836 1faeA 629 3.93e+01 1fce a.102.1.2 18837 1gof 639 3.95e+01 1gof b.1.1.5 21807 b.18.1.1 23709 b.69.1.1 27631 1goh 639 3.95e+01 1gof b.1.1.5 21809 b.18.1.1 23711 b.69.1.1 27633