# 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 1t62A 166 8.00e-02 1i7kA 179 5.79e-01 1u9aA d.20.1.1 61889 1r4vA 171 1.68e+00 unknown_sccs -1221 1vif 62 2.48e+00 1vie b.34.4.1 24593 1vie 62 2.68e+00 1vie b.34.4.1 24592 1hgxA 183 3.66e+00 1tc1A c.61.1.1 34027 1aky 221 3.73e+00 1zin c.37.1.1 31896 g.41.2.1 45197 1f5mA 180 4.02e+00 1f5mB d.110.2.1 40895 1bfi 112 4.27e+00 1qadA d.93.1.1 40499 1f5mB 180 4.53e+00 1f5mB d.110.2.1 40896 1duzB 100 4.63e+00 1agdB b.1.1.2 20671 1agdB 99 4.71e+00 1agdB b.1.1.2 20742 2sli 679 4.84e+00 2sli b.29.1.9 24274 b.68.1.1 27611 4sli 679 5.81e+00 2sli b.29.1.9 24275 b.68.1.1 27612 1k5nB 100 5.92e+00 b.1.1.2 77268 1i4fB 100 7.24e+00 1agdB b.1.1.2 61689 1ed1A 135 7.54e+00 1hiwA a.61.1.1 18130 1c02A 166 7.64e+00 1qspA a.24.10.2 16633 1hsbB 99 7.64e+00 1agdB b.1.1.2 20737 1qspA 165 1.02e+01 1qspA a.24.10.2 16639 1e9rA 437 1.08e+01 c.37.1.11 64827 1faeA 629 1.19e+01 1fce a.102.1.2 18837 1fce 629 1.22e+01 1fce a.102.1.2 18836 1ov3A 138 1.26e+01 b.34.2.1 87451 b.34.2.1 87452 1cof 143 1.26e+01 1cof d.109.1.2 40860 1h3lA 87 1.33e+01 a.177.1.1 76639 1jnjA 100 1.35e+01 b.1.1.2 66955 1g9gA 629 1.38e+01 a.102.1.2 83279 4ubpB 126 1.42e+01 1ubpB b.85.3.1 28345 1hdlA 55 1.46e+01 unknown_sccs 65808 1r8oA 96 1.50e+01 1hqi 90 1.52e+01 1hqi d.137.1.1 41454 1ubpB 122 1.60e+01 1ubpB b.85.3.1 28346 2cbp 96 1.69e+01 2cbp b.6.1.1 22895 1cfyA 143 1.71e+01 1cof d.109.1.2 40858 1mkp 144 1.78e+01 1vhrA c.45.1.1 32654 1hxmD 242 1.81e+01 b.1.1.1 61373 b.1.1.2 61374 1mhcB 99 1.86e+01 1agdB b.1.1.2 20832 1kpuB 99 1.88e+01 b.1.1.2 84458 1g7pB 99 1.91e+01 b.1.1.2 70155 1fzoB 99 2.01e+01 1agdB b.1.1.2 60157 1tuc 63 2.02e+01 1tuc b.34.2.1 24492 1fzkB 99 2.06e+01 1agdB b.1.1.2 60151 1lk2B 99 2.18e+01 b.1.1.2 -2576 2a0b 125 2.27e+01 2a0b a.24.10.1 16630 1mrzA 293 2.39e+01 b.43.5.1 -4048 c.26.1.3 -6616 1nnlA 225 2.63e+01 c.108.1.4 85906 1dyr 206 2.84e+01 1aoeA c.71.1.1 34916 1ffkP 84 2.84e+01 1ffkP d.12.1.1 37493 1ixlA 131 2.93e+01 d.38.1.5 -9705 1oj6A 151 2.96e+01 a.1.1.2 -85 1fjgQ 105 3.04e+01 1fjfQ b.40.4.5 25352 1l1yA 678 3.07e+01 a.102.1.2 73486 1bax 94 3.08e+01 1bax a.61.1.3 18133 1kjvB 100 3.11e+01 b.1.1.2 77423 1jj2R 84 3.12e+01 1ffkP d.12.1.1 63103 1nom 248 3.34e+01 1bpyA a.60.12.1 75929 d.218.1.2 75930 1uheA 97 3.43e+01 1dvoA 152 3.43e+01 1dvoA a.136.1.1 19623 1bpb 248 3.54e+01 1bpyA a.60.12.1 75811 d.218.1.2 75812 1qadA 111 3.62e+01 1qadA d.93.1.1 40498 1q1fA 151 3.63e+01 1s72S 85 3.63e+01 2pgd 482 3.70e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1xnaA 183 3.75e+01 1xnaA b.18.1.8 23773 1ml8A 134 3.82e+01 d.227.1.2 85013 1khiA 176 3.86e+01 b.34.5.2 77408 b.40.4.5 77409 1gg3A 279 3.86e+01 1ef1A a.11.2.1 16372 b.55.1.5 27007 d.15.1.4 37615