# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-scores 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 1jeyA 609 1.70e+00 1jeqA unknown_sccs -4426 unknown_sccs -7990 1n9pA 207 1.91e+00 b.1.18.16 80343 1gbg 214 2.56e+00 1axkA b.29.1.2 24171 1d3bA 75 3.28e+00 1d3bA b.38.1.1 24798 1h4rA 314 3.56e+00 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1l1zA 274 5.03e+00 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 1jb0D 138 5.05e+00 1jb0D d.187.1.1 62823 1ckmA 330 5.41e+00 1ckmA b.40.4.6 25358 d.142.2.3 41585 1vcaA 202 5.86e+00 1vcaA b.1.1.3 21649 b.1.1.4 21685 1r2zA 274 6.77e+00 a.156.1.2 -370 b.113.1.1 -5094 g.39.1.8 -12748 2ayh 214 7.03e+00 1axkA b.29.1.2 24172 2rspA 124 7.14e+00 2rspB b.50.1.1 26771 1mm4A 170 7.72e+00 f.4.1.2 79294 1s14A 194 7.89e+00 d.122.1.2 -10973 1my7A 114 8.37e+00 b.1.18.1 79675 1m7vA 363 9.04e+00 d.174.1.1 78748 1j1xH 114 9.46e+00 b.1.1.1 77063 1lkfA 299 1.03e+01 1pvl f.6.1.1 43821 1ospO 257 1.06e+01 1ospO b.76.1.1 27971 1gppA 237 1.12e+01 b.86.1.2 76262 1on0A 158 1.13e+01 d.108.1.1 87095 1uacH 114 1.13e+01 b.1.1.1 -2285 1i50C 318 1.14e+01 d.74.3.1 61756 d.181.1.1 61757 1io1A 398 1.14e+01 1io1A e.32.1.1 62611 1jhjA 171 1.35e+01 b.18.1.9 66714 1grj 158 1.39e+01 1grj a.2.1.1 15691 d.26.1.2 38433 1ohfA 644 1.40e+01 unknown_sccs -3012 1eerB 227 1.45e+01 1eerB b.1.2.1 22011 b.1.2.1 22012 1k8kC 372 1.45e+01 b.69.4.1 68308 1vzoA 355 1.48e+01 1k32A 1045 1.49e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1plq 258 1.53e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1ha1 184 1.56e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1c4rA 182 1.62e+01 1c4rA b.29.1.4 24229 1j1tA 233 1.66e+01 unknown_sccs -3462 1amy 403 1.69e+01 1jdc b.71.1.1 27799 c.1.8.1 28786 1avaA 403 1.75e+01 1jdc b.71.1.1 27797 c.1.8.1 28784 1md6A 154 1.90e+01 b.42.1.2 -4013 1qunB 279 1.91e+01 b.2.3.2 22411 b.2.3.2 22412 1c3hA 137 1.97e+01 b.22.1.1 -3255 1mmiA 366 2.00e+01 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1gmiA 136 2.07e+01 b.7.1.1 65309 1ou8A 111 2.10e+01 unknown_sccs -3799 1fjrA 195 2.16e+01 1fjrA b.102.1.1 59855 1jx4A 352 2.17e+01 unknown_sccs -10188 unknown_sccs -11898 1r64A 481 2.23e+01 b.18.1.20 -3151 c.41.1.1 -7297 1bywA 110 2.25e+01 1bywA d.110.3.6 40912 2polA 366 2.26e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1eudB 396 2.29e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1lf2A 331 2.37e+01 b.50.1.2 77914 1f39A 101 2.41e+01 1umuA b.87.1.1 28386 1lmeA 176 2.44e+01 d.167.1.1 84629 1f35A 162 2.46e+01 1f35A b.94.1.1 59628 1iktA 120 2.55e+01 d.106.1.1 66188 1gqpA 221 2.71e+01 b.18.1.9 70372 1g87A 614 2.80e+01 a.102.1.2 83275 b.2.2.2 83276 1l0wA 580 2.82e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 2sli 679 2.84e+01 2sli b.29.1.9 24274 b.68.1.1 27611 1un7A 400 2.88e+01 b.92.1.5 -5077 c.1.9.10 -5429 1ui8A 638 2.91e+01 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 7ahlA 293 2.97e+01 7ahlA f.6.1.1 43812 1i31A 314 3.04e+01 1bw8A b.2.7.1 22481 1gcyA 527 3.04e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1es6A 296 3.08e+01 1es6A b.31.1.1 83048 b.31.1.1 83049 1l2mA 118 3.10e+01 d.89.1.4 77657 1s5aA 150 3.16e+01 unknown_sccs -9300 1v8cA 168 3.22e+01 d.15.3.1 -9175 unknown_sccs -11012 1quqB 121 3.27e+01 1quqB b.40.4.3 25305 1q4uA 151 3.42e+01 d.38.1.5 -9701 1ef1A 294 3.45e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1pfzA 380 3.54e+01 1smrA b.50.1.2 26881 1klfB 279 3.56e+01 b.2.3.2 72684 b.2.3.2 72685 1vcbC 160 3.69e+01 1vcbC b.3.3.1 22535 1nycA 111 3.97e+01 unknown_sccs -4522