# List of top-scoring protein chains for T0272.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 1dy2A 180 9.02e-01 1koe d.169.1.5 42451 1lrzA 426 2.35e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1qspA 165 2.41e+00 1qspA a.24.10.2 16639 1oxkA 166 2.43e+00 a.24.10.2 -601 1c03A 168 2.44e+00 1qspA a.24.10.2 16635 1mnp 357 2.85e+00 1arv a.93.1.1 18668 1u2fA 90 3.02e+00 1u2fA d.58.7.1 39168 1cqjA 286 3.26e+00 2scuA c.2.1.8 30305 c.23.4.1 31133 1t7pA 698 3.26e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 2scuA 288 3.27e+00 2scuA c.2.1.8 30303 c.23.4.1 31131 1c02A 166 3.60e+00 1qspA a.24.10.2 16633 1mn2 357 3.94e+00 1arv a.93.1.1 18666 1mn1 357 3.95e+00 1arv a.93.1.1 18667 2por 301 4.69e+00 2por f.4.3.1 43759 1h41A 708 5.10e+00 c.1.8.10 83472 d.92.2.2 83473 1md8A 329 5.23e+00 b.47.1.2 -4233 g.18.1.1 -12674 1md7A 328 5.68e+00 b.47.1.2 -4234 g.18.1.1 -12675 1gpzA 399 5.71e+00 b.47.1.2 70302 g.18.1.1 70303 g.18.1.1 70304 1tnfA 157 5.99e+00 2tnfA b.22.1.1 23871 1gqiA 708 6.04e+00 c.1.8.10 76279 d.92.2.2 76280 2tunA 157 6.23e+00 2tnfA b.22.1.1 23874 1s79A 103 7.50e+00 d.58.7.1 -10022 1ofcX 304 7.89e+00 a.4.1.3 -195 unknown_sccs -199 unknown_sccs -978 1qq2A 199 8.26e+00 1qq2A c.47.1.10 33064 2tnfA 156 8.32e+00 2tnfA b.22.1.1 23880 1indH 226 9.70e+00 1igtB b.1.1.1 19839 b.1.1.2 20943 1r2gA 218 1.00e+01 f.1.4.1 -12050 1a8mA 157 1.02e+01 2tnfA b.22.1.1 23868 1kwsA 261 1.19e+01 c.68.1.7 73083 1gl4B 98 1.29e+01 b.1.1.4 65288 1tikA 213 1.42e+01 1pq1A 196 1.45e+01 f.1.4.1 -12055 1g5jA 175 1.46e+01 1maz f.1.4.1 43394 1af3 196 1.48e+01 1maz f.1.4.1 43397 1jc4A 148 1.49e+01 1jc4A d.32.1.4 62863 1an9A 340 1.57e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1ve9A 347 1.59e+01 c.4.1.2 -6056 d.16.1.3 -9214 1r2dA 218 1.63e+01 f.1.4.1 -12048 1ou8A 111 1.65e+01 unknown_sccs -3799 1maz 221 1.67e+01 1maz f.1.4.1 43393 1r2eA 218 1.69e+01 f.1.4.1 -12049 1sv0C 82 1.75e+01 1qmvA 197 1.90e+01 1qq2A c.47.1.10 33066 1rwhA 757 1.98e+01 a.102.3.2 -1340 b.24.1.1 -3300 b.30.5.2 -3508 1rw9A 757 2.00e+01 a.102.3.2 -1335 b.24.1.1 -3295 b.30.5.2 -3503 1dxrM 323 2.16e+01 6prcM f.26.1.1 43432 1gnlA 544 2.18e+01 e.26.1.1 70287 1vjqA 79 2.20e+01 unknown_sccs -13478 1r2hA 218 2.28e+01 f.1.4.1 -12051 1jfrA 262 2.37e+01 1jfrA c.69.1.16 34724 1ijaA 148 2.38e+01 1ijaA b.100.1.1 62484 1ql3A 99 2.41e+01 1ycc a.3.1.1 15822 1c7mA 100 2.43e+01 1ycc a.3.1.1 15830 1ou9A 129 2.53e+01 unknown_sccs -3801 1j0sA 157 2.63e+01 b.42.1.2 -4016 1jwoA 97 2.65e+01 d.93.1.1 63310 1hth 34 2.86e+01 1hth j.15.1.1 46163 1k8wA 327 3.03e+01 b.122.1.1 83094 unknown_sccs -10143 1sr3A 136 3.05e+01 b.40.9.1 -3894 1klpA 115 3.07e+01 a.28.1.1 72721 1tis 286 3.11e+01 1bkpA d.117.1.1 41040 1gp1A 198 3.14e+01 1gp1A c.47.1.10 33059 153l 185 3.17e+01 153l d.2.1.5 36984 1qwxA 109 3.25e+01 unknown_sccs -4526 1pl2A 222 3.28e+01 1vyvA 359 3.32e+01 1bt4A 362 3.34e+01 1bjnA c.67.1.4 34468 1mcpH 222 3.55e+01 1igtB b.1.1.1 19859 b.1.1.2 20959 1bawA 105 3.63e+01 1plc b.6.1.1 22868 1esc 306 3.64e+01 1esc c.23.10.1 31334 1nwbA 124 3.80e+01 b.124.1.1 86296 1kbvA 327 3.92e+01 b.6.1.3 68395 b.6.1.3 68396