# 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 1kamA 194 1.01e-29 1k4mA 213 6.27e-25 1gzuA 290 4.39e-12 1kkuA 279 4.63e-12 1f9aA 168 2.41e-06 1f9aA c.26.1.3 31602 1b6tA 159 1.50e-05 1b6tA c.26.1.3 31600 1qjcA 158 2.48e-05 1b6tA c.26.1.3 63328 1ej2A 181 3.36e-04 1f9aA c.26.1.3 59414 1jhdA 396 3.29e-02 b.58.1.2 66712 c.26.1.5 66713 1jecA 510 3.62e-02 b.58.1.2 66595 c.26.1.5 66596 c.37.1.15 66597 1g8fA 511 3.78e-02 1g8fA b.58.1.2 60348 c.26.1.5 60349 c.37.1.15 60350 1hybA 181 4.02e-02 1f9aA c.26.1.3 61399 1jihA 531 4.09e-02 e.8.1.5 66740 1cozA 129 6.87e-02 1cozA c.26.1.2 31598 1lw7A 365 2.43e-01 1i2dA 573 6.80e-01 1g8fA b.58.1.2 61556 c.26.1.5 61557 c.37.1.15 61558 1hu3A 260 7.11e-01 1hu3A a.118.1.2 19137 1k6wA 426 8.34e-01 b.92.1.2 68236 c.1.9.5 68237 1qlaB 239 1.23e+00 1qlaB a.1.2.1 15679 d.15.4.2 37707 1j9yA 385 1.41e+00 1j9yA c.1.8.3 62791 1ezvE 185 1.48e+00 1rie b.33.1.1 59548 f.2.1.8 59549 1k3lA 221 1.52e+00 1k3yA 221 1.52e+00 1gseA 221 1.52e+00 1pgtA a.45.1.1 17667 c.47.1.5 32961 1gvyA 383 1.60e+00 1gw1A 376 1.63e+00 1rcf 169 1.98e+00 1rcf c.23.5.1 31170 1ftg 168 2.02e+00 1rcf c.23.5.1 31176 1dx9A 169 2.35e+00 1rcf c.23.5.1 31171 1lixA 528 2.73e+00 1e6vA 553 3.27e+00 1mroA a.89.1.1 18527 d.58.31.2 39445 1hnjA 317 3.40e+00 1hn9A c.95.1.1 35969 c.95.1.1 35970 1hn9A 317 3.40e+00 1hn9A c.95.1.1 35977 c.95.1.1 35978 1ct9A 553 3.61e+00 1ct9A c.26.2.1 31616 d.153.1.1 41834 1id3B 102 3.62e+00 a.22.1.1 66113 1hnhA 317 3.64e+00 1hn9A c.95.1.1 35983 c.95.1.1 35984 1g63A 181 4.32e+00 1g5qA c.34.1.1 60299 1liwA 528 4.44e+00 1liuA 528 4.82e+00 1eblA 317 5.09e+00 1hn9A c.95.1.1 35973 c.95.1.1 35974 1eblB 317 5.09e+00 1hn9A c.95.1.1 35975 c.95.1.1 35976 1j5tA 242 5.20e+00 1bqxA 77 5.44e+00 1a6l d.58.1.2 38989 1liyA 528 5.67e+00 1dr9A 201 5.71e+00 1dr9A b.1.1.1 19762 b.1.1.3 21684 1i4nA 251 5.71e+00 1i8lA 208 5.93e+00 1dr9A b.1.1.1 61970 b.1.1.3 61971 1bd6 77 6.11e+00 1a6l d.58.1.2 38987 1bc6 77 6.12e+00 1a6l d.58.1.2 38986 1g5qA 181 6.15e+00 1g5qA c.34.1.1 60288 1h2rL 534 7.72e+00 1h2rL e.18.1.1 43298 2hft 218 7.88e+00 1boy b.1.2.1 21951 b.1.2.1 21952 1h2aL 567 7.97e+00 1h2rL e.18.1.1 43299 1gglA 134 8.44e+00 1hmt b.60.1.2 60484 1qamA 244 9.22e+00 2ercA c.66.1.9 34220 2ercA 244 9.22e+00 2ercA c.66.1.9 34224 1agsA 221 9.23e+00 1pgtA a.45.1.1 17691 c.47.1.5 32985 1thg 544 9.27e+00 1thg c.69.1.17 34763 1d4oA 184 9.34e+00 1d4oA c.31.1.4 31748 1djlA 207 9.36e+00 1d4oA c.31.1.4 31746 1boy 219 9.81e+00 1boy b.1.2.1 21955 b.1.2.1 21956 1fakT 206 9.90e+00 1boy b.1.2.1 21957 b.1.2.1 21958 1cb5A 453 1.08e+01 3gcb d.3.1.1 37037 2cb5A 453 1.09e+01 3gcb d.3.1.1 37035 1hq3D 103 1.35e+01 1aoiB a.22.1.1 16464 2hioD 103 1.35e+01 1aoiB a.22.1.1 16468 1ejfA 125 1.37e+01 1ejfA b.15.1.2 23683 1danU 121 1.44e+01 1boy b.1.2.1 21954 1qhwA 327 1.47e+01 1uteA d.159.1.1 42076 1bxcA 387 1.48e+01 4xis c.1.15.3 29539 2eiaB 206 1.51e+01 1eia a.28.3.1 16950 a.73.1.1 18330 1eia 207 1.51e+01 1eia a.28.3.1 16951 a.73.1.1 18331 1h5yA 253 1.57e+01 c.1.2.1 65638 1fnsA 196 1.85e+01 1auq c.62.1.1 34136 1oakA 196 1.89e+01 1auq c.62.1.1 34138 2ezl 99 1.93e+01 2ezk a.4.1.2 16026 2ezk 99 1.93e+01 2ezk a.4.1.2 16027 1auq 208 1.94e+01 1auq c.62.1.1 34137 1ijbA 202 1.96e+01 1m10A 208 2.00e+01 1bg0 356 2.14e+01 1qh4A a.83.1.1 18476 d.128.1.2 41211 1qfcA 306 2.18e+01 1uteA d.159.1.1 42077 1dj2A 443 2.42e+01 1adeA c.37.1.10 32237 1kyaA 499 2.56e+01 1rie 129 2.57e+01 1rie b.33.1.1 24427 1ckv 141 2.58e+01 1ckv d.137.1.1 41452 1kyqA 274 2.61e+01 1fl2A 310 2.62e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 1aoiF 87 2.70e+01 1aoiB a.22.1.1 16471 1aoiB 87 2.70e+01 1aoiB a.22.1.1 16470 1cv8 174 2.80e+01 1cv8 d.3.1.1 37089 1dv8A 128 2.85e+01 1ixxB d.169.1.1 42352 1exaA 246 2.91e+01 2lbd a.123.1.1 19285 1bwfO 501 2.99e+01 1glcG c.55.1.4 33529 c.55.1.4 33530 1bxnA 485 3.09e+01 1burA c.1.14.1 29376 d.58.9.1 39282 2lbd 267 3.09e+01 2lbd a.123.1.1 19287 4lbd 267 3.09e+01 2lbd a.123.1.1 19289 1rypJ 204 3.12e+01 d.153.1.4 41878 1g0uI 205 3.18e+01 d.153.1.4 41891 1hixB 190 3.19e+01 b.29.1.11 65840 1ex2A 189 3.24e+01 1ex2A c.51.4.2 33225 1iqqA 200 3.43e+01 d.124.1.1 66274 1hgwA 365 3.46e+01 c.6.1.1 65831 1agdA 276 3.48e+01 1agdA b.1.1.2 20741 d.19.1.1 38260 1bgyE 196 3.64e+01 1bgyE f.2.1.8 43683 1bccE 196 3.71e+01 1rie b.33.1.1 24431 f.2.1.8 43699 3rubS 123 3.89e+01 1rboC d.73.1.1 39616 1cgmE 161 3.92e+01 1rmvA a.24.5.1 16588