# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1ucsA 64 5.97e-02 b.85.1.1 88466 1msi 70 1.56e-01 1msi b.85.1.1 28281 1hg7A 66 2.05e-01 1msi b.85.1.1 28280 1c89A 134 2.23e-01 1msi b.85.1.1 28314 b.85.1.1 28315 1innA 166 4.84e+00 1j98A d.185.1.2 62608 1vjeA 166 4.85e+00 d.185.1.2 -10261 1nzoA 363 4.88e+00 b.105.1.1 -2933 e.3.1.1 -11784 1ml9A 302 5.33e+00 b.85.7.1 79282 1qdlB 195 8.02e+00 1qdlB c.23.16.1 31437 1eriA 276 8.24e+00 1ckqA c.52.1.1 33231 1cl8A 276 8.36e+00 1ckqA c.52.1.1 33230 1ckqA 276 8.38e+00 1ckqA c.52.1.1 33229 1jfkA 134 9.91e+00 a.39.1.5 66639 1di1A 300 9.93e+00 1di1A a.128.1.4 19446 1tfaA 329 1.18e+01 1nnt c.94.1.2 35880 1nftA 329 1.21e+01 1nnt c.94.1.2 35881 1d3vA 323 1.34e+01 1d3vA c.42.1.1 32559 1ixh 321 1.35e+01 1ixh c.94.1.1 35761 1jqlB 140 1.47e+01 c.37.1.20 63234 1ozjA 144 1.56e+01 d.164.1.1 -11537 1thfD 253 1.56e+01 1thfD c.1.2.1 28535 1asu 162 1.56e+01 1cxqA c.55.3.2 33626 1lj5A 379 1.60e+01 e.1.1.1 73928 1t0bA 252 1.60e+01 1fiuA 286 1.66e+01 1fiuA c.52.1.10 33317 1pbp 321 1.74e+01 1ixh c.94.1.1 35768 1lizA 136 1.88e+01 1mgtA 174 1.89e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1amx 180 1.89e+01 1amx b.2.3.1 22410 1nj4A 363 1.95e+01 b.105.1.1 80545 e.3.1.1 80546 1fnoA 417 1.98e+01 c.56.5.4 75841 d.58.19.1 70145 1qfjA 232 1.99e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 2btfA 375 2.05e+01 1yagA c.55.1.1 33429 c.55.1.1 33430 1nnt 328 2.07e+01 1nnt c.94.1.2 35884 1iejA 332 2.11e+01 1nnt c.94.1.2 62328 1a7cA 379 2.13e+01 1sek e.1.1.1 42660 1oahA 519 2.17e+01 a.138.1.3 86736 1csbB 205 2.25e+01 1theB 1vh7A 265 2.28e+01 c.1.2.1 -5159 1bxiB 134 2.38e+01 1bxiB d.4.1.1 37136 1qpsA 261 2.43e+01 1ckqA c.52.1.1 33234 1klqA 197 2.47e+01 d.135.1.1 68689 1p4wA 99 2.51e+01 a.4.6.2 87783 1uae 419 2.51e+01 1uae d.68.2.2 39574 1vybA 238 2.56e+01 1dujA 187 2.57e+01 1dujA d.135.1.1 41449 1a8h 500 2.59e+01 1a8h a.27.1.1 16922 c.26.1.1 31589 1ji0A 240 2.60e+01 c.37.1.12 71665 1griA 217 2.71e+01 1griA b.34.2.1 24531 b.34.2.1 24532 d.93.1.1 40473 1jr1A 514 2.73e+01 c.1.5.1 63241 d.37.1.1 63242 d.37.1.1 63243 1mhdA 132 2.75e+01 1mhdA d.164.1.1 42175 1fr2B 134 2.75e+01 d.4.1.1 83257 1g1eB 89 2.90e+01 1g1eB a.59.1.1 17931 1emvB 134 2.98e+01 1bxiB d.4.1.1 37135 1fjmA 330 3.04e+01 1auiA d.159.1.3 42082 4rhv3 236 3.13e+01 1aym3 1go4A 205 3.13e+01 d.135.1.1 70292 1ithA 141 3.15e+01 1ithA a.1.1.2 15623 1i8nA 126 3.21e+01 1i8nA g.10.1.2 61976 1hd8A 363 3.26e+01 b.105.1.1 65803 e.3.1.1 65804 1jk7A 323 3.28e+01 1auiA d.159.1.3 63144 1qc9A 276 3.39e+01 1ckqA c.52.1.1 33235 1f1uA 323 3.50e+01 d.32.1.3 83200 d.32.1.3 83201 1eayC 74 3.53e+01 1eayC d.58.24.1 39386 1s5pA 235 3.70e+01 c.31.1.5 -6774 1k5dC 386 3.79e+01 c.10.1.2 68170 1j6wA 175 3.88e+01 1j98A d.185.1.2 62663