# 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 1tfpA 130 1.47e-13 1etb1 b.3.4.1 22623 1ie4A 127 3.01e-13 1bzeA 127 3.32e-13 1etb1 b.3.4.1 22563 1qabA 124 3.37e-13 1etb1 b.3.4.1 22615 2pabA 127 3.38e-13 1etb1 b.3.4.1 22597 1gkeA 120 3.39e-13 1etb1 b.3.4.1 22619 1bz8A 126 3.51e-13 1etb1 b.3.4.1 22591 1bzdA 127 3.52e-13 1etb1 b.3.4.1 22575 1f41A 127 3.54e-13 1etb1 b.3.4.1 22539 1ttrB 127 3.54e-13 1etb1 b.3.4.1 22556 1tshA 127 3.93e-13 1etb1 b.3.4.1 22549 1ttbA 127 4.25e-13 1etb1 b.3.4.1 22543 1etb1 127 4.25e-13 1etb1 2tryA 127 4.44e-13 1etb1 b.3.4.1 22595 5ttrA 127 4.57e-13 1etb1 b.3.4.1 22603 1ttcA 127 5.16e-13 1etb1 b.3.4.1 22551 2trhA 127 5.17e-13 1etb1 b.3.4.1 22587 1f86A 115 5.65e-13 1etb1 b.3.4.1 59689 1qabB 118 5.77e-13 1etb1 b.3.4.1 22616 1gkoA 127 7.94e-13 b.3.4.1 65252 1eta1 128 1.31e-12 1etb1 1g1oD 127 1.37e-12 b.3.4.1 65083 1fh2A 116 2.05e-12 1etb1 b.3.4.1 59834 1ew3A 159 1.05e+00 1mup b.60.1.1 27114 1f99B 172 2.63e+00 1qgwC a.1.1.3 59723 1jrrA 382 3.60e+00 e.1.1.1 63256 1c28A 135 5.00e+00 1c28A b.22.1.1 23857 1phnB 172 6.43e+00 1qgwC a.1.1.3 15642 1lnrM 113 6.60e+00 1ilyA 90 7.18e+00 1hdcA 253 7.61e+00 1e6wA c.2.1.2 29862 2hsdA 253 7.61e+00 1e6wA c.2.1.2 29866 1ceqA 316 7.94e+00 1ceqA c.2.1.5 30163 d.162.1.1 42130 1buaB 229 7.94e+00 1rvaA c.52.1.2 33267 1rvaA 244 8.58e+00 1rvaA c.52.1.2 33240 2rveA 244 8.58e+00 1rvaA c.52.1.2 33283 1az3A 244 8.58e+00 1rvaA c.52.1.2 33276 1buaA 243 8.59e+00 1rvaA c.52.1.2 33266 1eonA 245 8.60e+00 1rvaA c.52.1.2 33238 1b96A 244 8.61e+00 1rvaA c.52.1.2 33268 1bssA 244 8.68e+00 1rvaA c.52.1.2 33256 1b97A 244 8.87e+00 1rvaA c.52.1.2 33252 2minB 522 9.22e+00 1qguB c.92.2.3 35610 3minB 522 9.22e+00 1qguB c.92.2.3 35606 1g20B 523 9.23e+00 1qguB c.92.2.3 35614 1juoB 198 9.49e+00 a.39.1.8 67313 1gh0B 172 9.83e+00 1qgwC a.1.1.3 60492 1ha7B 172 1.07e+01 1ktpB 172 1.15e+01 1i7yB 172 1.21e+01 1qgwC a.1.1.3 61918 1obr 326 1.34e+01 1aye c.56.5.2 33828 1l9xA 315 1.38e+01 1cwvA 492 1.38e+01 1cwvA b.1.14.1 22373 b.1.14.1 22374 b.1.14.1 22375 b.1.14.1 22376 d.169.1.3 42442 1bzwA 232 1.52e+01 1led b.29.1.1 24098 1dx4A 586 1.52e+01 2bce c.69.1.1 34622 2pelA 236 1.52e+01 1led b.29.1.1 24082 1krs 120 1.64e+01 1krs b.40.4.1 25256 1g7kA 234 1.70e+01 1ggxA d.22.1.1 38371 1fh9A 312 1.82e+01 1taxA c.1.8.3 28913 1fhdA 312 1.82e+01 1taxA c.1.8.3 28915 1cpcL 172 1.87e+01 1qgwC a.1.1.3 15646 1cpcB 172 1.90e+01 1qgwC a.1.1.3 15644 2a2uA 181 1.96e+01 1mup b.60.1.1 27135 1l1fA 505 2.04e+01 1gjyA 167 2.11e+01 1ejbA 168 2.13e+01 1rvv1 c.16.1.1 59417 1mom 246 2.19e+01 1mrj d.165.1.1 42188 1fn4B 218 2.19e+01 b.1.1.1 59886 b.1.1.2 59887 1ibfA 151 2.43e+01 1yaiA b.1.8.1 62158 1ew4A 106 2.52e+01 1ew4A d.82.2.1 40023 1ibhA 151 2.54e+01 1yaiA b.1.8.1 62159 1ggxA 223 2.58e+01 1ggxA d.22.1.1 38367 1ahc 246 2.60e+01 1mrj d.165.1.1 42184 1jq5A 370 2.63e+01 e.22.1.2 67084 1jqaA 370 2.63e+01 e.22.1.2 67085 1ibbA 151 2.70e+01 1yaiA b.1.8.1 62156 1ib5A 151 2.82e+01 1yaiA b.1.8.1 62145 1hwxA 501 2.82e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1hwyA 501 2.82e+01 1hwyA c.2.1.7 30262 c.58.1.1 33910 1bzoA 151 2.90e+01 1yaiA b.1.8.1 22292 1ldg 316 2.92e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1ibdA 151 2.92e+01 1yaiA b.1.8.1 62157 1bbuA 504 2.94e+01 1lylA b.40.4.1 25254 d.104.1.1 40721 1mffA 114 2.99e+01 1dptA d.80.1.3 39859 1mfiA 114 3.00e+01 1dptA d.80.1.3 39856 1jl4A 178 3.04e+01 b.1.1.2 63157 d.19.1.1 63158 1d9kC 183 3.09e+01 1iakA b.1.1.2 21627 d.19.1.1 38201 1yaiA 151 3.17e+01 1yaiA b.1.8.1 22289 1qo2A 241 3.26e+01 1qo2A c.1.2.1 28533 1qmuA 380 3.26e+01 1qmuA b.3.2.1 22534 c.56.5.1 33827 1kqfB 294 3.31e+01 1iakA 199 3.39e+01 1iakA b.1.1.2 21625 d.19.1.1 38199 1who 96 3.42e+01 1who b.7.3.1 23215 1lktA 104 3.43e+01 1lktA b.90.1.1 28398 3pcgM 238 3.50e+01 3pchM b.3.6.1 22742 3pchM 238 3.50e+01 3pchM b.3.6.1 22748 2pcdM 238 3.50e+01 3pchM b.3.6.1 22760 2his 312 3.62e+01 1taxA c.1.8.3 28918 1fim 114 3.65e+01 1dptA d.80.1.3 39855 1qs8A 329 3.83e+01 1smrA b.50.1.2 26887 1b59A 370 3.85e+01 1bn5 a.4.5.25 16225 d.127.1.1 41162 1mrh 263 3.97e+01 1mrj d.165.1.1 42186