# 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.soe.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 2h3jA 75 4.58e-08 2gcxA 75 1.60e-07 1fx7A 230 2.19e-01 1bi0 a.4.5.24 60088 a.76.1.1 60089 b.34.1.2 60090 2o96A 178 5.80e-01 2o95A 187 6.66e-01 2z83A 459 9.72e-01 1xahA 354 1.95e+00 2qsfX 171 2.40e+00 2qeqA 434 2.70e+00 1y8xB 98 3.97e+00 1e0cA 271 4.08e+00 1e0cA c.46.1.2 32717 c.46.1.2 32718 1yigA 76 4.40e+00 a.245.1.1 123291 1qvpA 87 5.34e+00 b.34.1.2 111659 1j6oA 268 5.49e+00 c.1.9.12 77088 1bymA 97 6.43e+00 1bi0 b.34.1.2 24458 2inbA 140 6.49e+00 1s68A 249 6.51e+00 d.142.2.4 98591 2hjhA 354 6.88e+00 1lrzA 426 7.42e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1yibA 76 8.09e+00 a.245.1.1 123278 2ekkA 47 8.18e+00 2gy9M 115 8.69e+00 2qalM 117 8.69e+00 1qw1A 121 8.70e+00 2hvrA 335 8.72e+00 1vs5M 118 8.81e+00 2okfA 140 9.10e+00 1egiA 147 9.51e+00 1eggA d.169.1.1 42331 1eggA 147 9.51e+00 1eggA d.169.1.1 42333 2dchX 216 9.79e+00 1f3uB 171 1.01e+01 1f3uB b.65.1.1 27525 2gfqA 298 1.04e+01 c.56.7.1 135106 2v8oA 444 1.12e+01 1wu9A 80 1.18e+01 a.245.1.1 121279 1wxvA 92 1.20e+01 d.15.1.1 121409 1txqB 86 1.22e+01 a.245.1.1 119389 1dklA 410 1.23e+01 1dklA c.60.1.2 33996 1peaA 385 1.25e+01 c.93.1.1 35662 2hvqA 335 1.26e+01 2daiA 83 1.26e+01 1qnlA 385 1.26e+01 1pea c.93.1.1 35665 2ev1A 222 1.63e+01 1y0nA 78 1.69e+01 d.291.1.1 116305 1fwzA 226 1.69e+01 a.4.5.24 60077 a.76.1.1 60078 b.34.1.2 60079 1p92A 226 1.70e+01 a.4.5.24 104085 a.76.1.1 104086 b.34.1.2 104087 1opdA 85 1.70e+01 d.94.1.1 40560 1c0wA 225 1.72e+01 1bi0 a.4.5.24 16211 a.76.1.1 18417 b.34.1.2 24455 1ah1A 129 1.72e+01 b.1.1.1 20652 2dtrA 226 1.73e+01 a.4.5.24 16193 a.76.1.1 18399 b.34.1.2 24450 1g3tA 226 1.74e+01 a.4.5.24 65127 a.76.1.1 65128 b.34.1.2 65129 2vbcA 618 1.75e+01 2oo8X 317 1.75e+01 2qqbA 226 1.77e+01 2qq9A 226 1.77e+01 2tdxA 226 1.77e+01 a.4.5.24 16201 a.76.1.1 18407 1g3yA 226 1.78e+01 a.4.5.24 65136 a.76.1.1 65137 b.34.1.2 65138 2qqaA 226 1.79e+01 1fvrA 327 1.80e+01 d.144.1.7 60047 1pohA 85 1.80e+01 d.94.1.1 40553 1yzmA 51 1.85e+01 a.2.19.1 124283 1vqoK 132 1.95e+01 b.39.1.1 120372 2zkrp 196 1.96e+01 2qmmA 197 1.96e+01 1z68A 719 1.97e+01 1i85C 126 2.10e+01 1ah1 b.1.1.1 61948 2oxtA 265 2.14e+01 1cm3A 85 2.17e+01 1ptf d.94.1.1 40557 2v8jA 535 2.25e+01 2v8iA 543 2.27e+01 1lzlA 323 2.31e+01 c.69.1.2 78306 2v8tA 302 2.33e+01 1dxeA 256 2.34e+01 1dxeA c.1.12.5 29310 2cwlA 302 2.35e+01 a.25.1.3 130927 3cirA 602 2.49e+01 2p2uA 171 2.51e+01 2b76A 602 2.61e+01 a.7.3.1 128009 c.3.1.4 128010 d.168.1.1 128011 1kf6A 602 2.61e+01 a.7.3.1 72394 c.3.1.4 72395 d.168.1.1 72396 1s9iA 354 2.65e+01 d.144.1.7 112047 1i94M 125 2.66e+01 1fjfM a.156.1.1 62004 2vqeM 126 2.70e+01 1fjgM 126 2.70e+01 1fjfM a.156.1.1 16293 1qo7A 394 2.80e+01 1qo7A c.69.1.11 34697 1wxxA 382 2.84e+01 b.122.1.9 121418 c.66.1.51 121419 2zkrk 140 2.94e+01 1dkmA 410 3.00e+01 1dklA c.60.1.2 34000 1dkqA 410 3.01e+01 1dklA c.60.1.2 33998 1gatA 60 3.14e+01 1gatA g.39.1.1 45106 2dadA 93 3.14e+01 2nwvA 114 3.21e+01 d.326.1.1 138720 1q2kA 31 3.24e+01 g.3.7.2 95630 1r1gA 31 3.25e+01 g.3.7.2 96816 1zx6A 58 3.32e+01 1j04A 392 3.34e+01 c.67.1.3 90734 1h0cA 392 3.38e+01 c.67.1.3 83424 2v9xA 193 3.39e+01 1qzxA 440 3.52e+01 a.24.13.1 96711 a.36.1.1 96712 c.37.1.10 96713 2gatA 66 3.53e+01 1gatA g.39.1.1 45102 2fepS 88 3.67e+01 2jmuA 224 3.69e+01 1sphA 88 3.69e+01 1ptf d.94.1.1 40544 1zoiA 276 3.70e+01 1kkmH 100 3.75e+01 d.94.1.1 72657 1zelA 298 3.78e+01 2d1hA 109 3.78e+01 a.4.5.50 131125 2fbhA 146 3.82e+01 a.4.5.28 133245 1zzmA 259 3.83e+01 c.1.9.12 125911 1zd7A 159 3.83e+01 1l9aA 87 3.84e+01 d.201.1.1 73710 2j4hA 193 3.87e+01 1xs1A 193 3.89e+01 b.85.4.1 115892