# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1lba 146 4.73e-16 1lba d.118.1.1 41062 1jv4A 162 4.49e-02 b.60.1.1 67343 1i05A 180 5.38e-02 1mup b.60.1.1 27130 1i06A 180 5.85e-02 1mup b.60.1.1 27131 1hfoA 113 6.10e-02 d.80.1.3 61006 1gm6A 175 7.41e-02 1bj7 156 1.20e-01 1bj7 b.60.1.1 27113 1mup 166 1.28e-01 1mup b.60.1.1 27133 2chsA 127 4.11e-01 2chsA d.79.1.2 39764 1dbfA 127 4.21e-01 2chsA d.79.1.2 39761 1ew3A 159 4.65e-01 1mup b.60.1.1 27114 2mcm 112 4.75e-01 2mcm b.1.7.1 22207 1mfiA 114 5.52e-01 1dptA d.80.1.3 39856 1gd0A 122 5.77e-01 1dptA d.80.1.3 39834 1fj2A 232 7.94e-01 1auoA c.69.1.14 34720 1noa 113 1.22e+00 2mcm b.1.7.1 22208 1iicA 422 1.22e+00 1nmtA d.108.1.2 62422 d.108.1.2 62423 1atzB 189 2.54e+00 1atzA c.62.1.1 34133 1dzkA 157 2.71e+00 1obpA b.60.1.1 27096 1atzA 189 2.72e+00 1atzA c.62.1.1 34132 1be9A 119 2.74e+00 1pdr b.36.1.1 24774 1eq6A 189 2.78e+00 1eq6A d.107.1.1 40796 2pflA 759 2.79e+00 1cm5A c.7.1.1 30675 3pflA 759 2.85e+00 1cm5A c.7.1.1 30673 1cgo 127 2.92e+00 1cpq a.24.3.2 16550 1e85A 127 2.99e+00 1bbhA a.24.3.2 16549 1cm5A 759 3.00e+00 1cm5A c.7.1.1 30671 1eq9A 222 3.09e+00 5ptp b.47.1.2 26068 1qu9A 128 3.27e+00 1qu9A d.79.1.1 39755 1qu9C 128 3.27e+00 1qu9A d.79.1.1 39757 1f8xA 157 3.39e+00 1f8xA c.23.14.1 31397 1kyqA 274 3.47e+00 1ekeA 230 3.85e+00 1ekeA c.55.3.1 33572 1jnyA 435 3.96e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1bdfA 235 3.99e+00 1bdfA d.74.3.1 39727 d.181.1.1 42602 1fezA 256 4.22e+00 1fezA c.108.1.3 43343 1g6oA 330 4.50e+00 1g6oA c.37.1.13 32430 1hwyA 501 4.64e+00 1hwyA c.2.1.7 30262 c.58.1.1 33910 3pmgA 561 4.77e+00 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1otfA 62 4.95e+00 1otfA d.80.1.1 39820 1ijyA 130 5.07e+00 1ijxA a.141.1.1 62517 1fljA 260 5.58e+00 2cba b.74.1.1 27954 1k1gA 131 5.59e+00 d.51.1.1 68015 1hwxA 501 5.76e+00 1hwyA c.2.1.7 30250 c.58.1.1 33898 1b6sA 355 6.14e+00 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 2ctb 307 6.20e+00 1aye c.56.5.1 33803 2bvwA 362 6.27e+00 1bvwA c.6.1.1 30666 1bvwA 360 6.43e+00 1bvwA c.6.1.1 30668 1oakA 196 6.51e+00 1auq c.62.1.1 34138 1bfeA 119 6.97e+00 1pdr b.36.1.1 24775 1h91A 180 7.00e+00 b.60.1.1 60805 1c8bA 371 7.24e+00 1c8bA c.56.1.2 59082 1auq 208 7.32e+00 1auq c.62.1.1 34137 1i4uA 181 7.37e+00 b.60.1.1 61732 6cpa 307 7.53e+00 1aye c.56.5.1 33816 1qtwA 285 7.54e+00 1qumA c.1.15.1 29392 1b6rA 355 7.84e+00 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1toh 343 7.92e+00 4pah d.178.1.1 42573 1dptA 117 7.93e+00 1dptA d.80.1.3 39862 1j9jA 247 9.18e+00 c.106.1.1 62758 1efcA 393 9.44e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1jmuB 666 9.73e+00 2ctc 307 9.98e+00 1aye c.56.5.1 33802 1h7zA 194 1.00e+01 1qhvA b.21.1.1 60733 1ij8A 128 1.00e+01 b.61.1.1 62480 1f5mA 180 1.02e+01 1f5mB d.110.2.1 40895 1f5mB 180 1.02e+01 1f5mB d.110.2.1 40896 1ravA 127 1.03e+01 1swuA b.61.1.1 27409 1byuA 216 1.04e+01 1byuA c.37.1.8 32032 1cqzA 554 1.11e+01 1cr6B c.108.1.2 43339 c.69.1.11 34689 1phk 298 1.11e+01 1cdkA d.144.1.1 41635 5pal 109 1.11e+01 1a75A a.39.1.4 17215 1a3yA 149 1.14e+01 1obpA b.60.1.1 27110 1h6dA 433 1.16e+01 c.2.1.3 65656 d.81.1.5 65657 1qr0A 228 1.20e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1k3bA 119 1.26e+01 1gx3A 284 1.30e+01 1hp8 68 1.32e+01 1hp8 a.17.1.1 16399 1adeA 431 1.32e+01 1adeA c.37.1.10 32213 1ifqA 138 1.34e+01 1ifqA d.110.4.1 62350 1sur 215 1.35e+01 1sur c.26.2.2 31620 2aviA 128 1.35e+01 1swuA b.61.1.1 27411 1ijbA 202 1.37e+01 1duvG 333 1.38e+01 1othA c.78.1.1 35228 c.78.1.1 35229 1ofgA 381 1.39e+01 1ofgA c.2.1.3 30064 d.81.1.5 39979 1eqcA 394 1.41e+01 1cz1A c.1.8.3 28811 1fnsA 196 1.43e+01 1auq c.62.1.1 34136 1cz1A 394 1.43e+01 1cz1A c.1.8.3 28839 1es9A 232 1.44e+01 1wab c.23.10.3 31340 1f8yA 157 1.45e+01 1f8xA c.23.14.1 31395 1i1gA 141 1.50e+01 a.4.5.32 65982 d.58.37.1 65983 1wab 232 1.52e+01 1wab c.23.10.3 31341 1ej2A 181 1.64e+01 1f9aA c.26.1.3 59414 1jeoA 180 1.66e+01 c.80.1.3 66611 1qd9A 124 1.66e+01 1qu9A d.79.1.1 39758 1f2tA 149 1.66e+01 1f2tA c.37.1.12 32373 2btfA 375 1.69e+01 1yagA c.55.1.1 33429 c.55.1.1 33430 1mxa 383 1.71e+01 1mxb d.130.1.1 41326 d.130.1.1 41327 d.130.1.1 41328 1pdz 434 1.73e+01 4enl c.1.11.1 29215 d.54.1.1 38859 1j9lA 247 1.76e+01 c.106.1.1 62762 1h2aS 317 1.81e+01 2frvA e.19.1.1 43311 1j5wA 298 1.81e+01 1k8tA 510 1.81e+01 e.9.1.4 68316 1gd1O 334 1.88e+01 1dssG c.2.1.3 29962 d.81.1.1 39877 1bvh 157 1.89e+01 1dg9A c.44.1.1 32640 1jdfA 447 1.96e+01 c.1.11.2 62897 d.54.1.1 62898 1svy 114 1.96e+01 1svy d.109.1.1 40831 1a5j 110 2.00e+01 1a5j a.4.1.3 16043 a.4.1.3 16044 1acx 108 2.01e+01 2mcm b.1.7.1 22211 1gosA 520 2.09e+01 c.3.1.2 65425 d.16.1.5 65426 1euvA 221 2.09e+01 1euvA d.3.1.7 37133 1ceqA 316 2.13e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 1nwpA 128 2.16e+01 1nwpA b.6.1.1 23011 1ig6A 107 2.23e+01 1ig6A a.4.3.2 62364 1qc5A 192 2.24e+01 1aoxA c.62.1.1 34147 1f6yA 262 2.25e+01 1f6yA c.1.21.2 29673 1fhuA 320 2.30e+01 1fhuA c.1.11.2 29234 d.54.1.1 38878 1lxtA 561 2.37e+01 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1ixh 321 2.37e+01 1ixh c.94.1.1 35761 1ejhA 190 2.41e+01 1ejhA d.86.1.1 40147 1qumA 285 2.47e+01 1qumA c.1.15.1 29393 1dwnA 127 2.48e+01 1dwnA d.85.1.1 40141 1qhhA 167 2.48e+01 1pjr c.37.1.13 32393 2tbd 134 2.49e+01 2tbd d.89.1.1 40241 1mh1 186 2.50e+01 1eesA c.37.1.8 32002 1qf5A 431 2.52e+01 1adeA c.37.1.10 32212 1dkgD 383 2.55e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1cx4A 305 2.56e+01 b.82.3.2 59099 b.82.3.2 59100 1gd5A 130 2.58e+01 1gd5A d.189.1.1 60439 1lbeA 258 2.58e+01 1lbeA e.4.1.1 42773 1g5cA 170 2.64e+01 1g5cA c.53.2.1 60264 1gesA 450 2.71e+01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 1tbd 134 2.72e+01 2tbd d.89.1.1 40240 1cviA 342 2.73e+01 1cviA c.60.1.2 33989 1hskA 326 2.74e+01 2mbr d.145.1.2 61241 d.146.1.1 61242 1hlgA 371 2.74e+01 1hlgA c.69.1.6 34656 1dgsA 667 2.75e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1aurA 218 2.76e+01 1auoA c.69.1.14 34718 1epbA 164 2.81e+01 1epaA b.60.1.1 27126 1epaA 164 2.81e+01 1epaA b.60.1.1 27128 1obpA 159 2.82e+01 1obpA b.60.1.1 27092 1yptA 305 2.86e+01 1ytw c.45.1.2 32686 1j98A 157 2.86e+01 1j98A d.185.1.2 62755 1qnf 484 2.88e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1kzhA 555 2.91e+01 1dd3C 32 2.94e+01 1dd3C a.108.1.1 19033 1kl9A 182 2.97e+01 1auoA 218 2.99e+01 1auoA c.69.1.14 34716 1ldg 316 3.07e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1lyvA 306 3.07e+01 1dn1A 594 3.09e+01 1dn1A e.25.1.1 43357 1mxb 383 3.10e+01 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 1hn2A 159 3.13e+01 b.60.1.1 65890 1onrA 316 3.16e+01 1onrA c.1.10.1 29169 2hpaA 342 3.21e+01 1cviA c.60.1.2 33985 1spgB 147 3.33e+01 1cg5B a.1.1.2 15588 1ytn 306 3.35e+01 1ytw c.45.1.2 32688 1iq4A 179 3.36e+01 1iq4A d.77.1.1 62641 1llp 343 3.45e+01 1arv a.93.1.1 18578 1ig3A 263 3.50e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1qj4A 257 3.52e+01 1qj4A c.69.1.20 34796 1yts 278 3.56e+01 1ytw c.45.1.2 32690 2mllB 255 3.60e+01 1abrB b.42.2.1 25567 b.42.2.1 25568 1ytw 306 3.63e+01 1ytw c.45.1.2 32689 1poc 134 3.68e+01 1poc a.133.1.1 19513 1rvv1 154 3.71e+01 1rvv1 1rvvA 154 3.71e+01 1rvv1 c.16.1.1 30927 1g99A 408 3.82e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1b8gA 429 3.83e+01 1b8gA c.67.1.4 34499 1e5pA 151 3.85e+01 1bj7 b.60.1.1 59272 1lki 180 3.86e+01 1lki a.26.1.1 16829 1h2rS 267 3.89e+01 2frvA e.19.1.1 43310 4blmA 265 3.91e+01 1btl e.3.1.1 42721 1yasA 257 3.97e+01 1qj4A c.69.1.20 34801 1bbhA 131 3.98e+01 1bbhA a.24.3.2 16546