# List of top-scoring protein chains for t2k-100-30-near-backbone-11-scores 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 1culA 217 2.01e+00 1azsA d.58.29.1 39417 1debA 54 2.03e+00 1debA h.1.18.1 45660 1cjtA 217 2.09e+00 1azsA d.58.29.1 39419 1azsA 220 2.25e+00 1azsA d.58.29.1 39416 2ghpA 292 4.37e+00 1sflA 238 5.29e+00 2az4A 429 6.22e+00 1whzA 70 6.45e+00 1dtdA 303 6.71e+00 1aye c.56.5.1 33823 1q8bA 105 6.96e+00 d.58.4.6 96201 1ns5A 155 7.01e+00 c.116.1.3 80705 1sfjA 238 9.12e+00 1f45B 197 9.88e+00 1f45B a.26.1.1 59642 1h4xA 117 1.00e+01 1auz c.13.2.1 60626 2aucA 126 1.09e+01 1cq3A 233 1.14e+01 1cq3A b.27.1.1 23923 1jkw 323 1.15e+01 1jkw a.74.1.1,a.74.1.1 18356,18357 2cw9A 194 1.17e+01 1sesA 421 1.30e+01 1sesA a.2.7.1,d.104.1.1 15710,40710 1tp4A 97 1.32e+01 a.189.1.1 107183 1y8aA 332 1.38e+01 1ithA 141 1.53e+01 1ithA a.1.1.2 15623 1lg2A 365 1.57e+01 c.1.8.5,d.26.3.1 77950,77951 2ftuA 118 1.64e+01 1kxu 333 1.71e+01 1jkw a.74.1.1,a.74.1.1 18358,18359 1t56A 216 1.72e+01 a.4.1.9,a.121.1.1 106428,106429 1kdxA 81 1.77e+01 1kdxA a.12.1.1 16375 1a5t 334 1.88e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1tidB 119 1.88e+01 c.13.2.1 107000 1aye 401 2.03e+01 1aye c.56.5.1,d.58.3.1 33824,39065 1nh1A 330 2.05e+01 e.45.1.1 91871 1p9iA 31 2.34e+01 h.1.10.1 94390 2axpA 173 2.40e+01 2a6cA 83 2.88e+01 1fnmA 691 2.93e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 25709,32144,37546,39302,39303 1aj6 219 2.94e+01 1aj6 d.122.1.2 41106 1js8A 394 3.00e+01 a.86.1.1,b.112.1.1 67219,67220 1mwmA 320 3.06e+01 c.55.1.1,c.55.1.1 79580,79581 2cu1A 103 3.13e+01 1o6dA 163 3.15e+01 c.116.1.3 92567 1sb0A 87 3.20e+01 a.12.1.1 98789 1ab4 477 3.26e+01 1ab4 e.11.1.1 43251 191l 164 3.35e+01 1l92 d.2.1.3 36826 1cd9C 175 3.37e+01 1bgc a.26.1.1 16816 1u00A 227 3.40e+01 2fggA 101 3.55e+01 1wb0A 445 3.56e+01 1y7pA 223 3.58e+01 1bc8C 93 3.64e+01 1awcA a.4.5.21 16168 1ybxA 143 3.68e+01 1tmzA 32 3.74e+01 1tmzA k.1.1.1 46376 1mugA 168 3.74e+01 1mugA c.18.1.2 31030 1f1mA 164 3.81e+01 1ggqA a.24.12.1 59598 1h67A 108 3.87e+01 a.40.1.1 65643 1mg4A 113 3.89e+01 d.15.11.1 84953 1v54F 98 3.97e+01 g.41.5.3 100327 1hqvA 191 4.04e+01 1hqvA a.39.1.8 61160 1mwqA 101 4.04e+01 d.58.4.7 91481 1nwwA 149 4.06e+01 d.17.4.8 86306 1ad1A 266 4.09e+01 1aj2 c.1.21.1 29668 2adoA 196 4.11e+01 2mysB 166 4.15e+01 1wdcB a.39.1.5 17308 151l 164 4.27e+01 1l92 d.2.1.3 36944 157l 164 4.32e+01 1l92 d.2.1.3 36717 1fmhA 33 4.34e+01 1fmhB k.6.1.1 46409 1pveA 72 4.39e+01 a.189.1.1 104322 1z0sA 278 4.42e+01 1o6zA 303 4.44e+01 c.2.1.5,d.162.1.1 81107,81108 2etxA 209 4.45e+01 1yyaA 250 4.48e+01 172l 164 4.52e+01 1l92 d.2.1.3 36905 1r4xA 275 4.53e+01 b.1.10.3,d.105.1.2 97054,97055 1pvgA 418 4.59e+01 d.14.1.3,d.122.1.2 95161,95162 1ihjA 98 4.80e+01 1pdr b.36.1.1 62382 2occF 98 4.80e+01 2occF g.41.5.3 45256 1l8dA 112 4.81e+01 h.4.12.1 73687 162l 164 4.83e+01 1l92 d.2.1.3 36749 169lA 164 4.84e+01 1l92 d.2.1.3 36963 180lA 164 4.89e+01 1l92 d.2.1.3 36867 1x4tA 92 4.90e+01 146l 164 4.94e+01 1l92 d.2.1.3 36763 2ezi 75 4.94e+01 2ezh a.4.1.2 16028 1gqnA 252 4.95e+01 c.1.10.1 90514 1v9dA 340 4.96e+01 a.207.1.1 100535 1eq1A 166 4.98e+01 a.63.1.1 64910 1r9cA 139 5.02e+01 d.32.1.2 97255 149l 164 5.05e+01 1l92 d.2.1.3 36959 1t6fA 37 5.06e+01 h.1.28.1 106565 1hwyA 501 5.08e+01 1hwyA c.2.1.7,c.58.1.1 30262,33910 1qamA 244 5.09e+01 2ercA c.66.1.24 34220 1j8bA 112 5.09e+01 d.222.1.1 77101 1hkkA 364 5.18e+01 c.1.8.5,d.26.3.1 90634,90635 2f4mB 61 5.20e+01 1m12A 84 5.20e+01 a.64.1.1 84745 165l 164 5.23e+01 1l92 d.2.1.3 36680 1v71A 323 5.26e+01 1vl6A 388 5.27e+01 c.2.1.7,c.58.1.3 108724,108725 1vqoC 246 5.38e+01 1s50A 259 5.42e+01 1j8yF 297 5.45e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1lssA 140 5.46e+01 c.2.1.9 74246 1c4zA 358 5.46e+01 1c4zA d.148.1.1 41766 1uddA 226 5.50e+01 a.132.1.3 107776 1sx7A 164 5.51e+01 119l 164 5.63e+01 1l92 d.2.1.3 36622 1ad4A 266 5.65e+01 1aj2 c.1.21.1 29670 103l 167 5.68e+01 1l92 d.2.1.3 36870 1zx5A 300 5.69e+01 1xxbA 78 5.77e+01 1xxaA d.74.2.1 39706 1go4E 100 5.80e+01 h.1.22.1 70296 1mukA 1267 5.81e+01 e.8.1.4 79492 166l 164 5.82e+01 1l92 d.2.1.3 36681 1dvh 79 5.85e+01 1c53 a.3.1.1 15802 199l 164 5.86e+01 1l92 d.2.1.3 36855 1hruA 188 5.89e+01 1hruA d.115.1.1 40926 109l 164 5.89e+01 1l92 d.2.1.3 36781 141l 164 5.91e+01 1l92 d.2.1.3 36863 122l 164 5.92e+01 1l92 d.2.1.3 36667 168lA 164 5.93e+01 1l92 d.2.1.3 36975 1l3iA 192 5.98e+01 c.66.1.22 77676 113l 164 6.02e+01 1l92 d.2.1.3 36678 1oqcA 125 6.02e+01 a.24.15.1 87264 1z5rA 306 6.02e+01 1s72C 246 6.08e+01 c.22.1.1 105321 1z9bA 135 6.08e+01 1cgo 127 6.08e+01 1cpq a.24.3.2 16550 127l 164 6.09e+01 d.2.1.3 36745 107l 164 6.10e+01 1l92 d.2.1.3 36690 1qfeA 252 6.10e+01 1qfeA c.1.10.1 29167 144l 164 6.11e+01 1l92 d.2.1.3 36893 111l 164 6.24e+01 1l92 d.2.1.3 36661 110l 164 6.24e+01 1l92 d.2.1.3 36684 198l 164 6.33e+01 1l92 d.2.1.3 36785 1xvxA 312 6.33e+01 1lk3A 160 6.36e+01 a.26.1.3 73950 131l 164 6.40e+01 1l92 d.2.1.3 36685 128l 164 6.41e+01 1l92 d.2.1.3 36634 164l 164 6.42e+01 1l92 d.2.1.3 36714 1x2iA 75 6.42e+01 1swyA 164 6.46e+01 123l 164 6.50e+01 1l92 d.2.1.3 36697 1ig5A 75 6.53e+01 4icb a.39.1.1 62363 1jj2C 246 6.53e+01 1ffkC c.22.1.1 63087 2axoA 270 6.53e+01 2cybA 323 6.57e+01 155l 164 6.58e+01 1l92 d.2.1.3 36762 1yub 245 6.60e+01 2ercA c.66.1.24 34219 1j8mF 297 6.61e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 163l 164 6.64e+01 1l92 d.2.1.3 36658 1suwA 249 6.64e+01 e.52.1.1 106027 1ce9A 34 6.66e+01 1ce9C h.1.3.1 45483 156l 164 6.75e+01 1l92 d.2.1.3 36709 130l 164 6.78e+01 1l92 d.2.1.3 36638 159l 164 6.79e+01 1l92 d.2.1.3 36682 1ir6A 424 6.81e+01 c.107.1.2 71342 1a4iB 301 6.83e+01 1a4iA c.2.1.7,c.58.1.2 30279,33927 1lu4A 136 6.84e+01 c.47.1.10 91124 167lA 164 6.85e+01 1l92 d.2.1.3 36937 1foeA 377 6.87e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 1dc1A 323 6.88e+01 1dc1A c.52.1.11 33321 1bgeB 175 6.91e+01 1bgc a.26.1.1 16824 145l 164 6.93e+01 1l92 d.2.1.3 36860 1f5vA 240 6.93e+01 1bkjA d.90.1.1 40255 1l9wA 252 6.96e+01 c.1.10.1 84570 118l 164 6.97e+01 1l92 d.2.1.3 36642 1pzdA 322 6.98e+01 b.1.10.3,d.105.1.2 95413,95414 125l 164 7.04e+01 1l92 d.2.1.3 36672 161l 164 7.06e+01 1l92 d.2.1.3 36636 1i1sA 96 7.07e+01 1bjaA a.4.5.9 16124 1jgsA 138 7.09e+01 a.4.5.28 66683 2bl0B 145 7.10e+01 196l 164 7.10e+01 1l92 d.2.1.3 36927 1qtnA 164 7.14e+01 1pauA c.17.1.1 30999 1bgeA 175 7.15e+01 1bgc a.26.1.1 16823 2dvh 79 7.22e+01 1c53 a.3.1.1 15803 1ja9A 274 7.28e+01 c.2.1.2 62817 1qysA 106 7.31e+01 k.41.1.1 96603 2bw2A 140 7.39e+01 1x75A 132 7.44e+01 2ezh 75 7.45e+01 2ezh a.4.1.2 16029 1b71A 191 7.45e+01 1ryt a.25.1.1,g.41.5.1 16647,45246 1b6iA 164 7.46e+01 1l92 d.2.1.3 36945 1reqB 637 7.47e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1pt6A 213 7.49e+01 c.62.1.1 95091 1bgc 174 7.55e+01 1bgc a.26.1.1 16822 1p36A 164 7.65e+01 d.2.1.3 93978 195l 164 7.71e+01 1l92 d.2.1.3 36841 1a4iA 301 7.74e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 1cyu 98 7.77e+01 1stfI d.17.1.2 38004 1q44A 326 7.78e+01 c.37.1.5 95779 197l 164 7.81e+01 1l92 d.2.1.3 36911 1vctA 205 7.85e+01 189l 164 7.86e+01 1l92 d.2.1.3 36960 143l 164 7.86e+01 1l92 d.2.1.3 36857 2fcwA 109 7.88e+01 1cviA 342 7.92e+01 1cviA c.60.1.2 33989 1lw9A 164 7.95e+01 d.2.1.3 84727 1d1dA 262 8.00e+01 1d1dA a.28.3.1,a.73.1.1 16958,18335 1pueE 89 8.01e+01 1awcA a.4.5.21 16165 129l 164 8.03e+01 1l92 d.2.1.3 36660 120l 164 8.05e+01 1l92 d.2.1.3 36720 2bl8A 103 8.07e+01 1diaA 306 8.12e+01 1a4iA c.2.1.7,c.58.1.2 30280,33928 140l 164 8.12e+01 1l92 d.2.1.3 36891 1j4wA 174 8.16e+01 d.51.1.1,d.51.1.1 71529,71530 1s72V 71 8.19e+01 a.2.2.1 105341 1xxaA 78 8.20e+01 1xxaA d.74.2.1 39700 152l 164 8.26e+01 1l92 d.2.1.3 36904 1kddA 36 8.28e+01 h.1.3.1 68472 1q77A 138 8.28e+01 c.26.2.4 96023 1kkoA 413 8.29e+01 c.1.11.2,d.54.1.1 68675,68676 1ce9C 34 8.31e+01 1ce9C h.1.3.1 45485 1l92 164 8.34e+01 1l92 d.2.1.3 36629 137lA 164 8.38e+01 1l92 d.2.1.3 36791 1zzoA 136 8.45e+01 1wt4A 73 8.47e+01 158l 164 8.55e+01 1l92 d.2.1.3 36747 1nmeA 146 8.56e+01 c.17.1.1 85874 142l 164 8.59e+01 1l92 d.2.1.3 36874 1fm0E 150 8.64e+01 1fmaE d.41.5.1 38629 1ci6B 63 8.64e+01 1ci6B h.1.3.1 45549 139l 164 8.65e+01 1l92 d.2.1.3 36643 1kd9A 36 8.66e+01 h.1.3.1 68466 1ru8A 232 8.66e+01 c.26.2.1 97849 1ryt 190 8.83e+01 1ryt a.25.1.1,g.41.5.1 16646,45245 1cf3A 583 8.83e+01 1gpeA c.3.1.2,d.16.1.1 30385,37949 160l 164 8.85e+01 1l92 d.2.1.3 36748 2g8lA 299 8.92e+01 1vqoV 71 8.98e+01 2g76A 335 8.99e+01