# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1lr0A 129 3.05e-07 d.212.1.1 74213 1ihrA 76 1.42e-05 1ihrA d.212.1.2 62392 1ia9A 280 5.21e-01 1ia9A d.144.1.5 62113 1q48A 134 5.25e-01 unknown_sccs -9776 1mp9A 198 7.50e-01 a.74.1.2 -1127 a.74.1.2 -1128 1lktA 104 9.65e-01 1lktA b.90.1.1 28398 1o5uA 101 1.09e+00 b.82.1.8 -4845 1od3A 168 1.34e+00 b.18.1.10 86825 1oh0A 131 1.39e+00 d.17.4.3 87004 1ospO 257 1.41e+00 1ospO b.76.1.1 27971 1qexA 288 1.61e+00 1qexA b.32.1.1 24425 1oo0A 147 1.65e+00 d.232.1.1 87182 1urnA 97 1.70e+00 1urnA d.58.7.1 39153 1skoB 130 1.71e+00 3hhrB 203 1.73e+00 1axiB b.1.2.1 22005 b.1.2.1 22006 1opy 131 1.84e+00 1opy d.17.4.3 38113 1qnaA 200 2.37e+00 1ytbA d.129.1.1 41226 d.129.1.1 41227 1dmmA 131 2.39e+00 1opy d.17.4.3 38114 1rsy 152 2.47e+00 1rsy b.7.1.2 23192 1h16A 759 2.55e+00 c.7.1.1 76462 1bdyA 123 2.83e+00 1bdyA b.7.1.1 23190 1k8wA 327 3.24e+00 b.122.1.1 83094 unknown_sccs -10143 1st9A 143 3.34e+00 c.47.1.10 -7503 3cox 507 3.37e+00 1b8sA c.3.1.2 30332 d.16.1.1 37863 1oiaA 95 3.57e+00 d.58.7.1 87051 2trxA 108 3.79e+00 1thx c.47.1.1 32719 1b35B 255 3.81e+00 1b35B b.121.4.1 23334 1t4oA 117 3.90e+00 1cm5A 759 4.15e+00 1cm5A c.7.1.1 30671 1fxlA 167 4.88e+00 1b7fA d.58.7.1 39183 d.58.7.1 39184 1uy4A 145 5.08e+00 1q18A 332 5.28e+00 1ueoA 63 5.29e+00 unknown_sccs -13343 1lmiA 131 5.30e+00 b.1.19.1 78098 1j6qA 136 5.46e+00 b.40.9.1 77091 1pk6A 133 5.50e+00 b.22.1.1 -3287 1luqA 127 5.55e+00 b.61.1.1 -4500 1aisA 182 5.60e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1swuA 127 5.97e+00 1swuA b.61.1.1 27230 1lvwA 295 6.02e+00 c.68.1.6 84723 1g5cA 170 7.24e+00 1g5cA c.53.2.1 60264 1k5dB 201 7.52e+00 b.55.1.3 68169 1a8vA 121 8.22e+00 1a62 a.140.3.1 64712 b.40.4.5 64713 1ut7A 171 8.32e+00 unknown_sccs -4724 1xvaA 292 8.36e+00 1xvaA c.66.1.5 34183 1a62 130 8.37e+00 1a62 a.140.3.1 64708 b.40.4.5 64709 1itwA 741 8.50e+00 c.77.1.2 76793 1oa8A 133 9.59e+00 unknown_sccs -5142 1qa4A 57 1.01e+01 1qa4A j.52.1.1 46334 1j8bA 112 1.01e+01 d.222.1.1 77101 1bw3 125 1.02e+01 1bw4 b.52.1.2 26899 1d3bA 75 1.03e+01 1d3bA b.38.1.1 24798 1qqp3 220 1.04e+01 1qqp3 1orc 71 1.07e+01 1orc a.35.1.2 17054 1pk6B 132 1.11e+01 b.22.1.1 -3290 1axiB 236 1.15e+01 1axiB b.1.2.1 21997 b.1.2.1 21998 1mkeA 152 1.18e+01 b.55.1.4 79231 1tif 78 1.22e+01 1tif d.15.8.1 37836 1dxrH 258 1.29e+01 6prcH b.41.1.1 25456 f.23.10.1 43433 2trcP 217 1.30e+01 1b9yC c.47.1.6 33051 1r26A 125 1.30e+01 c.47.1.1 -7389 1n9lA 109 1.35e+01 d.110.3.6 85468 1n8jA 186 1.35e+01 c.47.1.10 85401 1bkjA 240 1.37e+01 1bkjA d.90.1.1 40243 1l0qA 391 1.38e+01 b.1.3.1 77644 b.69.2.3 77645 1qgwA 76 1.39e+01 1qgwA d.184.1.1 42616 1h7zA 194 1.40e+01 1qhvA b.21.1.1 60733 1oejA 193 1.44e+01 unknown_sccs -4461 1hleA 345 1.46e+01 1ovaA e.1.1.1 42618 1a79A 171 1.48e+01 1a79A c.52.2.1 33340 d.75.1.1 39739 1guiA 155 1.53e+01 b.18.1.14 76351 1k0rA 366 1.54e+01 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1f5vA 240 1.54e+01 1bkjA d.90.1.1 40255 1kngA 156 1.61e+01 c.47.1.10 72777 1oj5A 132 1.62e+01 unknown_sccs -10848 1m1hA 248 1.64e+01 b.114.1.1 78415 d.58.42.1 78416 1qmvA 197 1.65e+01 1qq2A c.47.1.10 33066 1txlA 215 1.66e+01 1kmtA 141 1.70e+01 b.1.18.8 77442 1gr3A 160 1.74e+01 b.22.1.1 65476 1nqjA 119 1.75e+01 b.23.2.1 86031 5croA 66 1.76e+01 1orc a.35.1.2 17044 1rg9A 383 1.78e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1r4xA 275 1.86e+01 unknown_sccs -2846 unknown_sccs -10776 1fc1A 224 1.87e+01 1igtB b.1.1.2 21520 b.1.1.2 21521 1a0rP 245 1.91e+01 1b9yC c.47.1.6 33054 1cqyA 99 1.95e+01 1b9zA b.3.1.1 22527 1g13A 162 1.95e+01 1g13A b.95.1.1 60194 1aym1 285 2.02e+01 1aym1 1ocvA 125 2.03e+01 d.17.4.3 86810 1pk6C 129 2.05e+01 b.22.1.1 -3293 1nciA 110 2.06e+01 1edhA b.1.6.1 22191 1ig3A 263 2.06e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1ezvD 245 2.11e+01 1be3D a.3.1.3 59546 f.23.11.1 59547 1pu5A 164 2.14e+01 1q98A 165 2.16e+01 c.47.1.10 -7499 1cdcA 99 2.16e+01 1cdcA b.1.1.1 19746 1dkzA 219 2.19e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 1ss4A 153 2.23e+01 1tuhA 156 2.29e+01 1vj2A 126 2.31e+01 unknown_sccs -4850 1f5mA 180 2.36e+01 1f5mB d.110.2.1 40895 1vetB 125 2.39e+01 1ugxA 133 2.40e+01 1h54A 754 2.46e+01 a.102.1.4 60634 b.30.5.3 60635 1qxhA 167 2.49e+01 c.47.1.10 -7496 1iwlA 182 2.51e+01 b.125.1.1 83757 1ux5A 411 2.52e+01 unknown_sccs -1768 1fsoA 139 2.54e+01 1rhoA b.1.18.8 60007 1v5sA 126 2.57e+01 1ri6A 343 2.62e+01 unknown_sccs -4621 1kb9H 93 2.65e+01 f.23.13.1 77323 1mp4A 292 2.65e+01 c.68.1.6 79376 1nxiA 132 2.83e+01 d.58.47.1 86381 1qfoA 119 2.91e+01 1qfoA b.1.1.1 19708 1bkf 107 2.97e+01 1fkj d.26.1.1 38382 1jj2P 95 2.97e+01 1ffkN b.34.5.1 63101 1gp1A 198 2.97e+01 1gp1A c.47.1.10 33059 1gzsB 165 3.00e+01 a.168.1.1 76425 1r75A 141 3.04e+01 unknown_sccs -3243 1s72Q 96 3.05e+01 1oxcA 114 3.10e+01 b.115.1.1 -3224 1qddA 144 3.16e+01 1qddA d.169.1.1 42324 1fltX 95 3.22e+01 1fltX b.1.1.4 21765 1tlk 154 3.23e+01 1tlk b.1.1.4 21707 1icxA 155 3.27e+01 d.129.3.1 71191 1nuyA 337 3.27e+01 e.7.1.1 86213 1n12A 138 3.28e+01 b.2.3.2 79779 1n6zA 105 3.32e+01 unknown_sccs 85369 1fxoA 293 3.34e+01 1g0rA c.68.1.6 34524 1s72H 171 3.34e+01 1h8eH 146 3.39e+01 1e79H b.93.1.1 60757 1pmhX 185 3.43e+01 1g2rA 100 3.44e+01 1g2rA d.192.1.1 60231 1vhsA 175 3.48e+01 d.108.1.1 -10794 1nj4A 363 3.48e+01 b.105.1.1 80545 e.3.1.1 80546 1dar 691 3.49e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1nh8A 304 3.49e+01 c.94.1.1 80507 d.58.5.3 80508 1hkfA 122 3.52e+01 b.1.1.1 83553 1s68A 249 3.54e+01 unknown_sccs -11253 1efnB 152 3.57e+01 1efnB d.102.1.1 40699 1d0qA 103 3.58e+01 1d0qA g.41.3.2 45208 1aw7A 194 3.61e+01 1aw7A b.40.2.2 25164 d.15.6.1 37753 1rrpB 134 3.64e+01 1rrpB b.55.1.3 26995 1bbt3 220 3.65e+01 1qqp3 1ckmA 330 3.70e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1neiA 60 3.73e+01 unknown_sccs -10324 1b77A 228 3.75e+01 1b77A d.131.1.2 41362 d.131.1.2 41363 1avmA 201 3.77e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 1rl4A 188 3.82e+01 d.167.1.1 -11593 1ci3M 249 3.92e+01 1hcz b.2.6.1 22480 b.84.2.2 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