# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1lj9A 144 1.09e-13 a.4.5.28 78035 1lnwA 147 9.00e-12 a.4.5.28 78104 1jgsA 138 1.06e-11 a.4.5.28 66683 1s3jA 155 1.52e-11 a.4.5.28 -227 1q1hA 110 4.76e-09 unknown_sccs -262 1ub9A 100 5.73e-08 a.4.5.28 -231 1smtB 122 5.81e-08 1smtA a.4.5.5 16110 1r1tA 122 5.85e-08 1r1uA 106 8.08e-08 1smtA 122 9.81e-08 1smtA a.4.5.5 16109 1p4xA 250 7.22e-07 a.4.5.28 87784 a.4.5.28 87785 1mkmA 249 1.25e-06 a.4.5.33 79242 d.110.2.2 79243 1i1gA 141 4.50e-06 a.4.5.32 65982 d.58.4.2 65983 1okrA 123 7.96e-06 unknown_sccs -235 1on2A 142 2.88e-05 a.4.5.24 87103 a.76.1.1 87104 1ft9A 222 1.01e-04 1ft9A a.4.5.4 16107 b.82.3.1 28131 1tbxA 99 1.85e-04 1bib 321 4.43e-04 1bia a.4.5.1 16084 b.34.1.1 24448 d.104.1.2 40788 1qzzA 374 6.71e-04 a.4.5.29 -277 c.66.1.12 -8045 1bia 321 1.19e-03 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1ddnA 226 1.62e-03 1bi0 a.4.5.24 16207 a.76.1.1 18413 1bjaA 95 2.30e-03 1bjaA a.4.5.9 16122 1j5yA 187 2.39e-03 a.4.5.1 71592 d.94.2.1 71593 6paxA 133 3.25e-03 6paxA a.4.1.5 64758 a.4.1.5 64759 1bi0 226 3.26e-03 1bi0 a.4.5.24 16202 a.76.1.1 18408 b.34.1.2 24453 1mzbA 136 3.56e-03 unknown_sccs -266 1hw5A 210 3.71e-03 2cgpA a.4.5.4 16098 b.82.3.2 28137 1e2xA 243 4.28e-03 1e2xA a.4.5.6 16113 a.78.1.1 18443 2dtr 226 4.33e-03 1bi0 a.4.5.24 16193 a.76.1.1 18399 b.34.1.2 24450 1je8A 82 4.34e-03 a.4.6.2 77108 1dpuA 99 4.73e-03 1dpuA a.4.5.16 16150 2cgpA 210 4.96e-03 2cgpA a.4.5.4 16102 b.82.3.2 28141 1hw1A 239 5.22e-03 1e2xA a.4.5.6 16111 a.78.1.1 18441 1i1sA 96 5.48e-03 1bjaA a.4.5.9 16124 1jhfA 202 6.39e-03 a.4.5.2 63057 b.87.1.1 63058 1k78A 149 9.55e-03 a.4.1.5 68255 a.4.1.5 68256 1iz1A 294 1.46e-02 a.4.5.37 83823 c.94.1.1 83824 1fp2A 352 2.34e-02 1fpxA a.4.5.29 59941 c.66.1.12 59942 1lea 84 2.43e-02 1lea a.4.5.2 16085 1fpxA 352 2.85e-02 1fpxA a.4.5.29 59950 c.66.1.12 59951 1qgpA 77 3.02e-02 1qbjA a.4.5.19 16158 1a04A 215 3.40e-02 1a04A a.4.6.2 16234 c.23.1.1 31089 1r7jA 95 5.15e-02 1in6A 334 6.10e-02 1hqcA a.4.5.11 62601 c.37.1.20 62602 1s7oA 113 7.21e-02 1b9mA 265 7.83e-02 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1ixcA 294 8.04e-02 a.4.5.37 83764 c.94.1.1 83765 1f4kA 122 8.31e-02 1bm9A a.4.5.7 59646 1pdnC 128 9.56e-02 6paxA a.4.1.5 16047 1bm9A 122 1.07e-01 1bm9A a.4.5.7 16116 1bw6A 56 1.11e-01 1bw6A a.4.1.7 16052 1in4A 334 1.20e-01 1hqcA a.4.5.11 62597 c.37.1.20 62598 1mgtA 174 1.31e-01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1fseA 74 1.51e-01 1fseA a.4.6.2 60000 1lvaA 258 1.72e-01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1trrA 107 1.87e-01 1jhgA a.4.12.1 19017 1hlvA 131 2.45e-01 a.4.1.7 65854 a.4.1.7 65855 1fp1D 372 2.58e-01 1fpqA a.4.5.29 59939 c.66.1.12 59940 1aisB 200 2.66e-01 1aisB a.74.1.2 18384 a.74.1.2 18385 1g2hA 61 2.79e-01 1g2hA unknown_sccs 60224 2tct 207 2.80e-01 2tct a.4.1.9 16063 a.121.1.1 19240 1j75A 67 3.28e-01 a.4.5.19 62673 1p4wA 99 3.75e-01 a.4.6.2 87783 1bjz 207 3.97e-01 2tct a.4.1.9 16065 a.121.1.1 19242 1hqcA 324 4.13e-01 1hqcA a.4.5.11 16127 c.37.1.20 32424 1jhgA 101 4.29e-01 1jhgA a.4.12.1 19009 1d3uB 201 4.44e-01 1aisB a.74.1.2 18386 a.74.1.2 18387 1lqc 56 4.45e-01 1pru a.35.1.5 17109 1qbjA 81 4.83e-01 1qbjA a.4.5.19 16155 1lccA 51 6.08e-01 1pru a.35.1.5 17110 2wrpR 107 6.98e-01 1jhgA a.4.12.1 19010 1lcdA 51 7.53e-01 1pru a.35.1.5 17111 1xxcA 78 8.53e-01 1xxaA d.74.2.1 39712 1oyiA 82 8.65e-01 a.4.5.19 -292 1rboC 123 8.85e-01 1rboC d.73.1.1 39634 1xxbA 78 1.02e+00 1xxaA d.74.2.1 39706 1ufmA 84 1.03e+00 1lliA 92 1.06e+00 1lmb3 a.35.1.2 17025 1xxaA 78 1.14e+00 1xxaA d.74.2.1 39700 8rucI 123 1.15e+00 1rboC d.73.1.1 39629 1omiA 248 1.26e+00 a.4.5.4 87079 b.82.3.3 87080 1uxc 65 1.33e+00 1uxc a.35.1.5 17119 1fy7A 278 1.35e+00 1fy7A d.108.1.1 40817 1e19A 314 1.41e+00 1b7bA c.73.1.1 34967 1uxd 65 1.53e+00 1uxc a.35.1.5 17118 1q06A 135 1.58e+00 a.6.1.3 -375 1k8tA 510 1.66e+00 e.41.1.1 68316 1ldjA 760 1.67e+00 a.4.5.34 73847 a.118.17.1 73848 e.40.1.1 73849 1i6uA 130 1.69e+00 d.140.1.1 61850 1cf7B 95 1.94e+00 1cf7B a.4.5.17 16152 1nqzA 194 1.99e+00 d.113.1.1 86077 1rcsA 105 2.38e+00 1jhgA a.4.12.1 19025 1or7A 194 2.43e+00 a.4.13.2 87332 a.177.1.1 87333 1odd 118 2.46e+00 1opc a.4.6.1 16232 1opc 110 2.60e+00 1opc a.4.6.1 16231 1dgnA 89 2.68e+00 1dgnA a.77.1.3 18436 1b4aA 149 3.09e+00 1b4aA a.4.5.3 16088 d.74.2.1 39721 1b0nA 111 3.11e+00 1b0nA a.34.1.1 17001 a.35.1.3 17064 1qqiA 104 3.21e+00 1opc a.4.6.1 16233 1p9qC 256 3.22e+00 2or1L 69 3.33e+00 1r69 a.35.1.2 17031 1dxrM 323 3.38e+00 6prcM f.26.1.1 43432 6prcM 323 3.51e+00 6prcM f.26.1.1 43435 1r69 69 3.61e+00 1r69 a.35.1.2 17028 1jj2O 148 3.77e+00 1ffkM a.94.1.1 63100 1whsA 255 3.85e+00 1ivyA c.69.1.5 34649 1qpzA 340 3.87e+00 1qpzA a.35.1.5 17097 c.93.1.1 35673 1pru 56 4.01e+00 1pru a.35.1.5 17104 1l0oC 243 4.03e+00 a.4.13.2 73405 1vpwA 340 4.16e+00 1qpzA a.35.1.5 17087 c.93.1.1 35680 1t95A 240 4.17e+00 1ffkM 148 4.47e+00 1ffkM a.94.1.1 18740 1whtA 256 4.62e+00 1ivyA c.69.1.5 34646 1lmb3 92 4.91e+00 1lmb3 1wetA 340 4.94e+00 1qpzA a.35.1.5 17093 c.93.1.1 35670 1bcsA 263 5.54e+00 1ivyA c.69.1.5 34647 1zug 71 5.96e+00 1r69 a.35.1.2 17041 1s72P 149 6.02e+00 1fzpB 123 6.25e+00 1fznD a.4.5.28 19008 1e68A 70 6.26e+00 1e68A a.64.2.1 18144 1iae 200 6.33e+00 1iae d.92.1.8 40311 1ast 200 6.36e+00 1iae d.92.1.8 40310 1p2fA 220 6.61e+00 a.4.6.1 87720 c.23.1.1 87721 1iab 200 6.94e+00 1iae d.92.1.8 40312 1c9fA 90 7.18e+00 1c9fA d.15.2.1 37639 1ic8A 194 7.20e+00 a.4.1.1 76740 a.35.1.1 76741 1kgsA 225 7.22e+00 a.4.6.1 68596 c.23.1.1 68597 1o82A 70 8.22e+00 a.64.2.1 -1084 1o8vA 134 8.35e+00 b.60.1.2 86680 1hjp 203 8.38e+00 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 2cro 71 8.49e+00 1r69 a.35.1.2 17038 1gxqA 106 8.57e+00 a.4.6.1 70721 1bdg 451 9.25e+00 1qhaA c.55.1.3 33461 c.55.1.3 33462 1bp3A 191 1.06e+01 1huw a.26.1.1 16838 1r4aA 165 1.11e+01 c.37.1.8 -7089 1cy9A 264 1.11e+01 1ecl e.10.1.1 43236 1ezvF 125 1.15e+01 1be3F f.27.1.1 59550 1r71A 178 1.25e+01 1f7uA 607 1.25e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1m7kA 99 1.26e+01 a.7.7.1 74573 1qnf 484 1.27e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1dwkA 156 1.27e+01 1dw9A a.35.1.4 17075 d.72.1.1 39606 1owlA 484 1.29e+01 a.99.1.1 -1296 c.28.1.1 -6646 1foeA 377 1.30e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1rhcA 330 1.36e+01 c.1.16.3 -5606 1dw9A 156 1.44e+01 1dw9A a.35.1.4 17065 d.72.1.1 39596 1seiA 130 1.44e+01 1seiA d.140.1.1 41463 1i60A 278 1.47e+01 c.1.15.4 71118 1oj7A 408 1.59e+01 1fokA 568 1.61e+01 2fokA a.4.5.12 16137 a.4.5.12 16138 a.4.5.12 16139 c.52.1.12 33325 1mai 131 1.64e+01 1mai b.55.1.1 26951 1kyoG 126 1.67e+01 f.27.1.1 73259 1qgoA 264 1.68e+01 1qgoA c.92.1.2 35596 1nglA 179 1.73e+01 1nglA b.60.1.1 27146 1kb9G 125 1.77e+01 f.27.1.1 77322 2fokA 579 1.79e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1du6A 64 1.79e+01 1akhA a.4.1.1 16002 1ako 268 1.80e+01 1ako d.151.1.1 41779 1nr3A 122 1.81e+01 d.236.1.1 86092 1bs2A 607 1.83e+01 1bs2A a.27.1.1 16930 c.26.1.1 31597 d.67.2.1 39563 1res 43 1.91e+01 1ret a.4.1.2 16023 1fgyA 127 1.92e+01 1faoA b.55.1.1 26976 1taq 832 1.97e+01 1taq a.60.7.1 18082 c.120.1.2 33352 c.55.3.5 33698 e.8.1.1 42991 1ret 43 1.98e+01 1ret a.4.1.2 16024 1d1rA 116 2.00e+01 1d1rA d.64.1.1 39548 1neu 124 2.05e+01 1neu b.1.1.1 19704 1gz0A 253 2.08e+01 c.116.1.1 76391 d.79.3.3 76392 1gewA 356 2.11e+01 1gewA c.67.1.1 60470 1l3lA 234 2.19e+01 a.4.6.2 73541 d.110.5.1 73542 1r4xA 275 2.23e+01 unknown_sccs -2846 unknown_sccs -10776 1dik 874 2.30e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1mrzA 293 2.35e+01 b.43.5.1 -4048 c.26.1.3 -6616 1nu5A 370 2.42e+01 c.1.11.2 -5565 d.54.1.1 -9823 1gdtA 183 2.55e+01 2rslA a.4.1.2 16021 c.53.1.1 33348 1uptA 171 2.60e+01 c.37.1.8 -7085 1i7fA 292 2.67e+01 1i7fA d.193.1.1 61888 1ltm 320 2.70e+01 1ltm d.2.1.6 36992 1myt 146 2.74e+01 1a6m a.1.1.2 15207 1h9fA 57 2.74e+01 1h9fA a.140.1.1 60826 1kblA 873 2.78e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1p8cA 145 2.83e+01 unknown_sccs -1927 1kn6A 90 2.96e+01 d.58.3.3 72770 3rubS 123 2.99e+01 1rboC d.73.1.1 39616 1hw7A 255 3.01e+01 1i7fA d.193.1.1 61297 1uyrA 737 3.05e+01 c.14.1.4 -6258 c.14.1.4 -6259 1b72B 87 3.09e+01 1akhA a.4.1.1 16001 1vkeA 133 3.10e+01 1fnnA 389 3.16e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1rzsA 61 3.20e+01 1ghc 75 3.26e+01 1hstA a.4.5.13 16142 1b24A 188 3.29e+01 1b24A d.95.2.1 40573 d.95.2.1 40574 1tns 76 3.33e+01 1qpmA a.6.1.7 16228 1fehA 574 3.41e+01 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1f0zA 66 3.43e+01 1f0zA d.15.3.2 37644 1gm6A 175 3.45e+01 b.60.1.1 70272 1qusA 322 3.62e+01 1ltm d.2.1.6 36991 1fxlA 167 3.66e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 2kinA 238 3.67e+01 1bg2 c.37.1.9 32190 1qwkA 317 3.68e+01 c.1.7.1 -5237 1jggA 60 3.69e+01 2hddA a.4.1.1 62950 1bh5A 183 3.79e+01 1qipA d.32.1.1 38476 1nhkL 144 3.79e+01 1npk d.58.6.1 39142 1pufB 73 3.88e+01 a.4.1.1 -192 1aoy 78 3.93e+01 1aoy a.4.5.3 16087