# List of top-scoring protein chains for t2k-100-30-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 2g7uA 257 1.52e-12 1mkmA 249 3.29e-04 a.4.5.33,d.110.2.2 79242,79243 1ft9A 222 6.39e-03 1ft9A a.4.5.4,b.82.3.1 16107,28131 1q1hA 110 1.03e-02 a.4.5.41 95580 1qgpA 77 7.57e-02 1qbjA a.4.5.19 16158 2fbhA 146 1.39e-01 1bib 321 2.10e-01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 2b0lA 102 2.58e-01 1u2wA 122 3.05e-01 1lj9A 144 3.15e-01 a.4.5.28 78035 2gauA 232 4.14e-01 1bia 321 4.91e-01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1qbjA 81 5.94e-01 1qbjA a.4.5.19 16155 1ulyA 192 1.25e+00 1qzzA 374 1.27e+00 a.4.5.29,c.66.1.12 96719,96720 1sfxA 109 1.30e+00 a.4.5.50 105505 1yqtA 538 1.94e+00 1r1tA 122 2.13e+00 a.4.5.5 104769 2cw8A 537 2.34e+00 1smtB 122 2.43e+00 1smtA a.4.5.5 16110 2fxaA 207 2.56e+00 1jlwA 219 2.69e+00 a.45.1.1,c.47.1.5 71741,71742 2bjcA 62 2.83e+00 1i6xA 209 2.85e+00 a.4.5.4,b.82.3.2 83673,83674 1j5yA 187 3.08e+00 a.4.5.1,d.94.2.1 71592,71593 2cgpA 210 3.08e+00 2cgpA a.4.5.4,b.82.3.2 16102,28141 1r7jA 95 3.11e+00 a.4.5.49 104836 1j75A 67 3.19e+00 a.4.5.19 62673 1e2xA 243 3.69e+00 1e2xA a.4.5.6,a.78.1.1 16113,18443 1smtA 122 4.10e+00 1smtA a.4.5.5 16109 1u2xA 474 4.32e+00 c.72.1.3 107622 2fu4A 83 4.73e+00 1g6nA 210 5.34e+00 2cgpA a.4.5.4,b.82.3.2 16100,28139 2a61A 145 5.61e+00 1ecl 597 5.64e+00 1ecl e.10.1.1 43238 1hw1A 239 5.93e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1mw9X 592 6.27e+00 e.10.1.1 91480 2guhA 214 6.59e+00 1rktA 205 6.61e+00 a.4.1.9,a.121.1.1 97623,97624 1tm9A 137 6.66e+00 a.225.1.1 107150 1lvaA 258 7.03e+00 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1s3jA 155 7.18e+00 a.4.5.28 98437 1ao8 162 7.57e+00 3dfr c.71.1.1 34883 1orjA 130 7.86e+00 a.24.19.1 93456 2arcA 164 7.93e+00 2arcA b.82.4.1 28148 1g7dA 106 8.01e+00 1g7dA a.71.1.1 18318 1b1bA 140 8.39e+00 1bi0 a.4.5.24,a.76.1.1 16215,18421 1jgsA 138 8.98e+00 a.4.5.28 66683 1wojA 214 9.23e+00 1derA 547 9.46e+00 1derA 2cvhA 220 1.02e+01 1hw5A 210 1.02e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1ovnA 248 1.04e+01 a.71.1.1,c.47.1.7 93602,93603 1mkrA 294 1.08e+01 a.93.1.1 84997 1j7gA 144 1.08e+01 c.110.1.1 84130 1bf2 750 1.18e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1fpxA 352 1.19e+01 1fpxA a.4.5.29,c.66.1.12 59950,59951 2aacA 177 1.21e+01 2arcA b.82.4.1 28150 1wdvA 152 1.23e+01 1u5tB 169 1.27e+01 a.4.5.54,a.4.5.54 107686,107687 1dseA 292 1.32e+01 1ryc a.93.1.1 59130 1lnwA 147 1.35e+01 a.4.5.28 78104 2arcB 164 1.36e+01 2arcA b.82.4.1 28149 1mun 225 1.42e+01 1mun a.96.1.2 18744 1nuuA 252 1.46e+01 c.26.1.3 86209 2cohA 202 1.48e+01 1kp8A 547 1.48e+01 a.129.1.1,c.8.5.1,d.56.1.1 84414,84415,84416 1muyA 225 1.57e+01 1mun a.96.1.2 18745 1fp2A 352 1.59e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1adeA 431 1.60e+01 1adeA c.37.1.10 32213 2h0uA 217 1.62e+01 2fp4B 395 1.66e+01 1hiwA 133 1.71e+01 1hiwA a.61.1.1 18122 2gm3A 175 1.79e+01 2es9A 115 1.81e+01 1hcz 252 1.81e+01 1hcz b.2.6.1,b.84.2.2 22464,28250 2acjA 66 1.91e+01 2pcfB 250 2.00e+01 1hcz i.4.1.1 45911 1ir21 140 2.08e+01 1gk8I 140 2.10e+01 d.73.1.1 65242 1eucB 396 2.11e+01 2scuB c.23.4.1,d.142.1.4 31149,41570 1xnpA 202 2.12e+01 1lcdA 51 2.12e+01 1pru a.35.1.5 17111 1ub9A 100 2.13e+01 a.4.5.28 99159 1on2A 142 2.16e+01 a.4.5.24,a.76.1.1 87103,87104 1k0nA 241 2.16e+01 a.45.1.1,c.47.1.5 67953,67954 256bA 106 2.21e+01 256bA a.24.3.1 16539 2ethA 154 2.21e+01 1qf5A 431 2.21e+01 1adeA c.37.1.10 32212 1dw9A 156 2.28e+01 1dw9A a.35.1.4,d.72.1.1 17065,39596 1cjgA 62 2.34e+01 1pru a.35.1.5 17112 1f5tA 121 2.38e+01 1bi0 a.4.5.24,a.76.1.1 16203,18409 1bt3A 345 2.40e+01 1bt3A a.86.1.2 18507 1lccA 51 2.41e+01 1pru a.35.1.5 17110 1fy7A 278 2.44e+01 1fy7A d.108.1.1 40817 1i1sA 96 2.51e+01 1bjaA a.4.5.9 16124 1fokA 568 2.63e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16137,16138,16139,33325 1lqc 56 2.72e+01 1pru a.35.1.5 17109 1d3uB 201 2.73e+01 1aisB a.74.1.2,a.74.1.2 18386,18387 2h6bA 250 2.75e+01 1xwnA 174 2.77e+01 1i6uA 130 2.77e+01 d.140.1.1 61850 1fjlA 81 2.79e+01 2hddA a.4.1.1 16017 1dwkA 156 2.83e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1t33A 224 2.96e+01 a.4.1.9,a.121.1.1 106295,106296 2cyp 294 3.12e+01 1ryc a.93.1.1 18600 1u6zA 513 3.19e+01 2fokA 579 3.22e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1ayyA 151 3.28e+01 1apyA d.153.1.5 42016 1gr5A 547 3.34e+01 i.16.1.1 65478 1mzhA 225 3.38e+01 c.1.10.1 79698 1nhkL 144 3.58e+01 1npk d.58.6.1 39142 2givA 295 3.71e+01 1a2f 291 3.74e+01 1ryc a.93.1.1 18619 1ac4 294 3.87e+01 1ryc a.93.1.1 18657 1a2g 291 3.88e+01 1ryc a.93.1.1 18620 1us8A 147 3.98e+01 c.37.1.12 99859 1qwdA 177 4.06e+01 b.60.1.1 96471 1eudB 396 4.09e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1rztA 331 4.13e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1j7iA 264 4.17e+01 1j7iA d.144.1.6 62694 1in4A 334 4.17e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1bjaA 95 4.21e+01 1bjaA a.4.5.9 16122 1z77A 200 4.26e+01 1ldjA 760 4.26e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1ufmA 84 4.31e+01 a.4.5.47 107816 1eu1A 780 4.31e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 3dfr 162 4.38e+01 3dfr c.71.1.1 34880 1sbp 310 4.38e+01 1sbp c.94.1.1 35760 1w36B 1180 4.40e+01 1i1gA 141 4.44e+01 a.4.5.32,d.58.4.2 65982,65983 1hjrA 158 4.47e+01 1hjrA c.55.3.6 33727 1efaA 333 4.51e+01 1tlfA a.35.1.5,c.93.1.1 17106,35691 1c9bA 207 4.52e+01 1tfb a.74.1.2,a.74.1.2 18372,18373 2axpA 173 4.52e+01 2csbA 519 4.58e+01 1yyvA 131 4.59e+01 1jdrA 294 4.61e+01 1ryc a.93.1.1 62908 1in6A 334 4.61e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1ccg 291 4.63e+01 1ryc a.93.1.1 18627 1ds4A 292 4.65e+01 1ryc a.93.1.1 59129 1jo8A 58 4.67e+01 b.34.2.1 71774 1sffA 426 4.68e+01 c.67.1.4 105482 1z53A 294 4.77e+01 1volA 204 4.78e+01 1tfb a.74.1.2,a.74.1.2 18370,18371 1vi0A 206 4.82e+01 a.4.1.9,a.121.1.1 100720,100721 1aisB 200 4.84e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1zbyA 294 4.91e+01 1ic7H 114 4.92e+01 1f3rB b.1.1.1 62258 1uxc 65 4.95e+01 1uxc a.35.1.5 17119 1y0gA 191 5.01e+01 1qagA 226 5.01e+01 1qagA a.40.1.1,a.40.1.1 17400,17401 1pb6A 212 5.01e+01 a.4.1.9,a.121.1.1 88017,88018 1xl7A 612 5.03e+01 2bkkA 264 5.04e+01 1tu9A 134 5.09e+01 a.1.1.2 107320 2fq4A 192 5.11e+01 1tzaA 134 5.16e+01 b.1.23.1 107468 1ryc 294 5.20e+01 1ryc a.93.1.1 18601 1v66A 65 5.23e+01 2be1A 339 5.25e+01 2cblA 305 5.27e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1asu 162 5.33e+01 1cxqA c.55.3.2 33626 1o4wA 147 5.37e+01 c.120.1.1 86629 1c8pA 102 5.43e+01 1c8pA b.1.2.1 22040 2cyeA 133 5.50e+01 1eetA 557 5.57e+01 1rthA c.55.3.1,e.8.1.2 33608,43078 1j1xH 114 5.59e+01 b.1.1.1 77063 1vpgA 192 5.61e+01 2bbkL 125 5.62e+01 2bbkL g.21.1.1 44882 1v7bA 185 5.65e+01 1pbtA 244 5.67e+01 c.124.1.1 94416 1vhnA 318 5.69e+01 c.1.4.1 100693 2dbbA 151 5.78e+01 1lmeA 176 5.82e+01 d.167.1.1 84629 2cx5A 158 5.82e+01 1fzvA 132 5.83e+01 1vpfA g.17.1.1 60159 1bbn 133 5.90e+01 1rcb a.26.1.2 16861 1bdc 60 6.10e+01 1fc2C a.8.1.1 16350 1ddnA 226 6.17e+01 1bi0 a.4.5.24,a.76.1.1 16207,18413 1h6pA 203 6.37e+01 a.146.1.1 60690 1wc9A 169 6.39e+01 1tffA 234 6.46e+01 d.3.1.11 106854 1v38A 78 6.47e+01 a.60.1.2 100280 1yw3A 208 6.48e+01 2eutA 294 6.51e+01 1sr8A 298 6.52e+01 e.54.1.1 105959 1k0mA 241 6.62e+01 a.45.1.1,c.47.1.5 67949,67950 1opc 110 6.68e+01 1opc a.4.6.1 16231 1baq 139 6.77e+01 1baq 1o7eA 276 6.85e+01 e.3.1.1 92622 1yvhA 329 6.97e+01 1bg2 325 7.03e+01 1bg2 c.37.1.9 32189 1vl1A 232 7.10e+01 c.124.1.1 108707 1n4oA 276 7.25e+01 e.3.1.1 91621 1odd 118 7.28e+01 1opc a.4.6.1 16232 1ku3A 73 7.29e+01 a.4.13.2 73000 1oe9A 795 7.35e+01 b.34.3.1,c.37.1.9 92792,92793 1lfpA 249 7.46e+01 e.39.1.1 73885 1ydyA 356 7.49e+01 2fbiA 142 7.50e+01 1vjzA 341 7.55e+01 c.1.8.3 100838 1dbuA 158 7.62e+01 1dbuA d.116.1.1 40930 2a10A 125 7.62e+01 1bouB 302 7.66e+01 1bouB c.56.6.1 33859 1ui5A 215 7.75e+01 a.4.1.9,a.121.1.1 107856,107857 1t8qA 336 7.83e+01 c.1.18.3 106669 1aroP 883 7.99e+01 1cezA e.8.1.3 43112 1k8kG 151 8.00e+01 a.118.13.1 68313 1mzbA 136 8.21e+01 a.4.5.42 91497 1b4uB 302 8.40e+01 1bouB c.56.6.1 33861 1twfJ 70 8.43e+01 1wkuA 254 8.52e+01 1uxd 65 8.54e+01 1uxc a.35.1.5 17118 2f4mA 295 8.72e+01 2gu2A 312 8.72e+01 1b0nA 111 8.73e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064