# 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 2fbhA 146 4.04e-17 1z91A 147 4.59e-17 2a61A 145 4.77e-17 1jgsA 138 5.22e-16 a.4.5.28 66683 2fbiA 142 7.70e-16 1lnwA 147 3.87e-15 a.4.5.28 78104 2fbkA 181 9.55e-15 1s3jA 155 1.40e-14 a.4.5.28 98437 2ethA 154 2.08e-13 1lj9A 144 5.28e-13 a.4.5.28 78035 1p4xA 250 1.28e-07 a.4.5.28,a.4.5.28 87784,87785 2fxaA 207 5.31e-07 1f5tA 121 1.26e-05 1bi0 a.4.5.24,a.76.1.1 16203,18409 1ub9A 100 1.35e-05 a.4.5.28 99159 1ddnA 226 1.72e-05 1bi0 a.4.5.24,a.76.1.1 16207,18413 1on2A 142 2.62e-05 a.4.5.24,a.76.1.1 87103,87104 1b1bA 140 2.98e-05 1bi0 a.4.5.24,a.76.1.1 16215,18421 1fx7A 230 8.35e-05 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 60088,60089,60090 1bi0 226 1.51e-04 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16202,18408,24453 2dtr 226 2.75e-04 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16193,18399,24450 1c0wA 225 2.94e-04 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16211,18417,24455 1z7uA 112 3.27e-02 1sfxA 109 3.71e-02 a.4.5.50 105505 2b0lA 102 3.89e-02 2g7uA 257 2.04e-01 1ulyA 192 2.05e-01 1mkmA 249 2.29e-01 a.4.5.33,d.110.2.2 79242,79243 1ge9A 184 3.05e-01 1dd5A d.67.3.1 60463 1ixcA 294 3.09e-01 a.4.5.37,c.94.1.1 83764,83765 1iz1A 294 3.65e-01 a.4.5.37,c.94.1.1 83823,83824 1tbxA 99 4.49e-01 a.4.5.48 106748 1dpuA 99 5.80e-01 1dpuA a.4.5.16 16150 1yyvA 131 5.97e-01 1z1dA 103 6.22e-01 1hw5A 210 6.63e-01 2cgpA a.4.5.4,b.82.3.2 16098,28137 2f2eA 146 8.36e-01 1ev7B 317 9.20e-01 1ev7B c.52.1.9 33316 1iawA 317 9.35e-01 c.52.1.9 62126 1sd4A 126 9.95e-01 a.4.5.39 105428 2co5A 99 1.12e+00 2fcwA 109 1.25e+00 1ev7A 317 1.25e+00 1ev7B c.52.1.9 33315 1xnpA 202 1.26e+00 1i6xA 209 1.34e+00 a.4.5.4,b.82.3.2 83673,83674 2b5gA 171 1.35e+00 1r1tA 122 1.37e+00 a.4.5.5 104769 1i1sA 96 1.44e+00 1bjaA a.4.5.9 16124 2cgpA 210 1.45e+00 2cgpA a.4.5.4,b.82.3.2 16102,28141 1je8A 82 1.70e+00 a.4.6.2 77108 1qsoA 149 1.93e+00 1qsmA d.108.1.1 40812 1a04A 215 2.06e+00 1a04A a.4.6.2,c.23.1.1 16234,31089 1okrA 123 2.15e+00 a.4.5.39 93269 1bjaA 95 2.27e+00 1bjaA a.4.5.9 16122 1smtA 122 2.34e+00 1smtA a.4.5.5 16109 2cfxA 144 2.47e+00 1qsmA 152 2.70e+00 1qsmA d.108.1.1 40808 1zx4A 192 2.74e+00 1bw6A 56 2.89e+00 1bw6A a.4.1.7 16052 1r1uA 106 2.97e+00 a.4.5.5 104771 1e3aA 260 3.25e+00 1ajqA d.153.1.2 41838 1j75A 67 3.49e+00 a.4.5.19 62673 1g6nA 210 3.55e+00 2cgpA a.4.5.4,b.82.3.2 16100,28139 1smtB 122 3.96e+00 1smtA a.4.5.5 16110 2eshA 118 3.99e+00 2g0qA 173 4.18e+00 2dc3A 193 4.83e+00 1xn7A 78 5.12e+00 2bjcA 62 5.22e+00 1xmaA 145 5.57e+00 1j7nB 776 5.80e+00 d.92.1.14,d.92.1.14,d.166.1.1 66412,66413,66414 1puzA 82 5.82e+00 a.218.1.1 104320 1qgpA 77 5.98e+00 1qbjA a.4.5.19 16158 1vgjA 184 6.28e+00 1urvA 190 7.19e+00 1ut0A 190 7.19e+00 a.1.1.2 108012 1r4kA 169 7.23e+00 b.34.14.1 96997 1x6iA 91 7.40e+00 1mc0A 368 7.51e+00 d.110.2.1,d.110.2.1 78937,78938 2cohA 202 7.75e+00 1p7gA 222 8.52e+00 a.2.11.1,d.44.1.1 94223,94224 2es4D 332 8.65e+00 1zljA 78 8.78e+00 1zkrA 153 9.05e+00 1ft9A 222 9.58e+00 1ft9A a.4.5.4,b.82.3.1 16107,28131 2g5cA 281 9.90e+00 1a0oD 134 1.05e+01 1eayC d.58.24.1 39391 1vdxA 184 1.09e+01 1b9mA 265 1.11e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1efaA 333 1.12e+01 1tlfA a.35.1.5,c.93.1.1 17106,35691 1t5yA 190 1.13e+01 b.122.1.1,d.17.6.3 106495,106496 1j7nA 776 1.16e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1repC 251 1.16e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1aj4 161 1.17e+01 1ncx a.39.1.5 17244 1hlvA 131 1.17e+01 a.4.1.7,a.4.1.7 65854,65855 2ftuA 118 1.18e+01 1fjgM 126 1.19e+01 1fjfM a.156.1.1 16293 1lqc 56 1.22e+01 1pru a.35.1.5 17109 1qzzA 374 1.36e+01 a.4.5.29,c.66.1.12 96719,96720 1yqyA 523 1.37e+01 2beiA 170 1.43e+01 1q4rA 112 1.43e+01 d.58.4.4 95823 2a1vA 144 1.49e+01 1wgsA 133 1.61e+01 1s1hM 132 1.61e+01 i.1.1.1 105165 1yw5A 177 1.67e+01 1jwhC 215 1.69e+01 g.41.4.1 71915 2fswA 107 1.77e+01 1cjgA 62 1.78e+01 1pru a.35.1.5 17112 2h6bA 250 1.88e+01 1yf3A 259 1.88e+01 1di6A 195 1.89e+01 1di6A c.57.1.1 33863 1owxA 121 1.91e+01 d.58.7.1 87494 1a0hA 159 1.92e+01 1a0hA b.47.1.2,g.14.1.1 26229,44655 1f3hA 142 1.92e+01 1f3hA g.52.1.1 45381 1lea 84 1.93e+01 1lea a.4.5.2 16085 1xmrA 243 1.97e+01 1utxA 66 1.98e+01 a.35.1.3 108034 1qbjA 81 2.01e+01 1qbjA a.4.5.19 16155 1qtrA 317 2.03e+01 1qtrA c.69.1.7 34660 1js8A 394 2.13e+01 a.86.1.1,b.112.1.1 67219,67220 1ctf 74 2.17e+01 1ctf d.45.1.1 38759 1ro5A 201 2.21e+01 d.108.1.3 105023 2fu4A 83 2.28e+01 1pvmA 184 2.36e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1lcdA 51 2.36e+01 1pru a.35.1.5 17111 1w85A 368 2.36e+01 1dcnA 424 2.50e+01 1auwA a.127.1.1 19420 2fe7A 166 2.53e+01 1wm1A 317 2.59e+01 c.69.1.7 109405 1hy0A 466 2.59e+01 1auwA a.127.1.1 61392 1e2xA 243 2.66e+01 1e2xA a.4.5.6,a.78.1.1 16113,18443 1gk9A 260 2.68e+01 d.153.1.2 65246 1g1sA 162 2.70e+01 d.169.1.1,g.3.11.1 65100,65101 1lccA 51 2.71e+01 1pru a.35.1.5 17110 1hu3A 260 2.78e+01 1hu3A a.118.1.14 19137 1odd 118 2.78e+01 1opc a.4.6.1 16232 1l0wA 580 2.90e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1w33A 181 2.90e+01 1nlfA 279 2.90e+01 c.37.1.11 85850 2b67A 204 2.94e+01 1t44G 147 2.97e+01 d.109.1.1 106395 2gnrA 145 3.04e+01 1rifA 282 3.09e+01 c.37.1.23 97507 1sqwA 188 3.16e+01 1wjtA 103 3.18e+01 1ywxA 102 3.19e+01 1gm7A 209 3.23e+01 d.153.1.2 65302 1wf3A 301 3.29e+01 1rm6A 769 3.30e+01 1vhmA 195 3.35e+01 d.110.2.1 100691 1hw1A 239 3.36e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1xqoA 256 3.39e+01 1ys7A 233 3.43e+01 1j5yA 187 3.51e+01 a.4.5.1,d.94.2.1 71592,71593 1w5fA 353 3.51e+01 1g3uA 214 3.57e+01 c.37.1.1 65132 1u2wA 122 3.59e+01 1wmqA 147 3.60e+01 1tjvA 474 3.72e+01 a.127.1.1 107054 1n3kA 130 3.73e+01 a.77.1.4 79965 1efvB 255 3.78e+01 1efvB c.26.2.3 31634 1auwA 468 3.79e+01 1auwA a.127.1.1 19416 1opc 110 3.81e+01 1opc a.4.6.1 16231 1g8yA 279 3.83e+01 1g8yA c.37.1.11 32302 1in4A 334 3.83e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1jbgA 109 3.84e+01 a.6.1.3 66480 1ajqA 209 3.89e+01 1ajqA d.153.1.2 41840 1aab 83 3.95e+01 1cktA a.21.1.1 16420 2ge3A 170 4.03e+01 1k7wA 468 4.05e+01 a.127.1.1 72130 1m33A 258 4.13e+01 c.69.1.26 78514 1ai7A 209 4.15e+01 1ajqA d.153.1.2 41845 1in6A 334 4.23e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1fu1B 203 4.44e+01 1fu1B b.59.1.1,h.1.11.1 27077,45631 1lki 180 4.48e+01 1lki a.26.1.1 16829 2ganA 190 4.49e+01 1jhfA 202 4.52e+01 a.4.5.2,b.87.1.1 63057,63058 1zzaA 90 4.53e+01 1ml4A 308 4.54e+01 c.78.1.1,c.78.1.1 79255,79256 1dcnD 436 4.54e+01 1auwA a.127.1.1 19423 1bg7 176 4.58e+01 2fha a.25.1.1 16686 1u3eM 174 4.67e+01 d.4.1.3,d.285.1.1 107640,107641 1fyhA 258 4.81e+01 1d9cA a.26.1.3,a.26.1.3 16907,16908 1a52A 258 4.89e+01 3erdA a.123.1.1 19296 1lqwA 183 4.91e+01 d.167.1.1 74210 1zbqA 327 4.92e+01 2furA 209 4.93e+01 1lmhA 184 5.07e+01 d.167.1.1 74036 1zs9A 261 5.08e+01 1smeA 329 5.10e+01 1smrA b.50.1.2 26885 1fmjA 351 5.15e+01 c.37.1.5 59879 1xwoA 465 5.16e+01 2cfmA 561 5.21e+01 1ncx 162 5.24e+01 1ncx a.39.1.5 17222 1ufaA 520 5.26e+01 a.8.3.3,c.6.2.4 99329,99330 1gzqA 300 5.39e+01 b.1.1.2,d.19.1.1 70818,70819 1xqbA 247 5.40e+01 1aosA 464 5.47e+01 1auwA a.127.1.1 19414 1gtvA 214 5.60e+01 c.37.1.1 70537 1f2tB 148 5.63e+01 1f2tB 1i1gA 141 5.69e+01 a.4.5.32,d.58.4.2 65982,65983 2bv1A 145 5.72e+01 1jvr 137 5.79e+01 1jvr a.61.1.2 18132 1jvpP 298 5.82e+01 d.144.1.7 67371 1a26 361 5.92e+01 1a26 a.41.1.1,d.166.1.2 17412,42274 1jqjC 343 5.93e+01 a.80.1.1,c.37.1.20 67097,67098 1ez3A 127 5.95e+01 1dn1B a.47.2.1 17768 1hcl 298 5.96e+01 1hcl d.144.1.7 41593 1k8tA 510 6.18e+01 e.41.1.1 68316 1jr3D 343 6.19e+01 a.80.1.1,c.37.1.20 63251,63252 2ixmA 303 6.20e+01 1fwp 139 6.20e+01 1eayC d.58.24.1 39396 1qs2A 401 6.25e+01 1qs1A d.166.1.1,d.166.1.1 42268,42269 1lf2A 331 6.29e+01 b.50.1.2 77914 1vmbA 140 6.29e+01 2fueA 262 6.38e+01 1myt 146 6.40e+01 1a6m a.1.1.2 15207 1ax8 146 6.59e+01 1ax8 a.26.1.1 16844 1sdoA 203 6.70e+01 c.52.1.21 98809 2fgeA 995 6.77e+01 2eiaB 206 6.78e+01 1eia a.28.3.1,a.73.1.1 16950,18330 1puoA 170 6.82e+01 a.101.1.1,a.101.1.1 95134,95135 1rkiA 102 6.85e+01 1gz6A 319 6.86e+01 c.2.1.2 76410 1q87A 221 6.87e+01 e.47.1.1 96192 2frfA 153 6.89e+01 1h6zA 913 6.90e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1dwtA 153 6.93e+01 1a6m a.1.1.2 15190 1z67A 135 6.99e+01 1howA 373 7.01e+01 1hcl d.144.1.7 41679 1gjnA 153 7.10e+01 a.1.1.2 70191 6paxA 133 7.13e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1of5B 184 7.14e+01 d.17.4.2 86934 1v4xA 144 7.16e+01 a.1.1.2 108363 1bib 321 7.18e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 2a4hA 126 7.19e+01 1wzdA 215 7.19e+01 1yx0A 159 7.23e+01 1lxjA 104 7.26e+01 d.58.48.1 84736 1zboA 210 7.32e+01 1ztsA 139 7.54e+01 1i0aA 466 7.55e+01 1auwA a.127.1.1 61479 2fztA 79 7.59e+01 2b5oA 402 7.60e+01 1i2hA 168 7.67e+01 b.55.1.4 71103 2lfb 100 7.82e+01 1lfb a.4.1.1 15990 1spiA 358 7.85e+01 1frpA e.7.1.1 42939 1top 162 8.00e+01 1ncx a.39.1.5 17223 2bgcA 238 8.18e+01 1a7e 118 8.18e+01 2mhr a.24.4.1 16583 2aa1A 144 8.20e+01 1vmaA 306 8.41e+01 a.24.13.1,c.37.1.10 108887,108888 1iw0A 215 8.42e+01 a.132.1.1 83720 1jftA 340 8.44e+01 a.35.1.5,c.93.1.1 66652,66653 3ertA 261 8.46e+01 3erdA a.123.1.1 19292 1u9lA 70 8.47e+01 a.60.4.2 107751 1tu7A 208 8.48e+01 1vkbA 161 8.50e+01 d.269.1.1 108643 1fafA 79 8.58e+01 1fafA a.2.3.1 15700 3kinB 117 8.66e+01 3kinB 1thqA 170 8.68e+01 f.4.1.2 106920 1efyA 350 8.70e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1e1xA 299 8.71e+01 1hcl d.144.1.7 59157 1v38A 78 8.73e+01 a.60.1.2 100280 2ahmA 88 8.85e+01 2fhi 147 8.85e+01 1fit d.13.1.1 37505 1q1hA 110 8.88e+01 a.4.5.41 95580 1zug 71 8.90e+01 1r69 a.35.1.2 17041