# 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 1n3gA 113 1.69e+00 d.204.1.1 79962 1jpaA 312 1.80e+00 d.144.1.7 67011 1q18A 332 2.20e+00 c.55.1.7,c.55.1.7 104470,104471 1sz2A 332 2.25e+00 1sedA 117 2.47e+00 a.219.1.1 105449 1m9xC 146 2.89e+00 a.73.1.1 84907 1tbmA 326 3.99e+00 a.211.1.2 106744 1vj5A 555 4.27e+00 c.108.1.2,c.69.1.11 100799,100800 1zboA 210 4.95e+00 2furA 209 5.12e+00 2occC 261 5.27e+00 1ocrC f.25.1.1 43520 1zd3A 555 5.72e+00 1k2xA 177 6.66e+00 d.153.1.5 90929 1v54C 261 6.70e+00 f.25.1.1 100324 1mzbA 136 7.11e+00 a.4.5.42 91497 2esnA 310 7.71e+00 1bd8 156 8.07e+00 1bd8 d.211.1.1 19157 2f1sA 186 8.57e+00 1zejA 293 9.01e+00 1b4pA 217 9.15e+00 a.45.1.1,c.47.1.5 83158,83159 1keyA 235 9.18e+00 a.118.16.1 72389 1xw5A 217 9.57e+00 1ugpA 203 9.73e+00 d.149.1.1 107831 2bbrA 195 9.79e+00 1yqyA 523 1.01e+01 1m7sA 484 1.08e+01 e.5.1.1 74574 1ireA 204 1.12e+01 d.149.1.1 76769 2fiyA 309 1.12e+01 1xo0A 324 1.13e+01 1gewA 356 1.14e+01 1gewA c.67.1.1 60470 2c4jA 218 1.15e+01 2azeA 155 1.16e+01 1m6kA 251 1.18e+01 e.3.1.1 78695 1q8cA 151 1.21e+01 a.79.1.2 96202 1t8kA 77 1.28e+01 a.28.1.1 106666 1ha3A 405 1.36e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1jhgA 101 1.40e+01 1jhgA a.4.12.1 19009 2aheA 267 1.42e+01 1f44A 324 1.44e+01 a.60.9.1,d.163.1.1 64982,64983 2cj4A 150 1.44e+01 1vgmA 378 1.46e+01 1hx1B 114 1.49e+01 1hx1B a.7.7.1 61350 1fpoA 171 1.60e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1obbA 480 1.64e+01 c.2.1.5,d.162.1.2 86760,86761 1yurA 98 1.65e+01 1ggzA 148 1.66e+01 a.39.1.5 70176 1amuA 563 1.69e+01 1amuA e.23.1.1 43351 1rzhL 281 1.71e+01 f.26.1.1 98164 1br1B 150 1.79e+01 1wdcC a.39.1.5 17309 1uekA 275 1.81e+01 d.14.1.5,d.58.26.5 88483,88484 1ux5A 411 1.83e+01 a.207.1.1 100144 2fu4A 83 1.83e+01 2a6hA 315 1.85e+01 1eemA 241 1.89e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1exmA 405 1.90e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1o9rA 162 1.97e+01 a.25.1.1 86706 6gsvA 217 2.16e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1h6zA 913 2.23e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 2iu5A 195 2.24e+01 1kblA 873 2.25e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1li5A 461 2.27e+01 a.27.1.1,c.26.1.1 73912,73913 1o6dA 163 2.30e+01 c.116.1.3 92567 2ethA 154 2.31e+01 1qo7A 394 2.34e+01 1qo7A c.69.1.11 34697 2ccmA 191 2.42e+01 1zjjA 263 2.53e+01 1jj2O 148 2.62e+01 1ffkM a.94.1.1 63100 2cblA 305 2.63e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1di6A 195 2.69e+01 1di6A c.57.1.1 33863 2aamA 309 2.70e+01 1l6sA 323 2.72e+01 c.1.10.3 73627 1o8rA 94 2.76e+01 d.234.1.1 86677 1l0iA 78 2.78e+01 a.28.1.1 77643 1c7nA 399 2.81e+01 1d2fA c.67.1.3 34413 1n2fA 142 2.95e+01 d.227.1.1 79853 1fhuA 320 2.95e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 1vqoP 149 2.97e+01 1xwl 580 2.98e+01 1xwl c.55.3.5,e.8.1.1 33708,43001 1es5A 262 3.02e+01 1skf e.3.1.1 42679 1wa8A 99 3.03e+01 2end 138 3.05e+01 2end a.18.1.1 16400 1li5B 461 3.07e+01 a.27.1.1,c.26.1.1 73914,73915 1mw5A 187 3.09e+01 d.259.1.1 91477 1yarA 233 3.10e+01 1esiA 262 3.10e+01 1skf e.3.1.1 42682 1h6hA 143 3.14e+01 d.189.1.1 65681 1jogA 146 3.20e+01 a.24.16.2 77142 2d2sA 235 3.21e+01 4crxA 322 3.22e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1v4eA 299 3.23e+01 a.128.1.1 100296 1i8jA 323 3.26e+01 1b4kA c.1.10.3 61968 1ylmA 144 3.32e+01 1opjA 293 3.37e+01 d.144.1.7 87230 1vjrA 271 3.44e+01 c.108.1.14 100832 1jhdA 396 3.50e+01 b.122.1.3,c.26.1.5 66712,66713 1w2fA 276 3.54e+01 d.143.1.3 109125 1tzvA 142 3.60e+01 a.79.1.1 107526 1h5zA 455 3.62e+01 a.104.1.1 90622 1sq5A 308 3.62e+01 c.37.1.6 105882 1gcqC 70 3.63e+01 1gcpA b.34.2.1 60436 1u7lA 392 3.69e+01 1umgA 362 3.70e+01 d.280.1.1 107956 1b5eA 246 3.73e+01 1b5eA d.117.1.1 41056 1o5kA 306 3.73e+01 c.1.10.1 92504 1t0cA 31 3.76e+01 1fazA 122 3.79e+01 1fazA a.133.1.3 59757 1s72P 149 3.80e+01 a.94.1.1 105335 2fpmA 322 3.85e+01 1jeyA 609 3.85e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 1kr7A 110 3.85e+01 a.1.1.4 72890 1lwbA 122 3.88e+01 a.133.1.3 84728 1x8vA 455 3.96e+01 1u4bA 580 3.96e+01 c.55.3.5,e.8.1.1 107664,107665 2bidA 197 4.00e+01 2bidA f.1.4.1 43398 1hdiA 413 4.01e+01 16pk c.86.1.1 60964 1k6kA 143 4.06e+01 a.174.1.1 77274 1yw0A 276 4.06e+01 2ew2A 316 4.12e+01 1nk4A 580 4.27e+01 c.55.3.5,e.8.1.1 91923,91924 1v7nV 163 4.28e+01 a.26.1.2 100476 1ajsA 412 4.31e+01 1ajsA c.67.1.1 34276 1zybA 232 4.33e+01 1px5A 349 4.36e+01 a.160.1.2,d.218.1.6 95277,95278 1v54G 85 4.38e+01 f.23.2.1 100328 1yv5A 374 4.42e+01 1iieA 75 4.55e+01 1iieA a.109.1.1 19039 1zbfA 142 4.58e+01 1yz7A 188 4.59e+01 1ufzA 83 4.59e+01 a.5.9.1 107821 1yvrA 538 4.60e+01 1eu8A 409 4.60e+01 1eu8A c.94.1.1 59502 1fg7A 356 4.65e+01 1gewA c.67.1.1 59819 1z8uA 102 4.65e+01 1wwuA 99 4.67e+01 2avuE 192 4.71e+01 2fb5A 205 4.76e+01 2f60K 64 4.90e+01 1i0aA 466 4.91e+01 1auwA a.127.1.1 61479 1w9iA 770 4.94e+01 2a6hE 99 4.99e+01 1e6iA 121 5.06e+01 1b91A a.29.2.1 16969 1y01A 102 5.19e+01 1a0rP 245 5.21e+01 1b9yC c.47.1.6 33054 2occE 109 5.36e+01 2occE a.118.11.1 19224 1zs3A 182 5.37e+01 2bv5A 282 5.43e+01 2b7aA 293 5.45e+01 1rx0A 393 5.52e+01 a.29.3.1,e.6.1.1 98007,98008 1v9mA 323 5.56e+01 f.40.1.1 100543 2a6nA 292 5.58e+01 2afdA 88 5.59e+01 1zt2B 212 5.59e+01 1tn4 159 5.60e+01 1ncx a.39.1.5 17248 1u6rA 380 5.61e+01 1rfzA 168 5.68e+01 a.195.1.1 97411 1x6vA 630 5.69e+01 2gdjA 264 5.76e+01 2b1xA 470 5.80e+01 1gcvB 136 5.81e+01 1cg5B a.1.1.2 15589 1p4xA 250 5.85e+01 a.4.5.28,a.4.5.28 87784,87785 1whrA 124 5.85e+01 1d2eA 397 5.85e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1y3nA 490 5.89e+01 2occG 84 5.93e+01 2occG f.23.2.1 43522 1l3sA 580 5.95e+01 c.55.3.5,e.8.1.1 84521,84522 1b06A 210 5.97e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1n8vA 112 5.98e+01 a.118.21.1 85457 1zq9A 285 5.98e+01 1e9xA 455 6.00e+01 1ea1A a.104.1.1 18969 1o7kA 131 6.00e+01 d.189.1.1 81144 2c78A 405 6.00e+01 1v2xA 194 6.04e+01 c.116.1.1 100274 1exrA 148 6.08e+01 1cll a.39.1.5 17299 1e44B 96 6.18e+01 1e44B b.101.1.1 59220 1ihp 438 6.26e+01 1ihp c.60.1.2 33993 1pa7A 130 6.26e+01 a.40.1.1 94410 2akrA 285 6.34e+01 1o65A 246 6.34e+01 b.58.1.2 92544 2b3oA 532 6.35e+01 2fk8A 318 6.36e+01 1r6wA 322 6.40e+01 c.1.11.2,d.54.1.1 97165,97166 1ssqA 267 6.45e+01 b.81.1.6 105993 1tns 76 6.46e+01 1qpmA a.6.1.7 16228 1w0bA 102 6.47e+01 a.7.11.1 108985 1u13A 455 6.55e+01 a.104.1.1 107578 1oe9A 795 6.56e+01 b.34.3.1,c.37.1.9 92792,92793 2a6lA 292 6.67e+01 1w2wA 211 6.67e+01 c.124.1.5 109130 1y82A 157 6.76e+01 1fp3A 402 6.77e+01 1fp3A a.102.1.3 18842 1n1bA 549 6.80e+01 a.102.4.1,a.128.1.3 79799,79800 1yxcA 292 6.90e+01 2culA 232 6.92e+01 1uk5A 111 6.92e+01 a.7.7.1 99487 1mp8A 281 6.93e+01 d.144.1.7 91384 2bijA 305 6.95e+01 2btdA 210 6.97e+01 1g7oA 215 6.97e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1dlyA 164 7.01e+01 1dlyA a.1.1.1 14983 1bouB 302 7.20e+01 1bouB c.56.6.1 33859 1iyhA 198 7.20e+01 a.45.1.1,c.47.1.5 83790,83791 1qwgA 251 7.22e+01 c.1.27.1 96473 1eumA 165 7.28e+01 1eumA a.25.1.1 59507 1nh1A 330 7.29e+01 e.45.1.1 91871 1v9dA 340 7.33e+01 a.207.1.1 100535 1wpbA 172 7.35e+01 1ax8 146 7.41e+01 1ax8 a.26.1.1 16844 2bl0C 142 7.52e+01 1q7bA 244 7.59e+01 c.2.1.2 96026 3pvaA 335 7.60e+01 3pvaA d.153.1.3 41854 2f94F 350 7.67e+01 1u5dA 108 7.78e+01 1z0pA 84 7.83e+01 1wekA 217 7.89e+01 1iyxA 432 7.91e+01 c.1.11.1,d.54.1.1 83815,83816 1tqyA 424 7.94e+01 c.95.1.1,c.95.1.1 107245,107246 1lddA 74 8.02e+01 a.4.5.34 73841 1vkmA 297 8.03e+01 c.138.1.1 108670 1t4gA 322 8.10e+01 a.60.4.1,c.37.1.11 106418,106419 1ycsB 239 8.18e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 1bku 33 8.18e+01 1bku j.6.1.1 46104 1z2uA 150 8.22e+01 1a6q 382 8.25e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1x9zA 188 8.25e+01 1n2aA 201 8.37e+01 a.45.1.1,c.47.1.5 91553,91554 2akaA 776 8.42e+01 1rj1A 151 8.47e+01 a.29.6.1 97526 2bzlA 325 8.48e+01 2occH 85 8.48e+01 2occH a.51.1.1 17796 1g4yR 148 8.53e+01 1cll a.39.1.5 60252 1b74A 254 8.54e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1v54E 109 8.55e+01 a.118.11.1 100326 1tkeA 224 8.60e+01 1wmaA 276 8.65e+01 1g9zA 152 8.76e+01 1bp7A d.95.2.1 60408 1nwaA 203 8.76e+01 d.58.28.1 86295 1zb1A 392 8.80e+01 1b79A 119 8.81e+01 1b79A a.81.1.1 18451 1dhpA 292 8.84e+01 1dhpA c.1.10.1 29097 1idrA 136 8.92e+01 1dlyA a.1.1.1 62301 1qh4A 380 8.98e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1no1A 126 8.98e+01 a.179.1.1 85913