# 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 2ghrA 302 4.55e-54 1wl8A 189 3.52e-22 1gpmA 525 2.89e-19 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1o1yA 239 4.49e-14 c.23.16.1 86554 1qdlB 195 7.64e-12 1qdlB c.23.16.1 31437 1i7qB 193 1.57e-10 1qdlB c.23.16.1 61902 1i1qB 192 4.87e-10 1qdlB c.23.16.1 61544 1cs0B 382 1.28e-08 1c3oB c.8.3.1,c.23.16.1 30740,31417 1a9xB 379 1.89e-07 1c3oB c.8.3.1,c.23.16.1 30732,31409 1q7rA 219 2.45e-07 c.23.16.1 96054 1c3oB 382 3.50e-07 1c3oB c.8.3.1,c.23.16.1 30744,31421 1c30B 382 4.99e-07 c.8.3.1,c.23.16.1 30736,31413 1r9gA 216 1.34e-06 c.23.16.1 97258 1k9vF 201 2.72e-05 c.23.16.1 68365 1gpwB 201 3.07e-05 c.23.16.1 65461 1g2iA 166 8.88e-05 1g2iA c.23.16.2 31438 1p5fA 189 9.92e-04 c.23.16.2 94142 2abwA 227 1.12e-03 1pe0A 197 1.48e-03 c.23.16.2 88045 1vhqA 232 1.77e-03 c.23.16.2 100696 1oy1A 228 2.33e-03 c.23.16.2 87548 2fexA 188 2.56e-03 1vcoA 550 3.22e-03 c.23.16.1,c.37.1.10 108508,108509 1l9xA 315 1.30e-02 c.23.16.1 73762 1ka9H 200 2.63e-02 c.23.16.1 77308 1ox6A 555 4.79e-02 c.1.2.1,c.23.16.1 87505,87506 1u9cA 224 5.08e-02 1jvnA 555 1.44e-01 c.1.2.1,c.23.16.1 67355,67356 1n57A 291 1.90e-01 c.23.16.2 85328 2gk3A 256 2.23e-01 1tx2A 297 2.68e-01 c.1.21.1 107420 1h72C 296 6.11e-01 d.14.1.5,d.58.26.1 60712,60713 1fwkA 296 6.27e-01 1fwkA d.14.1.5,d.58.26.1 37576,39398 2ab0A 205 8.92e-01 1scmB 145 1.14e+00 1wdcB a.39.1.5 17304 1ykfA 352 1.16e+00 1pedA b.35.1.2,c.2.1.1 24757,29773 1mtzA 293 1.40e+00 c.69.1.7 79467 1xqwA 293 1.69e+00 1kk8B 139 1.69e+00 a.39.1.5 77430 1zq1A 438 1.70e+00 1wdcB 156 2.05e+00 1wdcB a.39.1.5 17302 1tjyA 316 2.15e+00 c.93.1.1 107062 2c4wA 176 2.30e+00 1pda 315 3.05e+00 1pda c.94.1.1,d.50.2.1 35751,38794 2b4wA 315 3.09e+00 1v71A 323 3.19e+00 6pfkA 319 3.74e+00 3pfk c.89.1.1 35583 1cnv 299 3.74e+00 1cnv c.1.8.5 28989 1gtkA 313 3.74e+00 c.94.1.1,d.50.2.1 76346,76347 3pfk 319 3.93e+00 3pfk c.89.1.1 35581 1pfkA 320 4.17e+00 3pfk c.89.1.1 35575 1s5aA 150 4.26e+00 d.17.4.10 98525 3ldh 330 4.56e+00 3ldh i.12.1.1 46015 1mwwA 128 5.37e+00 d.80.1.4 91483 1aj4 161 5.52e+00 1ncx a.39.1.5 17244 2pfkA 320 5.89e+00 3pfk c.89.1.1 35577 2cw6A 298 5.91e+00 1zxxA 319 6.06e+00 4pfk 319 6.10e+00 3pfk c.89.1.1 35582 1no5A 114 6.18e+00 d.218.1.5 92014 1fcqA 350 6.63e+00 c.1.8.9 65006 1wlsA 328 6.98e+00 1vqzA 341 7.60e+00 2bl9A 238 7.96e+00 1lldA 319 8.35e+00 3ldh c.2.1.5,d.162.1.1 30177,42144 1wnfA 328 8.36e+00 1y0uA 96 8.74e+00 1u02A 239 8.76e+00 c.108.1.15 107538 1vi4A 174 9.76e+00 c.8.7.1 100731 1lhpA 312 9.78e+00 c.72.1.5 77960 1kzhA 555 1.00e+01 c.89.1.1 73361 1x3mA 415 1.04e+01 1fxoA 293 1.04e+01 1g0rA c.68.1.6 34524 1d3gA 367 1.05e+01 1d3gA c.1.4.1 28600 1trb 320 1.06e+01 1trb c.3.1.5,c.3.1.5 30529,30530 1jf9A 408 1.07e+01 1c0nA c.67.1.3 62931 2bgu 351 1.08e+01 1c3jA c.87.1.1 35460 1xwyA 264 1.09e+01 1t2dA 322 1.12e+01 c.2.1.5,d.162.1.1 99084,99085 1tde 316 1.15e+01 1trb c.3.1.5,c.3.1.5 30531,30532 1d3hA 367 1.16e+01 1d3gA c.1.4.1 28601 1aa7A 158 1.17e+01 1aa7A a.95.1.1 18741 2abqA 306 1.22e+01 1c3jA 351 1.24e+01 1c3jA c.87.1.1 35459 1mkzA 172 1.25e+01 c.57.1.1 84998 1mo9A 523 1.31e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1q5xA 161 1.37e+01 c.8.7.1 95947 1tn4 159 1.37e+01 1ncx a.39.1.5 17248 1j97A 211 1.38e+01 1f5sA c.108.1.4 62753 1c0nA 406 1.39e+01 1c0nA c.67.1.3 34433 1pufA 77 1.39e+01 a.4.1.1 95131 2b5dX 528 1.42e+01 2blcA 238 1.43e+01 1w6kA 732 1.71e+01 2b0mA 393 1.73e+01 1l7mA 211 1.80e+01 c.108.1.4 73664 1jixA 351 1.83e+01 1c3jA c.87.1.1 63081 1ycdA 243 1.86e+01 1yacA 208 1.86e+01 1yacA c.33.1.3 31757 1b75A 94 1.90e+01 1dfuP b.53.1.1 26937 2d0iA 333 1.92e+01 1f5sA 211 1.92e+01 1f5sA c.108.1.4 59656 2bkaA 242 1.93e+01 2aeuA 374 1.96e+01 7timA 247 1.97e+01 1amk c.1.1.1 28457 2ajrA 331 2.01e+01 1m6jA 261 2.03e+01 c.1.1.1 78693 1dfuP 94 2.04e+01 1dfuP b.53.1.1 26936 1nbaA 264 2.07e+01 1nbaA c.33.1.3 31753 1ldg 316 2.10e+01 1ceqA c.2.1.5,d.162.1.1 30165,42132 1scfA 273 2.19e+01 1exzA a.26.1.2 16873 1neyA 247 2.21e+01 c.1.1.1 80449 1g0rA 293 2.23e+01 1g0rA c.68.1.6 34532 1w8kA 447 2.24e+01 1uumA 372 2.25e+01 c.1.4.1 100010 1i45A 248 2.30e+01 1amk c.1.1.1 61665 1u1tA 82 2.30e+01 1ydmA 187 2.34e+01 1ovlA 271 2.39e+01 a.123.1.1 87455 1c9kA 180 2.41e+01 1c9kB c.37.1.11 32363 1ea3A 164 2.44e+01 1aa7A a.95.1.1 59398 1n2zA 245 2.51e+01 c.92.2.2 79865 1u1sA 82 2.52e+01 1ub9A 100 2.53e+01 a.4.5.28 99159 1yxyA 234 2.56e+01 1rm6A 769 2.57e+01 1d2nA 272 2.60e+01 1d2nA c.37.1.20 32428 1iupA 282 2.62e+01 c.69.1.10 76815 1f6aB 222 2.64e+01 1f6aB b.1.1.2,b.1.1.2 21532,21533 1mjhB 162 2.65e+01 1mjhA c.26.2.4 31640 2f02A 323 2.79e+01 1jg7A 351 2.81e+01 1c3jA c.87.1.1 62945 1vp2A 208 2.82e+01 1ldm 329 2.84e+01 3ldh c.2.1.5,d.162.1.1 30160,42127 1l0oC 243 2.84e+01 a.4.13.2 73405 1ncx 162 2.85e+01 1ncx a.39.1.5 17222 1rw7A 243 2.87e+01 c.23.16.2 97963 1mjhA 162 2.89e+01 1mjhA c.26.2.4 31639 2tysA 268 2.96e+01 2tysA c.1.2.4 28572 1vzwA 244 3.08e+01 1mc3A 296 3.10e+01 c.68.1.6 78943 1pzgA 331 3.17e+01 c.2.1.5,d.162.1.1 95425,95426 1top 162 3.21e+01 1ncx a.39.1.5 17223 6ldh 330 3.24e+01 3ldh c.2.1.5,d.162.1.1 30161,42128 9ldtA 332 3.33e+01 3ldh c.2.1.5,d.162.1.1 30154,42121 1evlA 401 3.34e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1bykA 255 3.41e+01 1bykA c.93.1.1 35706 1a2xA 159 3.41e+01 1ncx a.39.1.5 17251 1tvnA 293 3.44e+01 1rkuA 206 3.44e+01 c.108.1.11 97627 1w0mA 226 3.49e+01 c.1.1.1 109027 1tqhA 247 3.55e+01 c.69.1.29 107225 2azeA 155 3.55e+01 1nxjA 183 3.58e+01 c.8.7.1 86382 2awdA 323 3.67e+01 1r2rA 248 3.82e+01 c.1.1.1 96875 2eveA 157 3.87e+01 2lgsA 468 3.93e+01 1lgr d.15.9.1,d.128.1.1 37838,41168 1lgr 468 4.00e+01 1lgr d.15.9.1,d.128.1.1 37837,41167 1ymqA 261 4.03e+01 1b0aA 288 4.04e+01 1a4iA c.2.1.7,c.58.1.2 30286,33934 1cbuA 180 4.07e+01 1c9kB c.37.1.11 32360 1ox8A 107 4.11e+01 b.136.1.1 93671 1v6sA 390 4.14e+01 c.86.1.1 100424 1uk8A 282 4.14e+01 c.69.1.10 107907 1ejjA 511 4.19e+01 1ejjA c.105.1.1,c.76.1.3 59422,59423 1ma3A 253 4.27e+01 c.31.1.5 78883 1hk9A 74 4.28e+01 b.38.1.2 83541 1bksA 268 4.29e+01 2tysA c.1.2.4 28585 1rd5A 262 4.33e+01 1eqjA 511 4.44e+01 1ejjA c.105.1.1,c.76.1.3 59495,59496 1d8dB 437 4.46e+01 1ft1B a.102.4.3 18866 1k3kA 158 4.48e+01 f.1.4.1 72017 2ahxA 617 4.48e+01 1fj7A 101 4.49e+01 1fj7A d.58.7.1 39209 1or7A 194 4.50e+01 a.4.13.2,a.177.1.1 87332,87333 1xk7A 408 4.53e+01 1ku1A 230 4.55e+01 a.118.3.1 72996 1sxgA 280 4.57e+01 1vj5A 555 4.59e+01 c.108.1.2,c.69.1.11 100799,100800 1pm4A 119 4.81e+01 b.135.1.1 94891 1jcrB 437 4.90e+01 a.102.4.3 66507 1nsf 273 4.95e+01 1d2nA c.37.1.20 32429 1pedA 351 4.96e+01 1pedA b.35.1.2,c.2.1.1 24753,29769 1nnlA 225 4.98e+01 c.108.1.4 85906 1egzA 291 4.98e+01 7a3hA c.1.8.3 28828 2dubE 261 4.99e+01 1nzyA c.14.1.3 30916 1td2A 287 5.01e+01 c.72.1.5 106765 2dkb 433 5.02e+01 2dkb c.67.1.4 34438 1fp5A 222 5.05e+01 1f6aB b.1.1.2,b.1.1.2 21530,21531 1tph1 247 5.16e+01 1amk 1qf6A 642 5.17e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 1jr2A 286 5.19e+01 c.113.1.1 67111 1km4A 247 5.21e+01 c.1.2.3 72740 1kevA 351 5.21e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1mo0A 275 5.29e+01 c.1.1.1 79329 1gppA 237 5.31e+01 b.86.1.2 76262 1hv8A 367 5.34e+01 1hv8A c.37.1.19,c.37.1.19 32405,32406 1ppn 212 5.36e+01 1cs8A d.3.1.1 37004 1f52A 468 5.54e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 1vlaA 150 5.57e+01 d.227.1.2 108735 1t62A 166 5.59e+01 b.122.1.4 106541 1a0lA 244 5.60e+01 5ptp b.47.1.2 26286 1ft1B 437 5.64e+01 1ft1B a.102.4.3 18867 1clc 639 5.64e+01 1clc a.102.1.2,b.1.18.2 18835,21872 1khqA 212 5.65e+01 d.3.1.1 90964 1xa3A 437 5.65e+01 1fjhA 257 5.66e+01 1fjhB c.2.1.2 29870 1e87A 118 5.67e+01 1b6e d.169.1.1 42327 1vi9A 299 5.72e+01 c.72.1.5 100750 9pap 212 5.72e+01 1cs8A d.3.1.1 37006 1vpqA 273 5.76e+01 1d7uA 433 5.81e+01 2dkb c.67.1.4 34439 2bj0A 203 5.85e+01 1i0lA 221 5.86e+01 c.61.1.1 71096 1o0vA 327 5.90e+01 b.1.1.2,b.1.1.2,b.1.1.2 80745,80746,80747 1fjhB 257 6.00e+01 1fjhB c.2.1.2 29871 1fy2A 229 6.08e+01 1fyeA c.23.16.4 31478 1tsm 316 6.20e+01 1bkpA d.117.1.1 41024 2cioA 212 6.28e+01 1y9aA 360 6.33e+01 1nknA 89 6.33e+01 h.1.26.1 85825 1sawA 225 6.40e+01 1h09A 338 6.42e+01 b.109.1.1,c.1.8.8 83420,83421 2aa4A 289 6.49e+01 1m0qA 433 6.50e+01 c.67.1.4 78350 1ulyA 192 6.50e+01 1c9kB 180 6.69e+01 1c9kB c.37.1.11 32364 1php 394 6.73e+01 16pk c.86.1.1 35452 1r3dA 264 6.79e+01 1qopA 268 6.84e+01 2tysA c.1.2.4 28570 1gesA 450 6.84e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1cksA 79 6.92e+01 1puc d.97.1.1 40683 1rvv1 154 6.98e+01 1rvv1 1rvvA 154 6.98e+01 1rvv1 c.16.1.1 30927 1a9nB 96 6.99e+01 1urnA d.58.7.1 39165 1o98A 511 7.05e+01 c.105.1.1,c.76.1.3 86684,86685 1dvjC 246 7.05e+01 1dvjA c.1.2.3 28548 1g10A 102 7.11e+01 1g10A d.137.1.1 60191 1dvjA 246 7.30e+01 1dvjA c.1.2.3 28546 1c25 161 7.37e+01 1c25 c.46.1.1 32698 1r1dA 247 7.49e+01 c.69.1.29 96813 1k7yA 577 7.49e+01 a.46.1.1,c.23.6.1,d.173.1.1 68272,68273,68274 1ahdP 68 7.61e+01 2hddA a.4.1.1 16006 2a6sA 84 7.61e+01 2fhzB 108 7.61e+01 1jajA 174 7.63e+01 d.218.1.2 66471 1zu4A 320 7.67e+01 1kezA 300 7.69e+01 c.69.1.22 68546 1tm0A 350 7.74e+01 d.21.1.3 107147 2a8kA 108 7.75e+01 2bl0C 142 7.81e+01 1j9eA 147 7.85e+01 c.23.5.1 62756 1gpeA 587 7.90e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1ee9A 320 7.97e+01 1ee9A c.2.1.7,c.58.1.2 30288,33936 1fyeA 229 7.98e+01 1fyeA c.23.16.4 31477 1yfnA 118 8.12e+01 16pk 415 8.23e+01 16pk c.86.1.1 35454 1bu5A 147 8.33e+01 5nul c.23.5.1 31155 1zd3A 555 8.36e+01 1a99A 344 8.37e+01 1pot c.94.1.1 35812 1akq 147 8.40e+01 5nul c.23.5.1 31159 2f9nA 245 8.47e+01 1j93A 353 8.52e+01 c.1.22.1 66454 1mjc 69 8.56e+01 1mjc b.40.4.5 25319 1flcB 175 8.65e+01 1flcB h.3.1.1 45716 1ei6A 406 8.67e+01 c.76.1.4 90443 1edzA 320 8.70e+01 1ee9A c.2.1.7,c.58.1.2 30287,33935 2b4yA 271 8.71e+01 2wsyA 268 8.72e+01 2tysA c.1.2.4 28588 1vgyA 393 8.76e+01 c.56.5.4,d.58.19.1 100620,100621 1xvwA 160 8.79e+01 2glsA 470 8.82e+01 1lgr d.15.9.1,d.128.1.1 37851,41181 1a6o 332 8.90e+01 1a6o 1jqbA 351 8.90e+01 b.35.1.2,c.2.1.1 77151,77152 1m0dA 138 8.91e+01 c.52.1.17 74354 1t3tA 1303 8.96e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1vjzA 341 8.98e+01 c.1.8.3 100838