# 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 1lap 488 2.84e-66 1lam c.50.1.1,c.56.5.3 33171,33834 1lam 484 3.30e-66 1lam c.50.1.1,c.56.5.3 33166,33829 1bllE 488 3.86e-66 1lam c.50.1.1,c.56.5.3 33170,33833 1tkjA 284 3.69e-02 1tf9A 284 4.18e-02 1v71A 323 4.29e-02 1xjo 284 1.11e-01 1xjo c.56.5.4 33843 1qq9A 284 2.12e-01 1xjo c.56.5.4 33841 2anpA 291 2.90e-01 1rtqA 299 3.32e-01 c.56.5.4 97819 1lokA 291 3.36e-01 c.56.5.4 78122 1ve5A 311 4.92e-01 1amp 291 6.36e-01 1amp c.56.5.4 33837 1x13A 401 6.64e-01 1ve1A 304 1.07e+00 2av4A 162 1.36e+00 1rznA 205 1.90e+00 1wlsA 328 2.20e+00 1izmA 184 3.04e+00 a.199.1.1 90725 1zp7A 206 3.09e+00 1wnfA 328 3.19e+00 1gc0A 398 3.29e+00 c.67.1.3 70168 1u9yA 284 3.79e+00 1tffA 234 3.95e+00 d.3.1.11 106854 1kxrA 339 4.13e+00 d.3.1.3 73175 1v9dA 340 4.43e+00 a.207.1.1 100535 1zbtA 371 4.44e+00 1od2A 805 4.45e+00 c.14.1.4,c.14.1.4 86821,86822 2cw8A 537 5.27e+00 1ovqA 138 5.41e+00 c.55.3.8 93607 1cg2A 393 5.56e+00 1cg2A c.56.5.4,d.58.19.1 33844,39360 1ispA 181 5.71e+00 c.69.1.18 76778 1ysjA 404 5.88e+00 1tdj 514 5.92e+00 1tdj c.79.1.1,d.58.18.2,d.58.18.2 35297,39356,39357 1hqcA 324 5.92e+00 1hqcA a.4.5.11,c.37.1.20 16127,32424 1xbsA 149 6.09e+00 1ig0A 319 6.25e+00 1ig0A b.82.6.1,c.100.1.1 62354,62355 1i6wA 181 6.31e+00 1i6wA c.69.1.18 61859 1e5eA 404 6.39e+00 1ibjA c.67.1.3 59265 2c2aA 258 6.77e+00 1qgvA 142 6.81e+00 1qgvA c.47.1.8 33056 1xhkA 187 6.90e+00 1nu0A 138 7.18e+00 c.55.3.8 92165 1suwA 249 7.42e+00 e.52.1.1 106027 1mjhB 162 7.60e+00 1mjhA c.26.2.4 31640 3pgk 416 7.68e+00 16pk c.86.1.1 35451 1qo7A 394 8.03e+00 1qo7A c.69.1.11 34697 1mjhA 162 8.20e+00 1mjhA c.26.2.4 31639 1fc4A 401 8.58e+00 1bs0A c.67.1.4 59760 1dpe 507 9.36e+00 1dpe c.94.1.1 35799 1mc0A 368 9.36e+00 d.110.2.1,d.110.2.1 78937,78938 1z0sA 278 1.02e+01 1aoeA 192 1.03e+01 1aoeA c.71.1.1 34923 2a6aA 218 1.05e+01 1cvl 319 1.07e+01 1cvl c.69.1.18 34786 1khdA 345 1.12e+01 a.46.2.1,c.27.1.1 77400,77401 1k4nA 192 1.14e+01 d.32.1.5 72059 2cy7A 396 1.20e+01 1el5A 389 1.26e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1wznA 252 1.27e+01 1o97D 320 1.30e+01 c.26.2.3,c.31.1.2 81233,81234 2cg4A 152 1.31e+01 1u6zA 513 1.39e+01 1hcv 117 1.39e+01 1igtB b.1.1.1 20514 1wdvA 152 1.51e+01 1p99A 295 1.52e+01 c.94.1.1 94384 1zosA 230 1.53e+01 1tm9A 137 1.56e+01 a.225.1.1 107150 1u04A 771 1.57e+01 b.34.14.1,c.55.3.10 107539,107540 1csmA 256 1.65e+01 5csmA a.130.1.2 19495 1l9fA 389 1.66e+01 c.3.1.2,d.16.1.3 73716,73717 5csmA 256 1.67e+01 5csmA a.130.1.2 19494 1vdmA 153 1.70e+01 1xjeA 644 1.85e+01 1b3mA 389 1.88e+01 1b3mA 1p32C 209 1.91e+01 1p32A d.25.1.1 38381 1t4hA 290 1.94e+01 d.144.1.7 106420 1tzbA 302 2.04e+01 c.80.1.1 107470 1ivnA 190 2.12e+01 c.23.10.5 83719 1bjoA 360 2.20e+01 1bjnA c.67.1.4 34471 1tl9A 339 2.20e+01 1qj4A 257 2.32e+01 1qj4A c.69.1.20 34796 1bjnA 360 2.34e+01 1bjnA c.67.1.4 34469 1vhxA 150 2.36e+01 c.55.3.8 100712 1y88A 199 2.48e+01 1yasA 257 2.50e+01 1qj4A c.69.1.20 34801 2at9 247 2.52e+01 1c3wA f.13.1.1 43427 1x9iA 302 2.52e+01 1ys1X 320 2.55e+01 1o0xA 262 2.63e+01 d.127.1.1 80755 2frnA 278 2.72e+01 1yub 245 2.83e+01 2ercA c.66.1.24 34219 1v1pA 211 2.92e+01 b.40.2.2,d.15.6.1 108268,108269 1rifA 282 2.95e+01 c.37.1.23 97507 1kolA 398 2.95e+01 b.35.1.2,c.2.1.1 77474,77475 1w2xA 758 2.95e+01 c.14.1.4,c.14.1.4 109134,109135 1qusA 322 2.97e+01 1ltm d.2.1.6 36991 1nv8A 284 2.97e+01 c.66.1.30 86224 1mq4A 272 3.10e+01 d.144.1.7 91391 2cq8A 110 3.12e+01 1o6yA 299 3.12e+01 d.144.1.7 81106 1q9rB 222 3.17e+01 b.1.1.1,b.1.1.2 96307,96308 1qp8A 303 3.27e+01 1qp8A c.2.1.4,c.23.12.1 30092,31352 1ltm 320 3.37e+01 1ltm d.2.1.6 36992 2bu3A 254 3.39e+01 3lzt 129 3.40e+01 3lzt d.2.1.2 36245 1u7nA 336 3.42e+01 c.77.1.4 107726 2tdt 274 3.46e+01 3tdt b.81.1.2 28054 2avdA 219 3.46e+01 1pkp 150 3.48e+01 1pkp d.14.1.1,d.50.1.2 37551,38787 1dxy 333 3.71e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1tahB 318 3.74e+01 1cvl c.69.1.18 34774 1tahA 318 3.75e+01 1cvl c.69.1.18 34775 1pydA 556 3.76e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31735,31773,31774 1hmy 327 3.79e+01 6mhtA c.66.1.26 34229 1l1eA 287 3.80e+01 c.66.1.18 73454 1dgsA 667 3.80e+01 1dgsA a.60.2.2,b.40.4.6,d.142.2.2 17963,25365,41581 1o1yA 239 3.80e+01 c.23.16.1 86554 1xjuA 163 3.80e+01 3tdt 274 3.82e+01 3tdt b.81.1.2 28053 1c24A 263 3.84e+01 1c24A d.127.1.1 41148 2matA 264 3.87e+01 1c24A d.127.1.1 41146 1ebdA 455 3.93e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1eia 207 3.94e+01 1eia a.28.3.1,a.73.1.1 16951,18331 6mhtA 327 3.98e+01 6mhtA c.66.1.26 34226 1ptmA 329 4.00e+01 c.77.1.3 95104 2b8nA 429 4.01e+01 1wl8A 189 4.05e+01 1kgqA 274 4.12e+01 b.81.1.2 72447 1oe8A 211 4.20e+01 a.45.1.1,c.47.1.5 86905,86906 1nytA 271 4.21e+01 c.2.1.7,c.58.1.5 86417,86418 1wqvT 218 4.24e+01 1i9zA 347 4.31e+01 1i9yA d.151.1.2 62102 2eiaB 206 4.32e+01 1eia a.28.3.1,a.73.1.1 16950,18330 1qpbA 563 4.32e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 1p32A 209 4.38e+01 1p32A d.25.1.1 38379 1boy 219 4.41e+01 1boy b.1.2.1,b.1.2.1 21955,21956 1xjjA 644 4.47e+01 1spvA 184 4.47e+01 c.50.1.2 98957 1irk 306 4.50e+01 1fmk d.144.1.7 41703 1tr9A 341 4.53e+01 1ybzA 91 4.56e+01 1pwhA 327 4.62e+01 c.79.1.1 95224 1kid 203 4.63e+01 1derA c.8.5.1 30771 1qpcA 279 4.64e+01 1fgkA d.144.1.7 41685 1pujA 282 4.73e+01 c.37.1.8 88294 1efyA 350 4.76e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1fg7A 356 4.84e+01 1gewA c.67.1.1 59819 1cb8A 678 4.88e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1o58A 303 4.89e+01 c.79.1.1 92491 1w7bA 339 4.89e+01 1pvdA 537 4.93e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 2dnjA 260 4.95e+01 3dni d.151.1.1 41790 1csn 298 4.95e+01 1csn d.144.1.7 41664 1j8fA 323 5.00e+01 1j8fA c.31.1.5 62738 2absA 383 5.02e+01 1vcbB 112 5.10e+01 1vcbB d.42.1.1 38633 1qyiA 384 5.11e+01 c.108.1.13 96595 1w61A 414 5.12e+01 1tz9A 367 5.17e+01 c.1.15.6 107466 1sxjE 354 5.22e+01 a.80.1.1,c.37.1.20 106089,106090 1i1gA 141 5.22e+01 a.4.5.32,d.58.4.2 65982,65983 1o0uA 429 5.44e+01 c.118.1.1 80743 1n1fA 159 5.46e+01 a.26.1.3 79803 1li4A 432 5.51e+01 c.2.1.4,c.23.12.3 84616,84617 1hqz9 141 5.59e+01 1vgvA 384 5.59e+01 c.87.1.3 100608 1m1jA 491 5.65e+01 h.1.8.1 74369 1gm7A 209 5.77e+01 d.153.1.2 65302 1tdtA 259 5.79e+01 3tdt b.81.1.2 28055 1a26 361 5.95e+01 1a26 a.41.1.1,d.166.1.2 17412,42274 1tlfA 301 5.96e+01 1tlfA c.93.1.1 35687 1f6dA 376 5.96e+01 1f6dA c.87.1.3 35467 1jguH 217 6.13e+01 b.1.1.1,b.1.1.2 66688,66689 1gewA 356 6.18e+01 1gewA c.67.1.1 60470 8prn 289 6.21e+01 3prn f.4.3.1 43767 1dgmA 363 6.23e+01 1bx4A c.72.1.1 34936 1hm2A 700 6.27e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 61083,61084,61085 1at6 129 6.27e+01 3lzt d.2.1.2 36333 1qdlB 195 6.36e+01 1qdlB c.23.16.1 31437 2b0oE 301 6.42e+01 1z6jT 211 6.53e+01 3mhtA 327 6.55e+01 6mhtA c.66.1.26 34234 2ew0A 192 6.67e+01 1cdkA 350 6.87e+01 1cdkA d.144.1.7 41620 1vi2A 300 6.91e+01 c.2.1.7,c.58.1.5 100726,100727 1p5jA 372 6.93e+01 c.79.1.1 104067 1iqpA 327 6.99e+01 a.80.1.1,c.37.1.20 62649,62650 1prn 289 7.01e+01 3prn f.4.3.1 43762 1lm8C 96 7.06e+01 d.42.1.1 74034 1puiA 210 7.06e+01 c.37.1.8 88292 1x3eA 165 7.11e+01 1q8uA 350 7.21e+01 d.144.1.7 96230 1ukkA 142 7.26e+01 d.227.1.1 99491 1r3sA 367 7.28e+01 c.1.22.1 96963 1npdA 288 7.31e+01 c.2.1.7,c.58.1.5 80681,80682 1is8A 230 7.33e+01 d.96.1.1 66321 1ccwB 483 7.42e+01 1cb7B c.1.19.2 29646 2f1fA 164 7.45e+01 1zjrA 211 7.48e+01 1jscA 630 7.59e+01 c.31.1.3,c.36.1.5,c.36.1.9 67224,67225,67226 1a7aA 432 7.72e+01 1b3rA c.2.1.4,c.23.12.3 30104,31364 1cb7B 483 7.78e+01 1cb7B c.1.19.2 29648 1l9vA 317 7.81e+01 d.13.2.1,d.216.1.1 73760,73761 2rveA 244 7.84e+01 1rvaA c.52.1.2 33283 2ajrA 331 7.84e+01 2fnjC 96 7.97e+01 1mdwA 328 8.06e+01 d.3.1.3 84934 2blcA 238 8.07e+01 3prn 289 8.15e+01 3prn f.4.3.1 43761 1gk9A 260 8.24e+01 d.153.1.2 65246 1m0uA 249 8.29e+01 a.45.1.1,c.47.1.5 78359,78360 3lck 271 8.33e+01 1fmk d.144.1.7 41686 1cl2A 395 8.42e+01 1cl2A c.67.1.3 34397 1jli 112 8.47e+01 1jli a.26.1.2 16884 1bh3 289 8.49e+01 3prn f.4.3.1 43766 1p4fA 293 8.57e+01 d.144.1.7 104063 1exnA 290 8.61e+01 1exnA a.60.7.1,c.120.1.2 18088,33358 2adoA 196 8.64e+01 1etu 394 8.70e+01 1efcA c.37.1.8 64737 1mat 264 8.80e+01 1c24A d.127.1.1 41152 1ytbB 180 8.85e+01 1ytbA d.129.1.1,d.129.1.1 41278,41279 1ir3A 306 8.87e+01 1fmk d.144.1.7 41702 2acfA 182 8.89e+01 1zjcA 418 8.98e+01