# List of top-scoring protein chains for t04-100-30-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 2ah5A 210 2.01e-30 1te2A 226 1.35e-29 c.108.1.6 106792 2gfhA 260 2.33e-29 1o08A 221 7.11e-29 c.108.1.6 86525 1fezA 256 8.62e-29 1fezA c.108.1.3 43343 1rqlA 267 1.01e-28 c.108.1.3 97750 1x42A 232 2.99e-28 1rdfA 267 6.24e-28 c.108.1.3 104884 1swvA 267 6.81e-28 2fdrA 229 8.89e-28 1zrn 232 3.73e-27 1qq5A c.108.1.1 43323 2go7A 207 3.23e-24 1qq5A 253 7.71e-24 1qq5A c.108.1.1 43327 1qq7A 253 1.41e-23 1qq5A c.108.1.1 43329 2fi1A 190 1.46e-20 1zd3A 555 4.32e-18 2b0cA 206 4.72e-18 1qyiA 384 7.64e-18 c.108.1.13 96595 1j97A 211 8.41e-18 1f5sA c.108.1.4 62753 1vj5A 555 1.02e-17 c.108.1.2,c.69.1.11 100799,100800 1l7mA 211 1.58e-17 c.108.1.4 73664 1ek1A 554 3.82e-16 1cr6B c.69.1.11,c.108.1.2 34685,43335 1vjrA 271 2.67e-14 c.108.1.14 100832 1nnlA 225 1.62e-13 c.108.1.4 85906 1zjjA 263 3.69e-12 1wviA 257 1.95e-11 1u7pA 164 2.60e-11 2c4nA 250 4.48e-11 1zs9A 261 7.21e-11 2feaA 236 2.70e-10 2bdeA 470 2.97e-09 1rkuA 206 1.27e-08 c.108.1.11 97627 2b8eA 273 1.98e-08 1n8nA 212 6.08e-08 c.108.1.12 91706 1wr8A 231 1.36e-07 1rmwA 212 1.44e-07 2b82A 211 1.63e-07 1nf2A 268 1.12e-06 c.108.1.10 91849 2bduA 297 1.32e-06 2g09A 297 2.32e-06 1k1eA 180 4.26e-06 c.108.1.5 67995 1ymqA 261 1.01e-05 1mh9A 197 2.07e-05 c.108.1.8 79118 1q92A 197 2.67e-05 c.108.1.8 96250 2b30A 301 3.76e-05 1rkqA 282 1.61e-04 c.108.1.10 97621 1ta0A 197 2.16e-04 c.108.1.16 106729 1wv2A 265 2.49e-04 1rlmB 271 3.93e-04 1rlmA 271 3.99e-04 1nrwA 288 4.08e-04 c.108.1.10 86128 1rloA 271 6.59e-04 1ltqA 301 1.24e-02 c.108.1.9,c.37.1.1 78208,78209 1pz1A 333 1.44e-02 c.1.7.1 95390 1xm3A 264 2.87e-02 1w0mA 226 5.45e-02 c.1.1.1 109027 1pyfA 312 5.57e-02 c.1.7.1 95334 1ynpA 317 7.01e-02 1uasA 362 7.27e-02 b.71.1.1,c.1.8.1 88388,88389 1h1yA 228 9.25e-02 c.1.2.2 76506 1mwmA 320 9.86e-02 c.55.1.1,c.55.1.1 79580,79581 1l6rA 227 1.05e-01 c.108.1.10 77768 2amyA 246 1.06e-01 1ek6A 348 1.14e-01 1xel c.2.1.2 29800 1s2oA 244 1.21e-01 1yuwA 554 1.54e-01 1jj2F 119 1.54e-01 1ffkE d.79.3.1 63091 1uufA 369 1.61e-01 b.35.1.2,c.2.1.1 100006,100007 1yxyA 234 1.75e-01 1tjyA 316 1.77e-01 c.93.1.1 107062 1yrbA 262 1.94e-01 1q2wA 308 2.26e-01 b.47.1.4 88355 3chy 128 2.35e-01 3chy c.23.1.1 31038 1kay 381 2.58e-01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1zcoA 262 2.59e-01 1eulA 994 2.78e-01 1eulA 2f02A 323 3.07e-01 2awdA 323 3.18e-01 1bupA 386 3.48e-01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1uekA 275 3.96e-01 d.14.1.5,d.58.26.5 88483,88484 1tqjA 230 4.20e-01 c.1.2.2 107228 1xtnA 120 4.47e-01 1oc2A 348 4.79e-01 c.2.1.2 92765 2a5kA 307 4.85e-01 1xteA 154 5.20e-01 1jbeA 128 5.30e-01 3chy c.23.1.1 62845 2fueA 262 5.35e-01 1q77A 138 5.82e-01 c.26.2.4 96023 1kepA 348 6.19e-01 c.2.1.2 68536 1xuuA 349 6.69e-01 1v4vA 376 6.72e-01 c.87.1.3 100313 1tk9A 188 6.77e-01 c.80.1.3 107082 2b8nA 429 6.78e-01 1nriA 306 6.95e-01 c.80.1.3 86123 1ma3A 253 7.27e-01 c.31.1.5 78883 1xhkA 187 7.41e-01 1ho1A 242 7.82e-01 1ho1A c.1.24.1 61097 1gs5A 258 8.21e-01 c.73.1.2 70395 1n7kA 234 8.38e-01 c.1.10.1 85374 2amdA 311 8.44e-01 1wzcA 249 8.70e-01 1sviA 195 9.33e-01 c.37.1.8 106048 1vzwA 244 9.37e-01 1q1rA 431 1.00e+00 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1m5wA 243 1.04e+00 c.1.24.1 84836 1zsyA 357 1.06e+00 1rvgA 305 1.07e+00 c.1.10.2 97920 2fliA 220 1.07e+00 1e3jA 352 1.08e+00 1e3jA b.35.1.2,c.2.1.1 24765,29781 1qh8A 478 1.11e+00 1qguA c.92.2.3 35633 1o0uA 429 1.13e+00 c.118.1.1 80743 1su4A 994 1.16e+00 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1m65A 245 1.19e+00 c.6.3.1 84847 1b0uA 262 1.22e+00 1b0uA c.37.1.12 32370 1u02A 239 1.29e+00 c.108.1.15 107538 1t2dA 322 1.33e+00 c.2.1.5,d.162.1.1 99084,99085 1iz0A 302 1.37e+00 b.35.1.2,c.2.1.1 83821,83822 1hgxA 183 1.39e+00 1tc1A c.61.1.1 34027 1y8aA 332 1.39e+00 1sznA 417 1.40e+00 b.71.1.1,c.1.8.1 106162,106163 1udc 338 1.46e+00 1xel c.2.1.2 29785 1vi6A 208 1.48e+00 c.23.15.1 100736 2fkbA 180 1.50e+00 1xbtA 193 1.51e+00 2be4A 272 1.54e+00 1x1zA 252 1.54e+00 1wpgA 994 1.58e+00 1n82A 331 1.59e+00 c.1.8.3 91703 1rreA 200 1.62e+00 d.14.1.10 97791 1x13A 401 1.67e+00 1kid 203 1.70e+00 1derA c.8.5.1 30771 1xel 338 1.76e+00 1xel c.2.1.2 29786 1f8rA 498 1.77e+00 1f8rA c.3.1.2,d.16.1.5 30410,37974 2ao0A 324 1.80e+00 1mkp 144 1.87e+00 1vhrA c.45.1.1 32654 1w4rA 195 1.93e+00 1zzmA 259 1.94e+00 1dekA 241 1.95e+00 1dekA c.37.1.1 31842 1yacA 208 1.97e+00 1yacA c.33.1.3 31757 2abqA 306 1.99e+00 1mi3A 322 2.00e+00 c.1.7.1 91274 2g2cA 167 2.03e+00 1kp8A 547 2.09e+00 a.129.1.1,c.8.5.1,d.56.1.1 84414,84415,84416 1rkd 309 2.20e+00 1rkd c.72.1.1 34928 1lhpA 312 2.22e+00 c.72.1.5 77960 1ktbA 405 2.31e+00 b.71.1.1,c.1.8.1 72960,72961 1fs5A 266 2.31e+00 c.124.1.1 65044 2bogX 286 2.36e+00 1frb 315 2.49e+00 1frb c.1.7.1 28665 1xsjA 778 2.52e+00 1ldg 316 2.56e+00 1ceqA c.2.1.5,d.162.1.1 30165,42132 2cxxA 190 2.62e+00 1wa3A 205 2.63e+00 1vhcA 224 2.68e+00 c.1.10.1 100661 1npyA 271 2.70e+00 c.2.1.7,c.58.1.5 85995,85996 1j96A 323 2.72e+00 c.1.7.1 71616 1dvjA 246 2.74e+00 1dvjA c.1.2.3 28546 1zmdA 474 2.75e+00 2cyjA 118 2.88e+00 1xviA 275 2.95e+00 2f2hA 773 2.98e+00 1pjcA 361 3.01e+00 1sayA c.2.1.4,c.23.12.2 30101,31361 1s1pA 331 3.08e+00 c.1.7.1 98350 1d9tA 289 3.28e+00 1deaA 1te5A 257 3.53e+00 d.153.1.1 106795 2fmlA 273 3.56e+00 1v7zA 260 3.78e+00 c.125.1.1 100488 1ne7A 289 3.80e+00 c.124.1.1 91833 1om0A 274 3.88e+00 c.1.8.5 87058 1oheA 348 4.02e+00 c.45.1.1,c.45.1.1 87013,87014 1id1A 153 4.04e+00 1id1A c.2.1.9 62286 1z0wA 207 4.06e+00 1tpfA 250 4.10e+00 1amk c.1.1.1 28467 1vlwA 217 4.45e+00 c.1.10.1 108868 1ta3A 274 4.48e+00 c.1.8.5 106731 1di6A 195 4.68e+00 1di6A c.57.1.1 33863 1o5xA 248 4.69e+00 c.1.1.1 92528 1qj4A 257 4.83e+00 1qj4A c.69.1.20 34796 1nhp 447 4.93e+00 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1f8gA 384 4.94e+00 1sayA c.2.1.4,c.23.12.2 59695,59696 1v93A 296 4.95e+00 c.1.23.1 100532 1ycdA 243 5.07e+00 2fgeA 995 5.54e+00 2g8lA 299 5.61e+00 1vp8A 201 5.65e+00 1yasA 257 5.68e+00 1qj4A c.69.1.20 34801 1miwA 404 5.75e+00 a.173.1.1,d.218.1.4 79162,79163 1jflA 228 5.79e+00 c.78.2.1,c.78.2.1 71656,71657 1hyeA 313 5.83e+00 2cmd c.2.1.5,d.162.1.1 61400,61401 1tp9A 162 5.84e+00 2cvjA 180 5.91e+00 1uwsA 489 6.00e+00 c.1.8.4 108073 1px5A 349 6.13e+00 a.160.1.2,d.218.1.6 95277,95278 1l7dA 384 6.38e+00 c.2.1.4,c.23.12.2 77774,77775 1im5A 180 6.50e+00 c.33.1.3 66211 1jt6A 188 6.52e+00 a.4.1.9,a.121.1.1 67247,67248 1mumA 295 6.69e+00 c.1.12.7 85108 1l8bA 190 6.71e+00 d.86.1.1 73683 1ou0A 207 6.71e+00 c.23.17.1 93536 1aisB 200 6.88e+00 1aisB a.74.1.2,a.74.1.2 18384,18385 2ajrA 331 7.08e+00 1ezwA 349 7.15e+00 1ezwA c.1.16.3 29558 1tikA 213 7.27e+00 c.23.5.3 107003 1thtA 305 7.30e+00 1thtA c.69.1.13 34711 1us0A 316 7.40e+00 c.1.7.1 99850 2ccjA 205 7.41e+00 1vf1A 229 7.48e+00 1t5bA 201 7.51e+00 c.23.5.3 106433 1udh 244 7.64e+00 3eugA c.18.1.1 31015 1vplA 256 7.71e+00 1cby 259 7.77e+00 1cby d.103.1.1 40705 1nhs 447 7.78e+00 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1kv5A 250 8.05e+00 c.1.1.1 73052 1ads 315 8.13e+00 1frb c.1.7.1 28671 1khbA 625 8.16e+00 c.91.1.1,c.109.1.1 68606,68607 1pbgA 468 8.41e+00 1e70M c.1.8.4 28946 1qwkA 317 8.59e+00 c.1.7.1 96482 1p3jA 217 8.68e+00 c.37.1.1,g.41.2.1 94022,94023 1jigA 146 8.69e+00 a.25.1.1 71685 1ur4A 399 8.76e+00 1eyeA 280 8.86e+00 1aj2 c.1.21.1 29672 1lyxA 248 8.91e+00 c.1.1.1 78304 1j5sA 463 9.12e+00 c.1.9.8 71580 1xq6A 253 9.16e+00 1ox0A 430 9.22e+00 c.95.1.1,c.95.1.1 87495,87496 1j4aA 333 9.29e+00 c.2.1.4,c.23.12.1 71502,71503 1eexA 554 9.36e+00 1dioA c.1.19.3 29650 1ru8A 232 9.36e+00 c.26.2.1 97849 1kgdA 180 9.42e+00 c.37.1.1 68582 1zhaA 267 9.48e+00 1geqA 248 9.52e+00 2tysA c.1.2.4 28589 1eokA 290 9.54e+00 1eokA c.1.8.5 28991 1xmpA 170 9.59e+00 1xhcA 367 9.80e+00 1reoA 486 9.99e+00 c.3.1.2,d.16.1.5 97325,97326 1o1zA 234 1.02e+01 c.1.18.3 86555 1jpzA 473 1.02e+01 a.104.1.1 67069 1jcxA 267 1.04e+01 c.1.10.4 66510 2kfnA 605 1.04e+01 1xwl c.55.3.5,e.8.1.1 33682,42975 2cy0A 263 1.05e+01 2akoA 251 1.05e+01 2agtA 319 1.05e+01 1ujqA 305 1.06e+01 c.1.12.7 99463 2bbrA 195 1.06e+01 1hdoA 206 1.07e+01 1he2A c.2.1.2 60965 1wy0A 342 1.08e+01 1yixA 265 1.08e+01 2d5cA 263 1.08e+01 1czaN 917 1.08e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1cl1A 395 1.09e+01 1cl2A c.67.1.3 34395 1xi3A 215 1.09e+01 c.1.3.1 109601 1g5aA 628 1.09e+01 b.71.1.1,c.1.8.1 65152,65153 1xiyA 182 1.11e+01 1k3yA 221 1.12e+01 a.45.1.1,c.47.1.5 77245,77246 1yr2A 741 1.14e+01 1yovA 537 1.14e+01 1vjgA 218 1.14e+01 c.23.10.6 100810 1xg4A 295 1.16e+01 1amf 233 1.16e+01 1wod c.94.1.1 35833 1t8xA 267 1.17e+01 1bw0A 416 1.18e+01 1bw0A c.67.1.1 34385 1wxdA 263 1.18e+01 1qghA 156 1.19e+01 1qghA a.25.1.1 16728 1ii7A 333 1.20e+01 1ii7A d.159.1.4 62415 2gp4A 628 1.20e+01 1z7aA 308 1.21e+01 1y8cA 246 1.21e+01 1nmeA 146 1.22e+01 c.17.1.1 85874 1pwmA 316 1.22e+01 c.1.7.1 95231 1s5pA 235 1.23e+01 c.31.1.5 98569 1wod 233 1.24e+01 1wod c.94.1.1 35832 1nstA 325 1.24e+01 1nstA c.37.1.5 31951 1tf9A 284 1.25e+01 1hd2A 161 1.27e+01 c.47.1.10 60962 1rj9A 304 1.29e+01 a.24.13.1,c.37.1.10 97553,97554 2cvhA 220 1.30e+01 1ulyA 192 1.30e+01 1ur3M 319 1.31e+01 c.1.7.1 99806 2a3nA 355 1.32e+01 1qorA 327 1.32e+01 1qorA b.35.1.2,c.2.1.1 24766,29782 1v2xA 194 1.34e+01 c.116.1.1 100274 1c7qA 445 1.35e+01 2pgi c.80.1.2 35307 2pgd 482 1.38e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1pe1A 267 1.38e+01 c.1.10.4 94591 4pfk 319 1.39e+01 3pfk c.89.1.1 35582 1hh1A 143 1.41e+01 1gefA c.52.1.18 61036 2bvlA 543 1.41e+01 1nvmA 345 1.45e+01 a.5.7.1,c.1.10.5 86249,86250 1j1uA 306 1.46e+01 c.26.1.1 83980 1km4A 247 1.46e+01 c.1.2.3 72740 2gsq 202 1.48e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1ur1A 378 1.48e+01 c.1.8.3 99804 1bowA 159 1.49e+01 1bowA d.60.1.1 39528 1u9tA 354 1.49e+01 1p9oA 313 1.50e+01 c.72.3.1 94397 1t95A 240 1.50e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1p9qC 256 1.50e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1a8b 318 1.54e+01 1avc a.65.1.1 18171 1qo2A 241 1.54e+01 1qo2A c.1.2.1 28533 2f6uA 234 1.57e+01 2g7lA 243 1.60e+01 1msk 331 1.60e+01 1msk d.173.1.1 42495 1r3dA 264 1.63e+01 1l2lA 457 1.63e+01 c.72.1.3 77656 1fwsA 267 1.63e+01 1d9eA c.1.10.4 60063 1ad1A 266 1.64e+01 1aj2 c.1.21.1 29668 1wl8A 189 1.64e+01 1wlyA 333 1.67e+01 1hjsA 332 1.67e+01 c.1.8.3 83492 1drw 273 1.67e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1wtyA 119 1.68e+01 1vr0A 247 1.69e+01 1gk9A 260 1.71e+01 d.153.1.2 65246 1nal1 297 1.72e+01 1nal3 1jlvA 209 1.72e+01 a.45.1.1,c.47.1.5 71729,71730 1f8fA 371 1.73e+01 b.35.1.2,c.2.1.1 83246,83247 1q6uA 245 1.74e+01 d.26.1.1 95998 1i7qB 193 1.74e+01 1qdlB c.23.16.1 61902 2f9lA 199 1.75e+01 1vypX 364 1.75e+01 c.1.4.1 108905 1u7kA 131 1.75e+01 1l6wA 220 1.76e+01 c.1.10.1 73632 1gvoA 364 1.77e+01 c.1.4.1 76357 2cvzA 289 1.77e+01 2abbA 364 1.80e+01 1qwgA 251 1.82e+01 c.1.27.1 96473 1yf3A 259 1.83e+01 1ceo 343 1.86e+01 1ceo c.1.8.3 28808 1gvnB 287 1.89e+01 c.37.1.21 76354 2cunA 410 1.90e+01 1bed 181 1.91e+01 1fvkA c.47.1.13 90330 1lqaA 346 1.92e+01 c.1.7.1 84674 1jjvA 206 1.92e+01 c.37.1.1 71698 1gbg 214 1.95e+01 1axkA b.29.1.2 24171 8abp 306 1.95e+01 8abp c.93.1.1 35647 1wd5A 208 1.96e+01 1tz9A 367 1.97e+01 c.1.15.6 107466 2a1dD 329 1.97e+01 1noyA 388 1.98e+01 1clqA c.55.3.5 33713 2b8tA 223 1.98e+01 1f6dA 376 2.05e+01 1f6dA c.87.1.3 35467 1h61A 364 2.06e+01 1oyc c.1.4.1 60657 2bneA 241 2.08e+01 1bu7A 455 2.09e+01 1bu7A a.104.1.1 18937 1j99A 293 2.09e+01 c.37.1.5 71618 1nz0A 118 2.15e+01 d.14.1.2 86433 1vyrA 364 2.19e+01 c.1.4.1 108906 1wd7A 261 2.20e+01 1hzyA 332 2.21e+01 1pscA c.1.9.3 61468 2a19A 175 2.22e+01 1v2dA 381 2.23e+01 c.67.1.1 108281 1u0tA 307 2.25e+01 e.52.1.1 107567 2fnaA 357 2.28e+01 1h2eA 207 2.28e+01 c.60.1.1 70857 1tkjA 284 2.28e+01 1z0sA 278 2.33e+01 1orrA 347 2.35e+01 c.2.1.2 93460 1o5iA 249 2.38e+01 c.2.1.2 92499 1i0dA 332 2.39e+01 1pscA c.1.9.3 61487 1nk4A 580 2.40e+01 c.55.3.5,e.8.1.1 91923,91924 1mgpA 313 2.40e+01 c.119.1.1 79098 1jogA 146 2.40e+01 a.24.16.2 77142 1gowA 489 2.40e+01 1qvbA c.1.8.4 28981 2gjlA 328 2.47e+01 1wolA 122 2.52e+01 2c0cA 362 2.53e+01 2gwhA 298 2.53e+01 1qq9A 284 2.57e+01 1xjo c.56.5.4 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192 8.43e+01 1oivA 191 8.44e+01 c.37.1.8 93076 1xkpA 246 8.47e+01 1a9nA 176 8.47e+01 1a9nA c.10.2.4 30875 1kkhA 317 8.55e+01 d.14.1.5,d.58.26.3 72645,72646 1t33A 224 8.59e+01 a.4.1.9,a.121.1.1 106295,106296 1mx3A 347 8.60e+01 c.2.1.4,c.23.12.1 79638,79639 1nsf 273 8.63e+01 1d2nA c.37.1.20 32429 1ee4A 423 8.68e+01 1ee4A a.118.1.1 19128 1xw8A 252 8.68e+01 2a6tA 271 8.69e+01 1yt5A 258 8.84e+01 1l3pA 102 8.84e+01 a.24.17.1 84520 1irdA 141 8.84e+01 a.1.1.2 66286 1r03A 182 8.84e+01 a.25.1.1 104675 2auaA 224 8.91e+01 1yruA 364 8.95e+01 1xkpC 143 8.95e+01