# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 1xh9A 350 5.51e-36 1o6lA 337 5.67e-36 d.144.1.7 81092 1apmE 350 1.34e-35 1cdkA d.144.1.7 41628 1rdqE 350 5.28e-35 d.144.1.7 97314 1xjdA 345 1.07e-34 2bdwA 362 1.82e-34 1mq4A 272 5.69e-34 d.144.1.7 91391 2bfxA 284 9.43e-34 1zrzA 364 1.76e-33 1yhvA 297 3.83e-33 1phk 298 6.73e-33 1cdkA d.144.1.7 41635 1h1wA 289 8.16e-33 d.144.1.7 83460 1uu3A 310 1.20e-32 d.144.1.7 99999 2f57A 317 1.97e-32 1f3mC 297 2.50e-32 1hcl d.144.1.7 41677 1jksA 294 2.96e-32 d.144.1.7 71710 2c30A 321 2.12e-31 1vzoA 355 2.64e-31 d.144.1.7 108971 1p4fA 293 2.77e-31 d.144.1.7 104063 2eueA 279 3.57e-31 2bvaA 292 9.63e-30 1ia8A 289 4.14e-29 1ia8A d.144.1.7 62112 1omwA 689 2.80e-28 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1gz8A 299 3.86e-28 d.144.1.7 83405 1hcl 298 4.19e-28 1hcl d.144.1.7 41593 2ac3A 316 5.14e-28 2ac5A 316 5.71e-28 1xwsA 313 1.95e-27 2bikB 313 2.23e-27 1tkiA 321 2.93e-27 1tkiA d.144.1.7 41638 1t4hA 290 1.23e-26 d.144.1.7 106420 1s9jA 341 3.26e-26 1blxA 326 4.70e-26 1hcl d.144.1.7 41596 1tvoA 368 4.92e-26 2b9hA 353 1.21e-25 1zy4A 303 2.21e-25 3erk 364 4.33e-25 1hcl d.144.1.7 41654 1pmnA 364 4.82e-25 d.144.1.7 94907 2evaA 307 4.89e-25 1o6yA 299 7.29e-25 d.144.1.7 81106 1wbsA 360 8.23e-25 1ymiA 334 9.76e-25 1zz2A 360 1.10e-24 1pme 380 1.52e-24 1hcl d.144.1.7 41653 1zzlA 351 2.34e-24 1r3cA 366 2.42e-24 d.144.1.7 96906 2a19B 284 2.83e-24 1j1bA 420 3.92e-24 d.144.1.7 90758 2gfsA 372 8.04e-24 1om1A 332 9.29e-24 d.144.1.7 93347 1opjA 293 1.05e-23 d.144.1.7 87230 1ywrA 360 1.31e-23 1m2rA 327 3.29e-23 d.144.1.7 84760 1qpcA 279 1.19e-22 1fgkA d.144.1.7 41685 1mp8A 281 1.24e-22 d.144.1.7 91384 1ir3A 306 1.74e-22 1fmk d.144.1.7 41702 1t46A 313 1.91e-22 d.144.1.7 106397 1z57A 339 2.85e-22 1fvrA 327 3.83e-22 d.144.1.7 60047 1x8bA 289 3.85e-22 1fgkA 310 3.87e-22 1fgkA d.144.1.7 41693 1jpaA 312 4.00e-22 d.144.1.7 67011 2b7aA 293 4.62e-22 1xbbA 291 6.81e-22 1u59A 287 1.51e-21 d.144.1.7 107681 1r0pA 312 2.19e-21 d.144.1.7 96734 1p4oA 322 3.84e-21 d.144.1.7 87775 1q8yA 373 6.75e-21 d.144.1.7 96234 2eu9A 355 6.99e-21 1u46A 291 2.52e-20 d.144.1.7 107656 1howA 373 2.74e-20 1hcl d.144.1.7 41679 1ywnA 316 2.95e-20 1py5A 326 3.52e-19 d.144.1.7 104389 1vjyA 303 1.19e-18 d.144.1.7 108633 1wbpA 397 1.72e-17 1ckiA 317 1.68e-16 1csn d.144.1.7 41660 1csn 298 7.16e-16 1csn d.144.1.7 41664 1tqmA 282 2.97e-04 a.4.5.56,d.144.1.9 107236,107237 1zarA 282 3.13e-04 1zthA 258 3.81e-03 1e7uA 961 2.31e-02 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1e8yA 966 6.83e-02 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1e2kA 331 3.71e-01 1qhiA c.37.1.1 31854 1kinA 366 6.65e-01 1qhiA 366 7.28e-01 1qhiA c.37.1.1 31860 1zdzA 302 4.57e+00 1y0yA 353 5.45e+00 2gdnA 267 5.54e+00 1e17A 150 5.71e+00 2hfh a.4.5.14 16143 1f8rA 498 5.78e+00 1f8rA c.3.1.2,d.16.1.5 30410,37974 1tllA 688 5.83e+00 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1inlA 296 5.87e+00 c.66.1.17 66220 1w1oA 534 7.08e+00 d.58.32.4,d.145.1.1 109071,109072 1jl2A 156 7.13e+00 c.55.3.1 66822 2av5A 120 7.81e+00 1ifqA 138 7.97e+00 1ifqA d.110.4.1 62350 2sqcA 631 8.10e+00 2sqcA a.102.4.2,a.102.4.2 18854,18855 1wchA 315 8.15e+00 1reoA 486 8.16e+00 c.3.1.2,d.16.1.5 97325,97326 1hzdA 272 8.28e+00 c.14.1.3 65969 1j7lA 264 8.72e+00 d.144.1.6 62697 1nw1A 429 8.95e+00 d.144.1.8 86286 1bupA 386 9.76e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 2fl7A 232 9.80e+00 1kay 381 9.82e+00 1ba1 c.55.1.1,c.55.1.1 33385,33386 1txqA 93 9.87e+00 1gw5S 142 1.03e+01 d.110.4.2 70633 1oo0A 147 1.04e+01 d.232.1.1 87182 1jb3A 131 1.08e+01 1jc7A b.40.3.2 62833 1p6xA 334 1.08e+01 c.37.1.1 94195 1rkd 309 1.20e+01 1rkd c.72.1.1 34928 1sz2A 332 1.23e+01 1i2sA 282 1.32e+01 e.3.1.1 71104 1dusA 194 1.34e+01 1dusA c.66.1.4 34182 1lyvA 306 1.37e+01 c.45.1.2 74348 1k38A 254 1.39e+01 e.3.1.1 84303 1bif 469 1.42e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1f20A 435 1.44e+01 b.43.4.1,c.25.1.4 64932,64933 1iujA 106 1.45e+01 d.58.4.5 90701 2bb6A 414 1.46e+01 2atvA 196 1.46e+01 1k9sA 237 1.48e+01 c.56.2.1 68359 1zccA 248 1.51e+01 1dkzA 219 1.52e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 2cwoA 197 1.54e+01 1g0sA 209 1.56e+01 1g0sA d.113.1.1 60187 1q18A 332 1.60e+01 c.55.1.7,c.55.1.7 104470,104471 1bu7A 455 1.61e+01 1bu7A a.104.1.1 18937 1xkzA 255 1.62e+01 1k3eA 156 1.65e+01 d.198.1.1 68103 1jpzA 473 1.67e+01 a.104.1.1 67069 1bw3 125 1.68e+01 1bw4 b.52.1.2 26899 1htjF 210 1.70e+01 1htjF a.91.1.1 61254 1im8A 244 1.71e+01 c.66.1.14 66212 2f8lA 344 1.75e+01 1souA 194 1.81e+01 c.124.1.6 105858 1nsf 273 1.85e+01 1d2nA c.37.1.20 32429 1ecpA 238 1.88e+01 1ecpA c.56.2.1 33775 1ytw 306 1.99e+01 1ytw c.45.1.2 32689 1wdcC 156 2.03e+01 1wdcC a.39.1.5 17317 1xa1A 255 2.05e+01 e.3.1.1 109529 1bjt 793 2.05e+01 1bjt e.11.1.1 43249 1wpbA 172 2.05e+01 1kyqA 274 2.07e+01 c.2.1.11,e.37.1.1 73281,73282 2bkkA 264 2.12e+01 1koiA 184 2.14e+01 b.60.1.1 68725 1sy3A 184 2.14e+01 b.60.1.1 106110 1a0p 290 2.15e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 1erxA 184 2.19e+01 1np1A b.60.1.1 27164 1x8qA 184 2.23e+01 1wgzA 510 2.35e+01 1g6aA 271 2.36e+01 1btl e.3.1.1 42704 1c17M 177 2.38e+01 1c17M f.18.1.1 43648 1cpt 412 2.39e+01 1cpt a.104.1.1 18968 1szhA 161 2.44e+01 a.226.1.1 106157 1mjfA 281 2.45e+01 c.66.1.17 79198 1e8aA 91 2.46e+01 1b4cA a.39.1.2 17188 1ww9A 392 2.47e+01 1je0A 236 2.47e+01 c.56.2.1 66581 1xfoA 357 2.61e+01 1ignA 246 2.65e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 2bbeA 108 2.66e+01 1zbfA 142 2.69e+01 2gfoA 396 2.70e+01 1nd4A 264 2.74e+01 d.144.1.6 91815 2cxxA 190 2.77e+01 1qksA 567 2.79e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1hzoA 271 2.81e+01 e.3.1.1 71092 1a8q 274 2.84e+01 1brt c.69.1.12 34702 1t2bA 397 2.87e+01 1g8iA 190 2.95e+01 1rec a.39.1.5 60363 1viuA 203 2.95e+01 d.113.1.1 100771 1ka2A 499 3.00e+01 d.92.1.5 77305 1f1zA 273 3.03e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1g38A 393 3.05e+01 2admA c.66.1.27 60235 1wmiB 67 3.28e+01 1grj 158 3.36e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1dzkA 157 3.37e+01 1obpA b.60.1.1 27096 1g66A 207 3.38e+01 1bs9 c.69.1.30 31329 1o1zA 234 3.45e+01 c.1.18.3 86555 1aj2 282 3.52e+01 1aj2 c.1.21.1 29665 1ugmA 125 3.63e+01 d.15.1.3 107827 351c 82 3.69e+01 451c a.3.1.1 15905 451c 82 3.69e+01 451c a.3.1.1 15904 1uirA 314 3.72e+01 c.66.1.17 99429 1di1A 300 3.78e+01 1di1A a.128.1.4 19446 1t0fA 276 3.78e+01 1f4qA 165 3.79e+01 1alvA a.39.1.8 17360 1f24A 402 3.80e+01 1rom a.104.1.1 18953 1vb3A 428 3.82e+01 1kfuL 699 3.91e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1usyA 275 3.93e+01 1khtA 192 3.98e+01 c.37.1.1 84401 2es9A 115 4.02e+01 1cp2A 269 4.02e+01 1cp2A c.37.1.10 32269 1zuwA 272 4.10e+01 1q1vA 70 4.12e+01 a.159.4.1 104479 1xrxA 50 4.13e+01 1ri5A 298 4.14e+01 c.66.1.34 97502 1gs5A 258 4.20e+01 c.73.1.2 70395 1t17A 148 4.20e+01 2be4A 272 4.22e+01 1tvxA 75 4.22e+01 1tvxA d.9.1.1 37441 1yuwA 554 4.24e+01 1k94A 165 4.36e+01 a.39.1.8 68333 1xo5A 183 4.40e+01 1jfbA 404 4.43e+01 a.104.1.1 66624 1x9gA 200 4.43e+01 c.33.1.3 109527 1o54A 277 4.46e+01 c.66.1.13 92482 1gwiA 411 4.47e+01 a.104.1.1 76364 1ezvC 385 4.47e+01 1be3C f.32.1.1,f.21.1.2 75833,75834 1kb9C 385 4.47e+01 f.32.1.1,f.21.1.2 77315,77316 1srvA 145 4.48e+01 1derA c.8.5.1 30817 1i76A 163 4.50e+01 1hfc d.92.1.11 61877 1nykA 165 4.52e+01 b.33.1.1 86408 1nrkA 328 4.60e+01 b.44.2.1,d.250.1.1 92089,92090 2coeA 120 4.62e+01 1zc6A 305 4.64e+01 1bea 127 4.64e+01 1bea a.52.1.2 17826 1gky 187 4.69e+01 1gky c.37.1.1 31839 1dqnA 230 4.71e+01 1dqnA c.61.1.1 34067 1vjhA 122 4.71e+01 d.129.3.1 100811 1t71A 281 4.76e+01 1uddA 226 4.76e+01 a.132.1.3 107776 1m4zA 238 4.79e+01 b.34.12.1 78630 1pmzA 86 4.84e+01 a.39.1.10 104195 1jl1A 155 4.84e+01 c.55.3.1 66821 1dk8A 147 4.86e+01 1agrE a.91.1.1 18548 1ex7A 186 4.87e+01 1gky c.37.1.1 59537 1mdyA 68 4.89e+01 1mdyA a.38.1.1 17132 2bs9A 503 4.94e+01 1uebA 184 5.07e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1k7hA 476 5.08e+01 c.76.1.1 72101 1exrA 148 5.12e+01 1cll a.39.1.5 17299 2aamA 309 5.12e+01 1exmA 405 5.32e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1vjzA 341 5.34e+01 c.1.8.3 100838 2c78A 405 5.39e+01 1ha3A 405 5.43e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1ki9A 192 5.43e+01 c.37.1.1 84404 1kp8A 547 5.43e+01 a.129.1.1,c.8.5.1,d.56.1.1 84414,84415,84416 4blmA 265 5.44e+01 1btl e.3.1.1 42721 2bgiA 272 5.46e+01 1ycqA 107 5.47e+01 1ycqA a.42.1.1 17419 1smtA 122 5.50e+01 1smtA a.4.5.5 16109 2aebA 322 5.60e+01 1zkoA 136 5.60e+01 1l1qA 186 5.66e+01 c.61.1.1 77653 1r31A 428 5.67e+01 d.58.20.1,d.179.1.1 96897,96898 1u00A 227 5.79e+01 1c93A 265 5.81e+01 2ebn c.1.8.5 28998 1pixA 587 5.85e+01 c.14.1.4 94708 1t6cA 315 5.91e+01 c.55.1.8,c.55.1.8 106558,106559 1kw4A 89 5.95e+01 a.60.1.2 73077 2cwcA 303 6.02e+01 1ggzA 148 6.05e+01 a.39.1.5 70176 1yiiA 320 6.06e+01 1y63A 184 6.08e+01 1omrA 201 6.08e+01 a.39.1.5 93349 1ift 263 6.16e+01 1mrj d.165.1.1 42211 1x3mA 415 6.16e+01 1kutA 230 6.17e+01 d.143.1.1 73017 1vlyA 338 6.25e+01 b.44.2.1,d.250.1.1 108871,108872 1fdr 248 6.27e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1i0rA 169 6.29e+01 1i0rA b.45.1.2 61489 1i0sA 169 6.29e+01 1i0rA b.45.1.2 61491 1m2oA 768 6.32e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1rec 201 6.39e+01 1rec a.39.1.5 17326 1f21A 155 6.39e+01 2rn2 c.55.3.1 33550 1lhpA 312 6.43e+01 c.72.1.5 77960 1z6gA 218 6.46e+01 2fokA 579 6.46e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1fxlA 167 6.47e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1gsoA 431 6.57e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 2a6mA 155 6.65e+01 1s9uA 207 6.69e+01 a.184.1.1 105390 1y0hA 105 6.69e+01 1rro 108 6.71e+01 1a75A a.39.1.4 17195 2bu3A 254 6.72e+01 1c75A 71 6.78e+01 451c a.3.1.1 15796 1uq5A 263 6.87e+01 d.165.1.1 99778 1y2qA 143 6.88e+01 2fm9A 215 6.91e+01 1gyxA 76 7.04e+01 d.80.1.1 76387 2fb0A 94 7.07e+01 1jysA 242 7.11e+01 c.56.2.1 77216 1x6vA 630 7.13e+01 1jtvA 327 7.18e+01 c.2.1.2 84230 1xnzA 264 7.22e+01 1eudA 311 7.23e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 1e4fT 419 7.27e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1i06A 180 7.28e+01 1mup b.60.1.1 27131 1c24A 263 7.29e+01 1c24A d.127.1.1 41148 1ofdA 1520 7.30e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1kl9A 182 7.38e+01 b.40.4.5 72681 1z98A 281 7.41e+01 1fds 327 7.42e+01 1fds c.2.1.2 29838 1xhkA 187 7.51e+01 2cvzA 289 7.52e+01 1l2tA 235 7.53e+01 c.37.1.12 73514 2a19A 175 7.53e+01 1r1tA 122 7.56e+01 a.4.5.5 104769 1m45A 148 7.66e+01 a.39.1.5 78598 1edt 271 7.70e+01 2ebn c.1.8.5 28993 1ash 150 7.73e+01 1ash a.1.1.2 15622 2cwkA 160 7.82e+01 1z8oA 404 7.83e+01 1i05A 180 7.95e+01 1mup b.60.1.1 27130 1wnaA 131 7.98e+01 1zndA 174 7.99e+01 1jv4A 162 8.02e+01 b.60.1.1 67343 1opy 131 8.12e+01 1opy d.17.4.3 38113 1wy2A 351 8.12e+01 1f3vA 179 8.18e+01 1f3vA d.58.22.1 39382 1oh0A 131 8.23e+01 d.17.4.3 87004 1zu4A 320 8.25e+01 2f3yA 148 8.26e+01 1bsg 266 8.26e+01 1btl e.3.1.1 42729 1sxrA 183 8.27e+01 d.118.1.1 106101 1s4kA 120 8.39e+01 a.35.1.6 105254 1iznA 286 8.44e+01 e.43.1.1 83847 2ajfA 597 8.53e+01 2a1xA 308 8.58e+01 1zaiA 363 8.67e+01 1tl2A 236 8.72e+01 1tl2A b.67.1.1 27541 1jipA 403 8.79e+01 a.104.1.1 66748 1go3F 107 8.83e+01 a.60.8.2 65407 1hq3D 103 8.85e+01 1aoiB a.22.1.1 16464 1tzyD 103 8.85e+01 a.22.1.1 107533 1rrmA 386 8.89e+01 e.22.1.2 105081 1xgsA 295 8.90e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1kcfA 258 8.94e+01 a.140.2.1,c.55.3.7 68434,68435 1iysA 262 8.94e+01 e.3.1.1 90723