# List of top-scoring protein chains for T0326.t04-w0.5 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 3.93e-34 1wl8A 189 5.77e-28 1gpmA 525 3.54e-27 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1jdbC 382 1.42e-26 c.8.3.1,c.23.16.1 30756,31433 1cs0B 382 1.68e-26 1c3oB c.8.3.1,c.23.16.1 30740,31417 1t36B 382 1.92e-26 c.8.3.1,c.23.16.1 106307,106308 1m6vB 382 2.67e-26 c.8.3.1,c.23.16.1 74542,74543 1keeB 382 8.64e-26 c.8.3.1,c.23.16.1 68498,68499 1qdlB 195 1.40e-25 1qdlB c.23.16.1 31437 1a9xB 379 1.43e-25 1c3oB c.8.3.1,c.23.16.1 30732,31409 2a9vA 212 2.39e-25 1c30B 382 2.95e-25 c.8.3.1,c.23.16.1 30736,31413 1o1yA 239 1.22e-22 c.23.16.1 86554 1i7qB 193 2.70e-22 1qdlB c.23.16.1 61902 1i1qB 192 1.68e-21 1qdlB c.23.16.1 61544 1ox6A 555 2.56e-11 c.1.2.1,c.23.16.1 87505,87506 1s1mA 545 3.47e-11 c.23.16.1,c.37.1.10 105201,105202 1jvnA 555 1.74e-10 c.1.2.1,c.23.16.1 67355,67356 1vcnA 550 1.52e-09 c.23.16.1,c.37.1.10 108506,108507 1vcoA 550 1.60e-09 c.23.16.1,c.37.1.10 108508,108509 1kxjA 205 2.20e-09 c.23.16.1 73153 1k9vF 201 2.62e-09 c.23.16.1 68365 1q7rA 219 6.38e-09 c.23.16.1 96054 1ka9H 200 5.16e-08 c.23.16.1 77308 1r9gA 216 1.25e-07 c.23.16.1 97258 1l9xA 315 2.00e-07 c.23.16.1 73762 1g2iA 166 1.36e-04 1g2iA c.23.16.2 31438 1oi4A 193 2.16e-04 c.23.16.2 87047 2abwA 227 3.78e-04 2fexA 188 9.60e-03 1j42A 189 8.16e-02 c.23.16.2 90837 1u0tA 307 9.41e-02 e.52.1.1 107567 1y3hA 307 9.43e-02 1pdvA 197 1.27e-01 c.23.16.2 88036 1p5fA 189 1.28e-01 c.23.16.2 94142 1pe0A 197 1.64e-01 c.23.16.2 88045 1t3tA 1303 2.87e-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 4pfk 319 1.07e+00 3pfk c.89.1.1 35582 2gk3A 256 1.08e+00 1z0sA 278 1.15e+00 6pfkA 319 1.17e+00 3pfk c.89.1.1 35583 1suwA 249 1.18e+00 e.52.1.1 106027 1mtoA 319 1.29e+00 c.89.1.1 79458 1xiqA 157 1.44e+00 1sm9A 322 1.45e+00 1ye6A 322 1.49e+00 1mi3A 322 1.51e+00 c.1.7.1 91274 1z9aA 321 1.51e+00 1u9cA 224 1.72e+00 1mn8A 100 1.97e+00 a.61.1.6 79318 1r38A 322 2.17e+00 1uhuA 105 2.40e+00 a.61.1.6 107854 1g8lA 411 2.48e+00 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1kzhA 555 2.86e+00 c.89.1.1 73361 1jxvA 152 2.94e+00 d.58.6.1 71932 1jixA 351 3.69e+00 1c3jA c.87.1.1 63081 1nzdA 351 3.70e+00 c.87.1.1 92373 1ep1B 261 3.86e+00 1ep2B b.43.4.2,c.25.1.3 25665,31555 1ep3B 262 3.86e+00 1ep2B b.43.4.2,c.25.1.3 25664,31554 1bgxT 832 4.03e+00 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18083,33353,33699,42992 1k2yX 463 4.04e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1n4aA 252 4.05e+00 c.92.2.2 85317 1taq 832 4.08e+00 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18082,33352,33698,42991 1p5dX 463 4.08e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2fkfA 462 4.08e+00 1n2zA 245 4.28e+00 c.92.2.2 79865 1yioA 208 4.94e+00 2acvA 463 5.35e+00 2acwA 465 5.54e+00 2fkmX 462 5.61e+00 1xo6A 530 5.61e+00 1zq1A 438 5.76e+00 2cfyA 521 5.76e+00 1vluA 468 5.86e+00 c.82.1.1 108864 1xnwA 530 5.95e+00 1vrgA 527 6.23e+00 1bhnA 152 6.29e+00 1npk d.58.6.1 39093 2cunA 410 7.19e+00 2atmA 331 7.47e+00 1u3iA 211 7.49e+00 2a7sA 548 7.50e+00 4nul 138 7.88e+00 5nul c.23.5.1 31201 1owcA 427 8.18e+00 a.103.1.1 104039 1nxeA 427 8.22e+00 a.103.1.1 86377 1k3pA 426 8.35e+00 a.103.1.1 77237 1wzuA 300 9.30e+00 2d0iA 333 9.61e+00 1be4C 152 9.61e+00 1npk d.58.6.1 39092 1ka9F 252 9.99e+00 c.1.2.1 77307 1be4A 151 1.00e+01 1npk d.58.6.1 39090 1uz5A 402 1.00e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1n57A 291 1.07e+01 c.23.16.2 85328 1ucnA 152 1.07e+01 d.58.6.1 99183 1onsA 282 1.08e+01 c.23.16.2 93371 1pv2A 283 1.08e+01 c.23.16.2 95142 1izyA 283 1.08e+01 c.23.16.2 90729 2pgd 482 1.28e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1s57A 153 1.32e+01 2fvvA 194 1.35e+01 1eq2A 310 1.36e+01 1eq2A c.2.1.2 29814 1ht6A 405 1.44e+01 b.71.1.1,c.1.8.1 83629,83630 1vrdA 494 1.49e+01 2bfwA 200 1.56e+01 1p4cA 380 1.60e+01 c.1.4.1 94100 1nskL 152 1.61e+01 1npk d.58.6.1 39083 1g5cA 170 1.61e+01 1g5cA c.53.2.1 60264 1ehs 48 1.66e+01 1ehs g.2.1.1 43998 1oy1A 228 1.66e+01 c.23.16.2 87548 1nueA 151 1.67e+01 1npk d.58.6.1 39076 1vhqA 232 1.70e+01 c.23.16.2 100696 2et6A 604 1.72e+01 1oe8A 211 1.72e+01 a.45.1.1,c.47.1.5 86905,86906 1yrrA 382 1.80e+01 1pfkA 320 1.81e+01 3pfk c.89.1.1 35575 2pfkC 320 1.82e+01 3pfk c.89.1.1 35579 1qcwA 410 1.83e+01 1gox c.1.4.1 28622 1kbjA 412 1.86e+01 c.1.4.1 72280 2fp4B 395 1.88e+01 1eudB 396 1.88e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 2ab0A 205 1.91e+01 4nll 138 2.20e+01 5nul c.23.5.1 31203 1ytmA 532 2.26e+01 1im5A 180 2.30e+01 c.33.1.3 66211 4ecaA 326 2.36e+01 4pgaA c.88.1.1 35550 1nsj 205 2.38e+01 1nsj c.1.2.4 28560 2c57A 180 2.40e+01 1szfA 511 2.43e+01 c.1.4.1 106153 1szeA 511 2.51e+01 c.1.4.1 106151 1tb3A 352 2.57e+01 1x7oA 287 2.58e+01 1iugA 352 2.61e+01 c.67.1.3 90699 1gq2A 555 2.62e+01 c.2.1.7,c.58.1.3 70308,70309 1nsqA 153 2.63e+01 1npk d.58.6.1 39135 1f74A 293 2.65e+01 1nal3 c.1.10.1 29079 2bnxA 386 2.73e+01 1xyzA 347 2.73e+01 1taxA c.1.8.3 28804 1ub0A 258 2.76e+01 c.72.1.2 88394 1qgjA 300 2.78e+01 1bgp a.93.1.1 18691 2c4vA 167 2.81e+01 1h6vA 499 2.83e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 1kwgA 645 2.86e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1ltdA 506 2.86e+01 1gox c.1.4.1,d.120.1.1 28618,41086 1lcoA 511 2.88e+01 1gox c.1.4.1,d.120.1.1 28624,41088 1kbiA 511 2.90e+01 c.1.4.1,d.120.1.1 72277,72278 1ho3A 326 2.94e+01 4pgaA c.88.1.1 61101 1dxlA 470 3.00e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30585,30586,40214 2f31A 233 3.03e+01 1fvx 138 3.04e+01 5nul c.23.5.1 31204 1v2xA 194 3.09e+01 c.116.1.1 100274 2go7A 207 3.15e+01 1m3sA 186 3.20e+01 c.80.1.3 78573 1jazA 326 3.25e+01 c.88.1.1 90883 2bkwA 385 3.25e+01 1cbg 490 3.26e+01 1e70M c.1.8.4 28933 1hyuA 521 3.27e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1vivA 197 3.31e+01 c.80.1.3 100775 2c4wA 176 3.32e+01 2f8aA 208 3.32e+01 1nnsA 326 3.37e+01 c.88.1.1 85910 1os1A 540 3.41e+01 c.91.1.1,c.109.1.1 93467,93468 1ayl 541 3.42e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1vbuA 328 3.45e+01 1zcfA 327 3.52e+01 1rp9A 405 3.55e+01 2bwwA 440 3.60e+01 2bwvA 440 3.63e+01 2bwxA 441 3.64e+01 2fdx 138 3.67e+01 5nul c.23.5.1 31192 5nll 138 3.72e+01 5nul c.23.5.1 31198 1ihnA 113 3.80e+01 1ihnA c.103.1.1 62388 1z9tA 255 3.80e+01 1v9lA 421 3.97e+01 2bwtA 440 4.01e+01 1rw7A 243 4.03e+01 c.23.16.2 97963 1ojt 482 4.06e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30581,30582,40212 1bhy 482 4.10e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30583,30584,40213 1qvvA 237 4.16e+01 c.23.16.2 96442 1jaw 440 4.19e+01 1az9 c.55.2.1,d.127.1.1 33549,41166 2bwyA 440 4.22e+01 1wl9A 440 4.23e+01 2bwsA 440 4.28e+01 1nhjA 333 4.39e+01 d.14.1.3,d.122.1.2 85720,85721 1z2zA 446 4.40e+01 1v8aA 265 4.43e+01 c.72.1.2 100494 2aw5A 541 4.49e+01 1ktq 543 4.77e+01 1taq c.55.3.5,e.8.1.1 33703,42996 1b63A 333 4.81e+01 1b63A d.14.1.3,d.122.1.2 37566,41107 1dl3A 203 4.82e+01 1nsj c.1.2.4 28561 2bisA 440 4.84e+01 1dctA 324 4.93e+01 6mhtA c.66.1.26 34244 2bwuA 440 4.96e+01 1wbfA 242 5.10e+01 1led b.29.1.1 24050 1wblA 241 5.14e+01 1led b.29.1.1 24052 3nll 138 5.21e+01 5nul c.23.5.1 31206 5nul 138 5.22e+01 5nul c.23.5.1 31191 1bknA 352 5.25e+01 1b63A d.14.1.3,d.122.1.2 37568,41109 2cw6A 298 5.28e+01 1b62A 349 5.28e+01 1b63A d.14.1.3,d.122.1.2 37567,41108 1f5vA 240 5.30e+01 1bkjA d.90.1.1 40255 1xi8A 403 5.48e+01 1ehwA 162 5.55e+01 1npk d.58.6.1 39088 1dc7A 124 5.69e+01 1dbwA c.23.1.1 31093 1yuzA 202 5.70e+01 1yv1A 202 5.76e+01 2bapA 317 5.82e+01 2h21A 440 6.01e+01 1p0yA 444 6.04e+01 a.166.1.1,b.85.7.3 87654,87655 1wa3A 205 6.14e+01 1v59A 478 6.15e+01 1z2cB 383 6.16e+01 2fcr 173 6.22e+01 1rcf c.23.5.1 31151 1vlwA 217 6.27e+01 c.1.10.1 108868 1xafA 246 6.33e+01 d.194.1.2 109535 1yw3A 208 6.42e+01 1u05A 243 6.42e+01 d.194.1.2 107541 1lvl 458 6.45e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 1viqA 220 6.46e+01 d.113.1.1 100766 1oen 540 6.56e+01 1ayl c.91.1.1,c.109.1.1 64750,64751 2fnaA 357 6.59e+01 1g0sA 209 6.68e+01 1g0sA d.113.1.1 60187 1ryiA 382 6.77e+01 1djqA 729 6.88e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1gp1A 198 6.88e+01 1gp1A c.47.1.10 33059 1ul4A 94 6.91e+01 g.72.1.1 99538 1o94A 729 6.91e+01 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1djlA 207 7.05e+01 1d4oA c.31.1.4 31746 1m5xA 170 7.13e+01 d.95.2.1 84844 1jeyB 565 7.13e+01 1jeqB b.131.1.2,c.62.1.4 90372,90373 1qssA 539 7.16e+01 1taq c.55.3.5,e.8.1.1 33697,42990 1yh3A 256 7.24e+01 1k1dA 460 7.28e+01 b.92.1.3,c.1.9.6 71979,71980 1v6tA 255 7.29e+01 1yrqA 264 7.30e+01 1xrlA 293 7.32e+01 1yqwA 264 7.43e+01 1qvzA 237 7.45e+01 c.23.16.2 96453 1sjpA 504 7.50e+01 1j6uA 469 7.62e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1zxoA 291 7.63e+01 1avaA 403 7.67e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 1jyeA 349 7.73e+01 c.93.1.1 67455 1we3A 543 7.81e+01 a.129.1.1,c.8.5.1,d.56.1.1 109288,109289,109290 1fyeA 229 7.96e+01 1fyeA c.23.16.4 31477 2gp4A 628 8.12e+01 1ng4A 390 8.28e+01 c.3.1.2,d.16.1.3 85666,85667 1f0kA 364 8.37e+01 1f0kA c.87.1.2 35465 1ltqA 301 8.43e+01 c.108.1.9,c.37.1.1 78208,78209 1w7lA 422 8.49e+01 c.67.1.1 109226 1mo9A 523 8.55e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1mjhA 162 8.71e+01 1mjhA c.26.2.4 31639 1sbp 310 8.95e+01 1sbp c.94.1.1 35760