# List of top-scoring protein chains for T0200.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 1hpuA 525 2.00e-29 d.114.1.1 70979 d.159.1.2 70980 1ush 550 2.06e-29 1ush d.114.1.1 40923 d.159.1.2 42079 1hp1A 516 1.21e-27 d.114.1.1 70976 d.159.1.2 70977 1ii7A 333 2.69e-04 1ii7A d.159.1.4 62415 1kbpA 432 1.73e-03 4kbpA b.1.12.1 22349 d.159.1.1 42068 1b74A 254 2.02e-03 1b74A c.78.2.1 35264 c.78.2.1 35265 1qhwA 327 3.40e-03 1uteA d.159.1.1 42076 1qfcA 306 3.49e-03 1uteA d.159.1.1 42077 1uteA 313 8.17e-03 1uteA d.159.1.1 42078 1kfbA 268 1.65e-01 c.1.2.4 77369 1kfcA 268 1.83e-01 c.1.2.4 77371 1k8yA 268 1.87e-01 c.1.2.4 72183 1qopA 268 2.08e-01 2tysA c.1.2.4 28570 1beuA 268 2.25e-01 2tysA c.1.2.4 28574 2todA 425 5.97e-01 7odcA b.49.2.3 26489 c.1.6.1 28651 1g5bA 221 6.68e-01 1g5bA d.159.1.3 60261 1vjrA 271 6.98e-01 1f3tA 425 7.45e-01 7odcA b.49.2.3 26493 c.1.6.1 28655 1njjA 425 7.46e-01 1fw8A 416 7.49e-01 16pk c.86.1.1 60058 1pw5A 253 7.98e-01 1mirA 322 1.05e+00 1theB d.3.1.1 37062 1tis 286 1.07e+00 1bkpA d.117.1.1 41040 1hkbA 917 1.14e+00 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1czaN 917 1.15e+00 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1bg3A 918 1.21e+00 1qhaA c.55.1.3 33491 c.55.1.3 33492 c.55.1.3 33493 c.55.1.3 33494 1qhaA 917 1.29e+00 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1dgkN 917 1.42e+00 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1qrqA 325 1.48e+00 1qrqA c.1.7.1 28667 1ojxA 263 1.55e+00 1ae1A 273 1.67e+00 1bdb c.2.1.2 29943 1exbA 332 1.74e+00 1qrqA c.1.7.1 28666 1kkoA 413 1.84e+00 c.1.11.2 68675 d.54.1.1 68676 2pfkC 320 2.05e+00 3pfk c.89.1.1 35579 1pfkA 320 2.07e+00 3pfk c.89.1.1 35575 2liv 344 2.31e+00 2liv c.93.1.1 35708 1jcnA 514 2.33e+00 c.1.5.1 84160 d.37.1.1 84161 d.37.1.1 84162 1theA 260 2.39e+00 1theB d.3.1.1 37056 1cteA 254 2.57e+00 1theB d.3.1.1 37058 1nf7A 514 2.69e+00 1gnlA 544 3.13e+00 e.26.1.1 70287 1okkD 303 3.40e+00 1b5qA 472 3.51e+00 1b37B c.3.1.2 30404 d.16.1.5 37968 2at2A 300 3.79e+00 3csuA c.78.1.1 35196 c.78.1.1 35197 1mkyA 439 3.85e+00 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1e0tA 470 4.15e+00 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1e0uA 470 4.25e+00 1a49A b.58.1.1 27072 c.1.12.1 29300 c.49.1.1 33154 1pkyA 470 4.40e+00 1a49A b.58.1.1 27068 c.1.12.1 29296 c.49.1.1 33150 1ioiA 208 4.41e+00 1a2zA c.56.4.1 62629 1gr0A 367 4.42e+00 c.2.1.3 70379 d.81.1.3 70380 1gm5A 780 4.48e+00 a.29.4.1 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 1dxeA 256 4.64e+00 1dxeA c.1.12.5 29310 1iofA 208 4.94e+00 1a2zA c.56.4.1 62625 3pgk 416 5.21e+00 16pk c.86.1.1 35451 1bqcA 302 5.62e+00 1bqcA c.1.8.3 28831 1f6dA 376 5.66e+00 1f6dA c.87.1.3 35467 1dfmA 223 5.74e+00 1d2iA c.52.1.5 33295 1vgvA 384 5.75e+00 1e1dA 553 5.85e+00 1e1dA e.26.1.1 43363 1rjdA 334 5.95e+00 1gntA 553 5.98e+00 e.26.1.1 70290 1j6uA 469 6.18e+00 c.5.1.1 77094 c.59.1.1 77095 c.72.2.1 77096 1ee0A 402 6.26e+00 1bi5A c.95.1.2 36007 c.95.1.2 36008 1ir6A 424 7.04e+00 c.107.1.2 71342 1i6pA 220 7.04e+00 1ddzA c.53.2.1 61848 1kkhA 317 7.09e+00 d.14.1.5 72645 d.58.26.3 72646 1ps9A 671 8.02e+00 1hzdA 272 8.51e+00 c.14.1.3 65969 1augA 215 8.52e+00 1a2zA c.56.4.1 33798 1qzxA 440 8.75e+00 1qo2A 241 9.12e+00 1qo2A c.1.2.1 28533 1qoxA 449 9.27e+00 c.1.8.4 28965 1visA 324 9.45e+00 2ayqA 366 9.63e+00 1cnzA c.77.1.1 35057 1rj9A 304 9.71e+00 1v4sA 455 9.87e+00 1m1nB 522 9.97e+00 c.92.2.3 78418 1g20B 523 9.97e+00 1qguB c.92.2.3 35614 1v4tA 451 9.99e+00 1bf6A 291 1.10e+01 1pscA c.1.9.3 29065 1jx2B 315 1.12e+01 c.37.1.8 67404 1qs8A 329 1.16e+01 1smrA b.50.1.2 26887 1ekjA 221 1.16e+01 1ekjB c.53.2.1 33364 1od0A 468 1.19e+01 c.1.8.4 86818 1qpg 415 1.22e+01 16pk c.86.1.1 35450 1poiA 317 1.23e+01 1poiA c.63.1.2 34153 1ihoA 283 1.29e+01 1ihoA c.26.1.4 62390 1ag8A 499 1.32e+01 1bpwA c.82.1.1 35341 1o5iA 249 1.33e+01 1itoA 256 1.34e+01 d.3.1.1 76787 1b1cA 181 1.35e+01 1amoA c.23.5.2 31212 2dldA 337 1.38e+01 1dxy c.2.1.4 30099 c.23.12.1 31359 1qdqA 253 1.40e+01 1theB d.3.1.1 37064 1j42A 189 1.41e+01 1reqA 727 1.43e+01 1reqA c.1.19.1 29620 c.23.6.1 31247 5reqA 727 1.44e+01 1reqA c.1.19.1 29632 c.23.6.1 31259 1pdvA 197 1.51e+01 c.23.16.2 88036 1pe0A 197 1.53e+01 c.23.16.2 88045 1e5eA 404 1.54e+01 1ibjA c.67.1.3 59265 1e1cA 727 1.54e+01 1reqA c.1.19.1 29636 c.23.6.1 31263 1qzzA 374 1.57e+01 1p5fA 189 1.61e+01 1zfjA 491 1.61e+01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1lrzA 426 1.65e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1usgA 346 1.66e+01 1q44A 326 1.66e+01 1o5kA 305 1.68e+01 1vheA 373 1.68e+01 1bdg 451 1.71e+01 1qhaA c.55.1.3 33461 c.55.1.3 33462 1jr1A 514 1.72e+01 c.1.5.1 63241 d.37.1.1 63242 d.37.1.1 63243 1rjqA 496 1.79e+01 1ljuA 130 1.79e+01 c.44.1.1 73944 1rk6A 496 1.79e+01 1j4aA 333 1.82e+01 c.2.1.4 71502 c.23.12.1 71503 1ny1A 240 1.86e+01 c.6.2.3 86395 1vhoA 346 1.87e+01 1eakA 421 1.89e+01 a.20.1.2 70093 d.92.1.11 70094 g.14.1.2 70095 g.14.1.2 70096 g.14.1.2 70097 3pbh 317 1.92e+01 1theB d.3.1.1 37053 1jf8A 131 1.92e+01 c.44.1.1 66621 1deqA 390 1.92e+01 i.9.1.1 45987 1j49A 333 1.94e+01 c.2.1.4 71498 c.23.12.1 71499 1p0zA 131 1.98e+01 1rxiA 131 1.99e+01 1hlgA 371 2.02e+01 1hlgA c.69.1.6 34656 1c0dA 358 2.04e+01 1eceA c.1.8.3 28815 1nr6A 473 2.05e+01 2lbp 346 2.07e+01 2liv c.93.1.1 35709 1kjnA 157 2.13e+01 c.115.1.1 72614 1qh5A 260 2.18e+01 1qh5A d.157.1.2 42057 1bia 321 2.18e+01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1o02A 500 2.22e+01 c.82.1.1 86499 1cw3A 494 2.23e+01 1bpwA c.82.1.1 35349 7odcA 424 2.25e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1miqA 375 2.31e+01 b.50.1.2 79151 1nykA 165 2.35e+01 b.33.1.1 86408 1m7jA 484 2.42e+01 b.92.1.6 78732 b.92.1.6 78733 c.1.9.11 78734 1nijA 318 2.42e+01 c.37.1.10 85741 d.237.1.1 85742 1e5dA 402 2.51e+01 1e5dA c.23.5.1 31208 d.157.1.3 42061 1eceA 358 2.52e+01 1eceA c.1.8.3 28813 1mioB 458 2.52e+01 1qguB c.92.2.3 35602 1vkdA 338 2.58e+01 1ljlA 131 2.61e+01 c.44.1.1 73939 1gctA 241 2.62e+01 5ptp b.47.1.2 26021 1d7kA 421 2.64e+01 7odcA b.49.2.3 26486 c.1.6.1 28648 1ck7A 631 2.64e+01 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 1i60A 278 2.67e+01 c.1.15.4 71118 1jksA 294 2.70e+01 d.144.1.7 71710 1hkvA 453 2.72e+01 b.49.2.3 83559 c.1.6.1 83560 1hv8A 367 2.78e+01 1hv8A c.37.1.19 32405 c.37.1.19 32406 1e4yA 214 2.79e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1rypG 244 2.79e+01 d.153.1.4 41938 1vhdA 371 2.80e+01 1j3kC 328 2.81e+01 d.117.1.1 84072 1sp4B 205 2.82e+01 1g0uF 248 2.83e+01 d.153.1.4 41951 1fzrA 138 2.86e+01 1fzrA c.52.1.17 33336 1h3jA 341 2.88e+01 a.93.1.1 83469 1cp3A 277 2.91e+01 1pauA c.17.1.1 30992 1qh8B 519 2.94e+01 1qguB c.92.2.3 35634 1r3qA 367 2.95e+01 1r3vA 367 2.97e+01 1r3rA 367 2.99e+01 1on4A 174 3.00e+01 1lk0A 131 3.00e+01 c.44.1.1 73948 1j8mF 297 3.01e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1ebdA 455 3.02e+01 1lvl c.3.1.5 30577 c.3.1.5 30578 d.87.1.1 40210 1e4vA 214 3.04e+01 1zin c.37.1.1 31903 g.41.2.1 45183 1i4eB 258 3.11e+01 1pauA c.17.1.1 61686 1r3wA 367 3.12e+01 1jpkA 388 3.14e+01 c.1.22.1 67026 1r3sA 367 3.15e+01 1pjmB 460 3.15e+01 1q1sC 466 3.16e+01 1akeA 214 3.19e+01 1zin c.37.1.1 31905 g.41.2.1 45185 1r8jA 289 3.20e+01 1lkjA 146 3.23e+01 a.39.1.5 84623 1o08A 221 3.24e+01 c.108.1.6 86525 1ig3A 263 3.27e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1fntG 287 3.28e+01 1s2uA 295 3.29e+01 1o2dA 371 3.33e+01 e.22.1.2 86591 1v93A 296 3.34e+01 1gmyA 261 3.34e+01 d.3.1.1 76236 1cydA 244 3.36e+01 1cydA c.2.1.2 29825 1o04A 500 3.38e+01 c.82.1.1 86508 1fjmA 330 3.40e+01 1auiA d.159.1.3 42082 1m6nA 802 3.40e+01 a.162.1.1 78697 a.172.1.1 78698 c.37.1.19 78699 c.37.1.19 78700 1jixA 351 3.43e+01 1c3jA c.87.1.1 63081 1iknD 236 3.44e+01 1iknD d.211.1.1 19171 1m0dA 138 3.44e+01 c.52.1.17 74354 1s3gA 217 3.45e+01 1im8A 244 3.48e+01 c.66.1.14 66212 1gg4A 452 3.51e+01 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1nzdA 351 3.57e+01 1p5dX 463 3.60e+01 1hrhA 136 3.61e+01 1rthA c.55.3.1 33577 1e3kA 258 3.62e+01 1a28A a.123.1.1 59193 1o98A 511 3.63e+01 c.105.1.1 86684 c.76.1.3 86685 1o99A 511 3.64e+01 c.105.1.1 81235 c.76.1.3 81236 1dfkA 830 3.68e+01 1lvk b.34.3.1 24573 c.37.1.9 32170 1dflA 831 3.68e+01 1lvk b.34.3.1 24574 c.37.1.9 32171 1b7tA 835 3.73e+01 1lvk b.34.3.1 24572 c.37.1.9 32169 1qviA 840 3.74e+01 1kk8A 837 3.74e+01 b.34.3.1 77428 c.37.1.9 77429 1i5eA 209 3.82e+01 c.61.1.1 71116 1g8lA 411 3.87e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1dlc 584 3.87e+01 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 1mtoA 319 3.87e+01 c.89.1.1 79458 1jflA 228 3.89e+01 c.78.2.1 71656 c.78.2.1 71657 1bvuA 418 3.91e+01 1hwyA c.2.1.7 30226 c.58.1.1 33874 1nfiE 213 3.92e+01 1iknD d.211.1.1 19172