# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1d2tA 231 1.09e-11 1d2tA a.111.1.1 19052 1vnc 609 1.38e-09 1vns a.111.1.3 19065 1vns 609 1.76e-09 1vns a.111.1.3 19061 1qi9A 556 2.13e-09 1qhbA a.111.1.2 19053 1qhbA 596 2.65e-07 1qhbA a.111.1.2 19055 1e19A 314 1.28e-02 1b7bA c.73.1.1 34967 1li5A 461 2.80e-02 1b7bA 310 2.17e-01 1b7bA c.73.1.1 34963 1h2vC 771 3.87e-01 1h6kA 757 5.01e-01 a.118.1.2 60675 a.118.1.2 60676 a.118.1.2 60677 1s01 283 5.85e-01 1gci c.41.1.1 32511 1rypK 198 6.07e-01 d.153.1.4 41879 1kpkA 473 9.83e-01 f.2.1.13 68776 1avpA 204 1.00e+00 1avpA d.3.1.7 37132 1ewqA 765 1.09e+00 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1fftC 204 1.36e+00 1fftC f.2.1.3 43629 1fqyA 269 1.41e+00 1fqyA f.2.1.5 43649 1jw9B 249 1.45e+00 c.111.1.1 67377 1k7qA 479 1.76e+00 1be3D 241 1.78e+00 1be3D a.3.1.3 15955 f.2.1.8 43666 1kzhA 555 2.38e+00 1bjt 793 2.39e+00 1bjt e.11.1.1 43249 1m55A 197 2.94e+00 1go7P 462 3.25e+00 6prcM 323 3.37e+00 6prcM f.2.1.2 43435 1dxrM 323 3.38e+00 6prcM f.2.1.2 43432 1sbp 310 3.52e+00 1sbp c.94.1.1 35760 1bccD 241 3.97e+00 1be3D a.3.1.3 15959 f.2.1.8 43698 1gu9A 177 4.49e+00 a.152.1.1 65540 1kncA 177 4.55e+00 a.152.1.1 68703 1go8P 462 4.60e+00 1k7gA 479 4.61e+00 1gg3A 279 4.80e+00 1ef1A a.11.2.1 16372 b.55.1.5 27007 d.15.1.4 37615 2abd 86 5.31e+00 1aca a.11.1.1 16366 3vtk 343 5.35e+00 1qhiA c.37.1.1 31884 1k7iA 479 5.51e+00 1kplA 473 5.93e+00 f.2.1.13 68782 1ekeA 230 6.38e+00 1ekeA c.55.3.1 33572 1lr0A 129 6.73e+00 1tlfA 301 6.82e+00 1tlfA c.93.1.1 35687 1k47A 337 7.31e+00 1khdA 345 7.85e+00 1lw6E 281 8.02e+00 1sup 275 8.21e+00 1gci c.41.1.1 32510 1lqtA 456 8.59e+00 1jihA 531 8.84e+00 e.8.1.5 66740 1ae7 119 9.08e+00 1poa a.133.1.2 19553 1jplA 171 9.16e+00 a.118.9.2 67027 1lqpA 135 1.01e+01 1ca1 370 1.02e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1ixh 321 1.05e+01 1ixh c.94.1.1 35761 1fsiA 189 1.13e+01 1fsiA d.61.1.1 39536 2gsq 202 1.16e+01 1pd21 a.45.1.1 17715 c.47.1.5 33009 1a8q 274 1.17e+01 1brt c.69.1.12 34702 1c02A 166 1.19e+01 1qspA a.24.10.2 16633 1hyt 316 1.28e+01 1hyt d.92.1.2 59005 6tmnE 316 1.32e+01 1hyt d.92.1.2 59071 8tlnE 316 1.32e+01 1hyt d.92.1.2 59075 1f3iA 481 1.32e+01 1b7eA c.55.3.4 33679 1jh6A 189 1.33e+01 d.61.1.1 66707 1a6dA 545 1.34e+01 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1rtu 114 1.35e+01 9rnt d.1.1.1 36139 1hb6A 86 1.35e+01 2tmnE 316 1.38e+01 1hyt d.92.1.2 59055 1occG 84 1.39e+01 2occG f.2.1.3 43562 1fwkA 296 1.54e+01 1fwkA d.14.1.5 37576 d.58.26.1 39398 1qspA 165 1.63e+01 1qspA a.24.10.2 16639 1qa4A 57 1.65e+01 1qa4A j.52.1.1 46334 1c4kA 730 1.72e+01 1ordA c.23.7.1 31273 c.67.1.5 34502 d.125.1.1 41123 1bxm 99 1.76e+01 1bxm a.134.1.1 19618 1lriA 98 1.77e+01 1a16 440 1.79e+01 1az9 c.55.2.1 33548 d.127.1.1 41165 1sqc 631 1.86e+01 2sqcA a.102.4.2 18858 a.102.4.2 18859 1az9 457 1.87e+01 1az9 c.55.2.1 33547 d.127.1.1 41164 1fe8A 196 1.88e+01 1atzA c.62.1.1 59783 1gdhA 320 1.96e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355 1aca 86 2.00e+01 1aca a.11.1.1 16367 1egdA 396 2.08e+01 3mdeA a.29.3.1 16596 e.6.1.1 42857 1zymA 258 2.13e+01 1zymA a.60.10.1 18110 c.8.1.2 30705 1sfcA 96 2.28e+01 1sfcA h.1.15.1 45643 1i1iP 681 2.28e+01 1i1iP d.92.1.5 40297 2shkA 173 2.36e+01 1shkA c.37.1.2 31934 1e9xA 455 2.38e+01 1ea1A a.104.1.1 18969 1e6cA 173 2.39e+01 1shkA c.37.1.2 59296 1fbaA 361 2.40e+01 1fbaA c.1.10.1 29120 1l5jA 865 2.48e+01 1shkA 173 2.61e+01 1shkA c.37.1.2 31932 2occG 84 2.66e+01 2occG f.2.1.3 43522 1pbp 321 2.67e+01 1ixh c.94.1.1 35768 1flcA 432 2.81e+01 1flcA b.19.1.3 23837 c.23.10.2 31337 2ovo 56 2.84e+01 2ovo g.15.1.1 44701 3minC 491 2.88e+01 1qguA c.92.2.3 35607 1a0cA 438 2.91e+01 1a0cA c.1.15.3 29529 1f83A 425 2.94e+01 1f82A d.92.1.7 40306 1a0fA 201 2.95e+01 1a0fA a.45.1.1 17737 c.47.1.5 33031 1cv2A 296 3.07e+01 1bn6A c.69.1.8 34680 1gs5A 258 3.09e+01 1kijA 390 3.10e+01 1kutA 230 3.24e+01 1iwgA 1053 3.26e+01 1qd1A 325 3.27e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 2ezl 99 3.38e+01 2ezk a.4.1.2 16026 3fruA 269 3.41e+01 1agdA b.1.1.2 20657 d.19.1.1 38150 2occD 147 3.42e+01 1ocrD f.2.1.3 43521 1jwgA 147 3.44e+01 1ocrD 147 3.45e+01 1ocrD f.2.1.3 43541 1f82A 424 3.46e+01 1f82A d.92.1.7 40307 1toaA 313 3.50e+01 1toaA c.92.2.2 35598 1fzoA 274 3.53e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1cc1S 283 3.58e+01 2frvA e.19.1.1 43313 1fa0B 537 3.65e+01 1fa0B d.58.16.1 39336 e.9.1.2 43230 1jsmA 325 3.80e+01 b.19.1.2 63264 2minA 491 3.83e+01 1qguA c.92.2.3 35609 1sfcE 96 3.86e+01 1sfcE h.1.15.1 45647 1ivzA 132 3.91e+01