# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1q5qA 259 1.44e-01 d.153.1.4 -11433 1mkmA 249 1.81e-01 a.4.5.33 79242 d.110.2.2 79243 1dysA 348 6.63e-01 1bvwA c.6.1.1 30669 1mdwA 328 7.21e-01 d.3.1.3 84934 1lla 628 9.40e-01 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.18.3 21861 1ev7A 317 1.10e+00 1ev7B c.52.1.9 33315 1e19A 314 2.05e+00 1b7bA c.73.1.1 34967 1vjzA 341 2.14e+00 c.1.8.3 -5318 1nuyA 337 2.32e+00 e.7.1.1 86213 1l1zA 274 2.43e+00 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 1dkzA 219 3.08e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1euwA 152 3.21e+00 1dupA b.85.4.1 28349 1r2zA 274 4.24e+00 a.156.1.2 -370 b.113.1.1 -5094 g.39.1.8 -12748 1r6wA 322 4.33e+00 c.1.11.2 -5563 d.54.1.1 -9821 1q6hA 224 6.45e+00 d.26.1.1 -9487 1gmyA 261 7.13e+00 d.3.1.1 76236 1l7mA 211 7.25e+00 c.108.1.4 73664 1fs0G 230 7.31e+00 1fs0G c.49.2.1 59999 1frpA 335 7.41e+00 1frpA e.7.1.1 42875 1jx4A 352 7.63e+00 unknown_sccs -10188 unknown_sccs -11898 1l3lA 234 8.34e+00 a.4.6.2 73541 d.110.5.1 73542 1ua4A 455 9.06e+00 c.72.1.3 -8416 1nbwA 607 9.72e+00 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 1f35A 162 1.03e+01 1f35A b.94.1.1 59628 1gtmA 419 1.05e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1ka2A 499 1.08e+01 d.92.1.5 77305 3erk 364 1.16e+01 1hcl d.144.1.7 41654 1j97A 211 1.17e+01 1f5sA c.108.1.4 62753 1gk9B 557 1.17e+01 1omrA 201 1.19e+01 a.39.1.5 -854 1k6wA 426 1.21e+01 b.92.1.2 68236 c.1.9.5 68237 1p1jA 533 1.24e+01 c.2.1.3 87687 d.81.1.3 87688 1gtdA 85 1.25e+01 d.58.45.1 76344 1dgfA 497 1.38e+01 1cf9A e.5.1.1 42782 1e3aB 560 1.39e+01 1ajqB 1lktA 104 1.40e+01 1lktA b.90.1.1 28398 1nu5A 370 1.41e+01 c.1.11.2 -5565 d.54.1.1 -9823 1uylA 236 1.41e+01 1at3A 247 1.47e+01 1at3A b.57.1.1 27021 1v84A 253 1.50e+01 1te5A 257 1.51e+01 1cnv 299 1.53e+01 1cnv c.1.8.5 28989 1rvkA 382 1.54e+01 c.1.11.2 -5568 d.54.1.1 -9826 1s6yA 450 1.56e+01 1b8zA 90 1.64e+01 1huuA a.55.1.1 17902 1gesA 450 1.66e+01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 1ush 550 1.67e+01 1ush d.114.1.1 40923 d.159.1.2 42079 1floA 422 1.68e+01 1floA a.60.9.1 18106 d.163.1.1 42166 1l7aA 318 1.69e+01 c.69.1.25 77772 1914 232 1.71e+01 1914 d.49.1.1 83028 d.49.1.1 83029 1c1dA 355 1.71e+01 1bw9A c.2.1.7 30270 c.58.1.1 33918 1udmA 149 1.76e+01 1ah6 220 1.82e+01 1yer d.122.1.1 41094 1ovnA 248 1.88e+01 a.71.1.1 -1096 c.47.1.7 -7477 1byqA 228 1.90e+01 1yer d.122.1.1 41100 1nox 205 1.93e+01 1nox d.90.1.1 40242 1f9vA 347 1.97e+01 1bg2 c.37.1.9 59745 1iakA 199 2.09e+01 1iakA b.1.1.2 21625 d.19.1.1 38199 2napA 723 2.12e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1dlwA 116 2.16e+01 1dlyA a.1.1.1 14982 1b7yA 350 2.22e+01 1pysA d.104.1.1 40776 1s68A 249 2.23e+01 unknown_sccs -11253 4blmA 265 2.27e+01 1btl e.3.1.1 42721 1nteA 82 2.30e+01 b.36.1.1 86163 1r6jA 82 2.30e+01 b.36.1.1 -3732 2phlA 397 2.50e+01 1dgwA b.82.1.2 28082 b.82.1.2 28083 1k7kA 221 2.52e+01 c.51.4.1 72104 2ak3A 226 2.52e+01 1zin c.37.1.1 31892 g.41.2.1 45193 1qfhA 212 2.53e+01 1qfhA b.1.18.10 21893 b.1.18.10 21894 1owfA 99 2.57e+01 a.55.1.1 87487 1ac5 483 2.58e+01 1ac5 c.69.1.5 34653 1kyqA 274 2.68e+01 c.2.1.11 73281 e.37.1.1 73282 1fm2B 520 2.71e+01 1fm2B 1fpzA 212 2.74e+01 1fpzA c.45.1.1 59976 1gcyA 527 2.75e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1giqA 413 2.80e+01 d.166.1.1 76224 d.166.1.1 76225 1h6zA 913 2.82e+01 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1jj2P 95 2.83e+01 1ffkN b.34.5.1 63101 1s72Q 96 2.83e+01 1o8bA 219 2.92e+01 unknown_sccs 81180 d.58.40.1 81181 1dwkA 156 2.96e+01 1dw9A a.35.1.4 17075 d.72.1.1 39606 1sdjA 310 2.98e+01 d.21.1.2 -9420 d.21.1.2 -9421 1q0bA 367 3.03e+01 c.37.1.9 -7105 1pzwA 80 3.03e+01 unknown_sccs -12740 2cpl 165 3.09e+01 2cpl b.62.1.1 27420 1nvmB 312 3.10e+01 c.2.1.3 86251 d.81.1.1 86252 1pysA 350 3.23e+01 1pysA d.104.1.1 40775 1awqA 164 3.23e+01 2cpl b.62.1.1 27461 1i2sA 282 3.29e+01 e.3.1.1 71104 1oltA 457 3.38e+01 unknown_sccs -5688 1bag 425 3.63e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1vns 609 3.67e+01 1vns a.111.1.3 19061 1awsA 164 3.70e+01 2cpl b.62.1.1 27431 1is1A 185 3.74e+01 d.67.3.1 83704 1hwxA 501 3.78e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1j6pA 418 3.78e+01 b.92.1.4 77089 c.1.9.9 77090 1g8aA 227 3.80e+01 c.66.1.3 -8049 1ng4A 390 3.82e+01 c.3.1.2 85666 d.16.1.3 85667 1hrdA 449 3.82e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1np6A 174 3.87e+01 c.37.1.10 85954 1mk4A 157 3.92e+01 d.108.1.1 84979 1gpmA 525 3.98e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826