# 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 1souA 194 1.15e-27 1ehiA 377 7.15e-01 1iow c.30.1.2 31716 d.142.1.1 41484 1ltlA 279 1.23e+00 b.40.4.11 84701 1koe 172 2.23e+00 1koe d.169.1.5 42448 1sg1X 161 2.42e+00 1cf9A 753 2.64e+00 1cf9A c.23.16.3 31441 e.5.1.1 42815 1f8yA 157 2.89e+00 1f8xA c.23.14.1 31395 1h7wA 1025 3.51e+00 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1gteA 1025 3.63e+00 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 2prd 174 3.69e+00 2prd b.40.5.1 25435 1p80A 753 3.69e+00 c.23.16.3 -6547 e.5.1.1 -11840 1rjdA 334 3.85e+00 unknown_sccs -8079 1dqwA 267 4.02e+00 1dqwA c.1.2.3 28551 1dozA 309 4.29e+00 1ak1 c.92.1.1 35592 1bmdA 327 4.32e+00 1bmdA c.2.1.5 30139 d.162.1.1 42106 2lbp 346 4.36e+00 2liv c.93.1.1 35709 1usgA 346 4.44e+00 c.93.1.1 -8635 1omzA 293 4.61e+00 c.68.1.15 87093 1bdmA 327 4.89e+00 1bmdA c.2.1.5 30137 d.162.1.1 42104 1ls1A 295 5.08e+00 a.24.13.1 78170 c.37.1.10 78171 1i7pA 274 5.61e+00 b.43.4.2 66048 c.25.1.1 66049 1vheA 373 6.24e+00 unknown_sccs -4280 c.56.5.4 -7890 1hgxA 183 6.38e+00 1tc1A c.61.1.1 34027 1v9fA 325 6.46e+00 1jeyB 565 6.51e+00 1jeqB unknown_sccs -4431 unknown_sccs -7995 1sv6A 269 6.68e+00 1vhoA 346 7.21e+00 unknown_sccs -4283 c.56.5.4 -7893 1efvB 255 8.39e+00 1efvB c.26.2.3 31634 1qunB 279 8.97e+00 b.2.3.2 22411 b.2.3.2 22412 1poiA 317 1.00e+01 1poiA unknown_sccs 34153 1nox 205 1.01e+01 1nox d.90.1.1 40242 1i50F 155 1.09e+01 d.78.1.2 61760 2ng1 293 1.10e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1e3dB 542 1.22e+01 1h2rL e.18.1.1 59189 3chy 128 1.28e+01 3chy c.23.1.1 31038 1to6A 371 1.30e+01 1c7sA 858 1.32e+01 1qba b.1.18.2 21812 b.2.2.3 22408 c.1.8.6 29011 d.92.2.1 40410 1ca1 370 1.34e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1oyc 400 1.34e+01 1oyc c.1.4.1 28603 1uwzA 136 1.34e+01 1v84A 253 1.45e+01 1ton 235 1.49e+01 5ptp b.47.1.2 26307 1kqpA 271 1.64e+01 c.26.2.1 72883 1ih8A 271 1.73e+01 2nsyA c.26.2.1 62377 1jtkA 136 1.77e+01 c.97.1.1 71862 1fmcA 255 1.81e+01 1cydA c.2.1.2 29856 1vhtA 218 1.82e+01 c.37.1.1 -7004 1r13A 148 1.85e+01 d.169.1.1 -11646 h.1.1.1 -12895 1ixkA 315 1.86e+01 unknown_sccs -8099 1h09A 338 1.86e+01 b.109.1.1 83420 c.1.8.8 83421 1dmhA 311 1.88e+01 1dmhA b.3.6.1 22633 1dzlA 505 1.93e+01 1dzlA b.121.6.1 23586 1k2yX 463 1.97e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1p5dX 463 2.07e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1s2dA 167 2.07e+01 c.23.14.1 -6469 1oxxK 353 2.11e+01 b.40.6.3 -3969 c.37.1.12 -7187 1klfB 279 2.11e+01 b.2.3.2 72684 b.2.3.2 72685 1l2tA 235 2.12e+01 c.37.1.12 73514 1sq9A 397 2.23e+01 1b0uA 262 2.27e+01 1b0uA c.37.1.12 32370 1g2iA 166 2.31e+01 1g2iA c.23.16.2 31438 1s14A 194 2.37e+01 d.122.1.2 -10973 1ejxC 567 2.41e+01 b.92.1.1 83184 c.1.9.2 83185 1ndh 272 2.44e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 6ldh 330 2.48e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1lldA 319 2.49e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 1hyhA 309 2.58e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1kk1A 410 2.60e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 4ubpC 570 2.60e+01 1ubpC b.92.1.1 28431 c.1.9.2 29053 1p1mA 406 2.69e+01 b.92.1.4 87696 c.1.9.9 87697 1oxsC 353 2.79e+01 b.40.6.3 87519 c.37.1.12 87520 1htqA 477 2.81e+01 d.15.9.1 71035 d.128.1.1 71036 1tc1A 220 2.88e+01 1tc1A c.61.1.1 34083 1j6pA 418 2.92e+01 b.92.1.4 77089 c.1.9.9 77090 1jnrB 150 2.98e+01 d.58.1.5 66969 1mixA 206 2.99e+01 a.11.2.1 79166 b.55.1.5 79167 1uuhA 159 3.01e+01 d.169.1.4 -11651 1ofuA 320 3.03e+01 c.32.1.1 86972 d.79.2.1 86973 2trxA 108 3.05e+01 1thx c.47.1.1 32719 1rf6A 427 3.05e+01 d.68.2.2 -10314 1o70A 324 3.22e+01 b.118.1.1 81115 b.118.1.1 81116 1i60A 278 3.30e+01 c.1.15.4 71118 1gpeA 587 3.32e+01 1gpeA c.3.1.2 30387 d.16.1.1 37951 1guzA 310 3.34e+01 c.2.1.5 65586 d.162.1.1 65587 1uunA 184 3.53e+01 unknown_sccs -12370 5croA 66 3.53e+01 1orc a.35.1.2 17044 1amp 291 3.58e+01 1amp c.56.5.4 33837 1lokA 291 3.58e+01 c.56.5.4 78122 1pzgA 331 3.61e+01 c.2.1.5 -5931 d.162.1.1 -11498 1dhkB 223 3.63e+01 1led b.29.1.1 24157 1cjwA 166 3.75e+01 1cjwA d.108.1.1 40818 1gc0A 398 3.76e+01 c.67.1.3 70168 1uteA 313 3.82e+01 1uteA d.159.1.1 42078 2trcP 217 3.86e+01 1b9yC c.47.1.6 33051 1ka1A 357 3.90e+01 e.7.1.1 68369 1g0cA 364 3.94e+01 7a3hA c.1.8.3 60165 4xis 387 3.96e+01 4xis c.1.15.3 29421 1uedA 406 3.97e+01 a.104.1.1 -1459