# List of top-scoring protein chains for t04-100-30-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 1lrzA 426 8.52e-01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1s72Q 96 8.77e-01 1jj2P 95 1.03e+00 1ffkN b.34.5.1 63101 1r7lA 110 1.36e+00 1m3kA 392 1.95e+00 c.95.1.1 78565 c.95.1.1 78566 1qflA 389 2.32e+00 1afwA c.95.1.1 35908 c.95.1.1 35909 1m4tA 392 2.32e+00 c.95.1.1 78617 c.95.1.1 78618 1l7mA 211 2.42e+00 c.108.1.4 73664 1k6wA 426 2.76e+00 b.92.1.2 68236 c.1.9.5 68237 1d4xG 126 2.86e+00 1d0nA d.109.1.1 59109 1e19A 314 2.96e+00 1b7bA c.73.1.1 34967 1nm1G 125 3.19e+00 d.109.1.1 80653 1d7yA 408 3.23e+00 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 2cpl 165 3.44e+00 2cpl b.62.1.1 27420 1j97A 211 3.51e+00 1f5sA c.108.1.4 62753 1h9oA 112 3.87e+00 1qadA d.93.1.1 60837 1v5sA 126 4.33e+00 1gmyA 261 4.47e+00 d.3.1.1 76236 1a65A 504 4.47e+00 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 4uagA 437 4.62e+00 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1awqA 164 5.13e+00 2cpl b.62.1.1 27461 1onwA 390 5.13e+00 b.92.1.7 87172 c.1.9.13 87173 1pcfA 66 5.39e+00 1pcfA d.18.1.1 38142 1dypA 271 5.42e+00 1dypA b.29.1.2 24185 1rxxA 421 5.54e+00 unknown_sccs -10982 1awsA 164 5.73e+00 2cpl b.62.1.1 27431 1r6jA 82 5.86e+00 b.36.1.1 -3732 1q7zA 566 5.92e+00 c.1.21.2 -5638 c.1.26.1 -5666 1ush 550 6.01e+00 1ush d.114.1.1 40923 d.159.1.2 42079 1nteA 82 6.08e+00 b.36.1.1 86163 1onxA 390 6.43e+00 b.92.1.7 87176 c.1.9.13 87177 1deuA 277 6.49e+00 1theB d.3.1.1 37085 1fr2B 134 6.59e+00 d.4.1.1 83257 1ca1 370 7.27e+00 1ca1 a.124.1.1 19340 b.12.1.3 23648 1iz0A 302 7.34e+00 b.35.1.2 83821 c.2.1.1 83822 1bqyA 234 7.50e+00 5ptp b.47.1.2 26332 1lfpA 249 7.68e+00 e.39.1.1 73885 1sv6A 269 7.97e+00 1l1zA 274 7.97e+00 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 1j1nA 492 7.98e+00 c.94.1.1 83978 1mp9A 198 8.03e+00 a.74.1.2 -1127 a.74.1.2 -1128 1theA 260 8.24e+00 1theB d.3.1.1 37056 1h2rL 534 8.40e+00 1h2rL e.18.1.1 43298 2tbs 222 8.43e+00 5ptp b.47.1.2 26009 1emvB 134 8.47e+00 1bxiB d.4.1.1 37135 1mgqA 83 8.79e+00 b.38.1.1 79099 1ubkL 534 8.82e+00 e.18.1.1 88422 1fvgA 199 8.84e+00 1fvaA d.58.28.1 39408 1umgA 362 9.01e+00 1hj8A 222 9.83e+00 b.47.1.2 65844 1a0jA 223 9.91e+00 5ptp b.47.1.2 26002 1czfA 362 9.95e+00 1czfA b.80.1.3 28031 1g9oA 91 1.01e+01 1pdr b.36.1.1 60400 1o8bA 219 1.01e+01 unknown_sccs 81180 d.58.40.1 81181 1bdo 80 1.07e+01 1bdo b.84.1.1 28214 1hfuA 503 1.11e+01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1hp1A 516 1.12e+01 d.114.1.1 70976 d.159.1.2 70977 1s83A 223 1.15e+01 b.47.1.2 -4178 1euwA 152 1.18e+01 1dupA b.85.4.1 28349 1j6pA 418 1.19e+01 b.92.1.4 77089 c.1.9.9 77090 1h09A 338 1.27e+01 b.109.1.1 83420 c.1.8.8 83421 1a05A 358 1.30e+01 1cnzA c.77.1.1 35059 1q3eA 207 1.38e+01 b.82.3.2 -4922 1pvdA 537 1.40e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1bzyA 217 1.41e+01 1qk3A c.61.1.1 34071 1erjA 393 1.41e+01 1erjA b.69.4.1 27660 1ton 235 1.41e+01 5ptp b.47.1.2 26307 1ehiA 377 1.42e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1f60B 94 1.47e+01 1b64 d.58.12.1 39307 1mctA 223 1.48e+01 5ptp b.47.1.2 25961 1f7zA 233 1.58e+01 5ptp b.47.1.2 59681 1uj6A 227 1.60e+01 1rhfA 182 1.61e+01 b.1.1.1 -2335 b.1.1.4 -2684 1ktaA 365 1.61e+01 e.17.1.1 77533 1cv8 174 1.64e+01 1cv8 d.3.1.1 37089 1nnhA 294 1.70e+01 d.104.1.1 -10772 1e8pA 46 1.72e+01 g.55.1.1 59385 1ggxA 223 1.80e+01 1ggxA d.22.1.1 38367 1d8hA 311 1.82e+01 1d8iA d.63.1.1 39544 1g3qA 237 1.87e+01 1hyqA c.37.1.10 60237 1be9A 119 1.88e+01 1pdr b.36.1.1 24774 1r2zA 274 1.98e+01 a.156.1.2 -370 b.113.1.1 -5094 g.39.1.8 -12748 1ekfA 365 2.02e+01 1ekfA e.17.1.1 59445 1bmv2 374 2.03e+01 1bmv2 1trb 320 2.08e+01 1trb c.3.1.5 30529 c.3.1.5 30530 1lktA 104 2.09e+01 1lktA b.90.1.1 28398 1r64A 481 2.10e+01 b.18.1.20 -3151 c.41.1.1 -7297 1qmvA 197 2.11e+01 1qq2A c.47.1.10 33066 1li4A 432 2.13e+01 c.2.1.4 84616 c.23.12.3 84617 1qd6C 240 2.15e+01 1qd5A 1dl5A 317 2.17e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 16pk 415 2.26e+01 16pk c.86.1.1 35454 1g291 372 2.26e+01 1g291 1ii7A 333 2.27e+01 1ii7A d.159.1.4 62415 1yal 218 2.29e+01 1cs8A d.3.1.1 37025 1evfA 264 2.30e+01 1bkpA d.117.1.1 40932 1preA 470 2.30e+01 1preA d.169.1.2 42437 f.8.1.1 43824 1dekA 241 2.31e+01 1dekA c.37.1.1 31842 1eo9B 241 2.32e+01 3pchM b.3.6.1 22826 1je0A 236 2.39e+01 c.56.2.1 66581 1que 303 2.40e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 1hkxA 147 2.49e+01 d.17.4.7 83567 1ir3A 306 2.51e+01 1fmk d.144.1.7 41702 1jmxB 349 2.54e+01 b.69.2.2 66906 1sr9A 644 2.59e+01 1ogiA 303 2.63e+01 b.43.4.2 -4042 c.25.1.1 -6587 1c8zA 265 2.64e+01 1c8zA d.23.1.1 38375 1bupA 386 2.73e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1mb4A 370 2.74e+01 c.2.1.3 78908 d.81.1.1 78909 1kay 381 2.76e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1i8aA 189 2.79e+01 1i82A b.1.9.2 61951 1pgl2 370 2.79e+01 2trxA 108 2.82e+01 1thx c.47.1.1 32719 1lkkA 105 2.85e+01 1lckA d.93.1.1 40412 1gdhA 320 2.89e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355 1p1mA 406 2.97e+01 b.92.1.4 87696 c.1.9.9 87697 1go2A 304 2.97e+01 b.43.4.2 76243 c.25.1.1 76244 1ivg 388 2.99e+01 2qwc b.68.1.1 27578 1o1yA 239 3.01e+01 c.23.16.1 86554 1ofdA 1520 3.04e+01 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1nd4A 264 3.04e+01 d.144.1.6 -11381 1ljoA 77 3.05e+01 b.38.1.1 73941 1pzxA 289 3.06e+01 c.119.1.1 -8623 1suuA 312 3.09e+01 unknown_sccs -4610 1p3dA 475 3.12e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1nv8A 284 3.12e+01 c.66.1.30 86224 1pjqA 457 3.13e+01 c.2.1.11 -5904 c.90.1.1 -8611 e.37.1.1 -12004 1sdwA 314 3.14e+01 b.121.1.2 -3024 b.121.1.2 -3025 1th8A 145 3.23e+01 1phm 310 3.24e+01 1phm b.121.1.2 59015 b.121.1.2 59016 1umhA 184 3.26e+01 unknown_sccs -3127 1h9mA 145 3.29e+01 1h9jA b.40.6.2 60833 b.40.6.2 60834 1hgxA 183 3.32e+01 1tc1A c.61.1.1 34027 1qipA 183 3.34e+01 1qipA d.32.1.1 38470 1sjwA 144 3.37e+01 unknown_sccs -9296 1cx4A 305 3.42e+01 b.82.3.2 59099 b.82.3.2 59100 1l6oA 95 3.48e+01 b.36.1.1 84534 1o6dA 163 3.53e+01 c.116.1.3 -6689 1v58A 241 3.54e+01 1bag 425 3.63e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1sqsA 242 3.78e+01 unknown_sccs -6433 1bjmA 216 3.81e+01 8fabA b.1.1.1 20524 b.1.1.2 21460 1t82A 155 3.83e+01 1lm4A 194 3.89e+01 d.167.1.1 84626 1thfD 253 3.91e+01 1thfD c.1.2.1 28535 1mkaA 171 3.95e+01 1mkaA d.38.1.2 38543