# List of top-scoring protein chains for t04-100-30-dssp-ehl2 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 1l7mA 211 6.20e-01 c.108.1.4 73664 1e19A 314 7.36e-01 1b7bA c.73.1.1 34967 1j97A 211 9.91e-01 1f5sA c.108.1.4 62753 1v5sA 126 1.41e+00 1s72Q 96 1.44e+00 1jj2P 95 2.10e+00 1ffkN b.34.5.1 63101 1euwA 152 2.27e+00 1dupA b.85.4.1 28349 1r7lA 110 2.55e+00 1pcfA 66 2.62e+00 1pcfA d.18.1.1 38142 1g3qA 237 3.29e+00 1hyqA c.37.1.10 60237 1lrzA 426 4.01e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1r64A 481 4.86e+00 b.18.1.20 -3151 c.41.1.1 -7297 1eo9B 241 5.01e+00 3pchM b.3.6.1 22826 1bdo 80 5.16e+00 1bdo b.84.1.1 28214 1m4tA 392 7.40e+00 c.95.1.1 78617 c.95.1.1 78618 1mgqA 83 7.75e+00 b.38.1.1 79099 2cpl 165 8.06e+00 2cpl b.62.1.1 27420 1qflA 389 8.12e+00 1afwA c.95.1.1 35908 c.95.1.1 35909 1umgA 362 8.15e+00 1czfA 362 8.28e+00 1czfA b.80.1.3 28031 1d7yA 408 8.42e+00 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 2msbA 115 8.76e+00 1rtm1 d.169.1.1 42355 1awqA 164 9.10e+00 2cpl b.62.1.1 27461 1awsA 164 9.18e+00 2cpl b.62.1.1 27431 1m3kA 392 9.79e+00 c.95.1.1 78565 c.95.1.1 78566 1onwA 390 1.00e+01 b.92.1.7 87172 c.1.9.13 87173 1deuA 277 1.06e+01 1theB d.3.1.1 37085 1pvdA 537 1.07e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1bzyA 217 1.07e+01 1qk3A c.61.1.1 34071 1rtm1 149 1.12e+01 1rtm1 1gmyA 261 1.16e+01 d.3.1.1 76236 1k6wA 426 1.20e+01 b.92.1.2 68236 c.1.9.5 68237 1dekA 241 1.23e+01 1dekA c.37.1.1 31842 1onxA 390 1.28e+01 b.92.1.7 87176 c.1.9.13 87177 1bag 425 1.41e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1q7zA 566 1.52e+01 c.1.21.2 -5638 c.1.26.1 -5666 1f60B 94 1.57e+01 1b64 d.58.12.1 39307 1iz0A 302 1.57e+01 b.35.1.2 83821 c.2.1.1 83822 1ktaA 365 1.61e+01 e.17.1.1 77533 1h9oA 112 1.63e+01 1qadA d.93.1.1 60837 1befA 181 1.65e+01 1befA b.47.1.3 26419 1h2rL 534 1.73e+01 1h2rL e.18.1.1 43298 1fehA 574 1.74e+01 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1lktA 104 1.80e+01 1lktA b.90.1.1 28398 1ca1 370 1.87e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1j1nA 492 2.15e+01 c.94.1.1 83978 1ekfA 365 2.19e+01 1ekfA e.17.1.1 59445 1pjqA 457 2.21e+01 c.2.1.11 -5904 c.90.1.1 -8611 e.37.1.1 -12004 1ubkL 534 2.22e+01 e.18.1.1 88422 1jm6A 407 2.31e+01 a.29.5.1 66876 d.122.1.4 66877 1dd9A 338 2.32e+01 1dd9A e.13.1.1 43254 1nnhA 294 2.32e+01 d.104.1.1 -10772 1ush 550 2.51e+01 1ush d.114.1.1 40923 d.159.1.2 42079 1kolA 398 2.58e+01 b.35.1.2 77474 c.2.1.1 77475 1nteA 82 2.61e+01 b.36.1.1 86163 1r6jA 82 2.61e+01 b.36.1.1 -3732 1umhA 184 2.62e+01 unknown_sccs -3127 1sqsA 242 2.70e+01 unknown_sccs -6433 1bqyA 234 2.72e+01 5ptp b.47.1.2 26332 1nm1G 125 2.82e+01 d.109.1.1 80653 1d4xG 126 2.83e+01 1d0nA d.109.1.1 59109 1g9oA 91 3.20e+01 1pdr b.36.1.1 60400 1theA 260 3.22e+01 1theB d.3.1.1 37056 1gdhA 320 3.22e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355 1k0wA 231 3.26e+01 c.74.1.1 77220 1dypA 271 3.33e+01 1dypA b.29.1.2 24185 1qd6C 240 3.35e+01 1qd5A 1rxxA 421 3.40e+01 unknown_sccs -10982 1trb 320 3.44e+01 1trb c.3.1.5 30529 c.3.1.5 30530 1sv6A 269 3.52e+01 1a9xA 1058 3.53e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 2cro 71 3.54e+01 1r69 a.35.1.2 17038 1p1lA 102 3.55e+01 d.58.5.2 87695 1crzA 403 3.57e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 1a05A 358 3.58e+01 1cnzA c.77.1.1 35059 1j6pA 418 3.66e+01 b.92.1.4 77089 c.1.9.9 77090 1l6oA 95 3.69e+01 b.36.1.1 84534 1s4nA 348 3.71e+01 unknown_sccs -8262 4uagA 437 3.71e+01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1v58A 241 3.75e+01 1erjA 393 3.75e+01 1erjA b.69.4.1 27660 1pu5A 164 3.79e+01 1cv8 174 3.79e+01 1cv8 d.3.1.1 37089 1ljoA 77 3.89e+01 b.38.1.1 73941 1o8bA 219 3.92e+01 unknown_sccs 81180 d.58.40.1 81181