# List of top-scoring protein chains for t2k-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 1gotB 340 7.62e-26 1tbgA b.69.4.1 27648 1tbgA 340 1.18e-25 1tbgA b.69.4.1 27649 1erjA 393 3.23e-25 1erjA b.69.4.1 27660 1nr0A 611 3.95e-22 b.69.4.1 86078 b.69.4.1 86079 1gxrA 337 5.62e-20 b.69.4.1 70722 1pguA 615 7.02e-17 b.69.4.1 88069 b.69.4.1 88070 1k8kC 372 8.60e-16 b.69.4.1 68308 1sq9A 397 1.54e-13 1u4cA 349 1.95e-13 1k32A 1045 5.66e-08 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1n6eA 1071 9.81e-08 b.36.1.3 80149 b.68.7.1 80150 b.69.9.1 80151 c.14.1.2 80152 1l0qA 391 1.37e-07 b.1.3.1 77644 b.69.2.3 77645 1jofA 365 6.33e-07 b.69.10.1 71775 1crzA 403 1.99e-05 1crzA b.68.4.1 27629 c.51.2.1 33211 1kb0A 677 2.12e-05 a.3.1.6 68378 b.70.1.1 68379 1aomA 567 2.20e-05 1qksA b.70.2.1 27694 1c5kA 439 2.69e-05 1crzA b.68.4.1 27630 c.51.2.1 33212 1jjuB 337 2.82e-05 b.69.2.2 66779 1qksA 567 3.01e-05 1qksA a.3.1.2 15951 b.70.2.1 27710 1pbyB 337 3.19e-05 1aoqA 567 3.33e-05 1qksA a.3.1.2 15934 b.70.2.1 27692 1e1aA 314 6.04e-05 1e1aA b.68.6.1 59155 1pjxA 314 7.60e-05 1jmxB 349 8.24e-05 b.69.2.2 66906 1kv9A 668 9.00e-05 a.3.1.6 73056 b.70.1.1 73057 1q7fA 286 9.48e-05 1utcA 363 1.58e-04 1bpoA 494 1.80e-04 1bpoA a.118.1.4 19143 b.69.6.1 27670 1npeA 267 1.83e-04 4aahA 571 2.09e-04 4aahA b.70.1.1 27678 1g72A 573 3.04e-04 4aahA b.70.1.1 27680 1ri6A 343 3.24e-04 1suuA 312 3.52e-04 1lrwA 600 5.45e-04 1qbiA 454 1.21e-03 1c9uA b.68.2.1 27619 1ijqA 316 1.27e-03 1ijqA b.68.5.1 62506 g.3.11.1 62507 1c9uA 454 1.47e-03 1c9uA b.68.2.1 27623 1cruA 454 1.87e-03 1c9uA b.68.2.1 27617 1wp5A 323 2.30e-03 1v04A 355 3.36e-03 1rwiA 270 2.02e-02 2bbkH 355 2.19e-02 2bbkH b.69.2.1 27634 1orvA 728 3.17e-02 b.70.3.1 87354 c.69.1.24 87355 1n1mA 728 3.50e-02 b.70.3.1 79815 c.69.1.24 79816 1goh 639 1.68e-01 1gof b.1.18.2 21809 b.18.1.1 23711 b.69.1.1 27633 1tl2A 236 1.95e-01 1tl2A b.67.1.1 27541 1k3iA 656 2.04e-01 b.1.18.2 68113 b.18.1.1 68114 b.69.1.1 68115 1xfdA 723 2.08e-01 1gof 639 2.29e-01 1gof b.1.18.2 21807 b.18.1.1 23709 b.69.1.1 27631 1sqjA 789 2.52e-01 1a12A 413 2.69e-01 1a12A b.69.5.1 27663 1s1dA 331 5.46e-01 1wba 175 7.33e-01 1wba b.42.4.1 25591 1u6dX 308 8.02e-01 2mllB 255 1.41e+00 1abrB b.42.2.1 25567 b.42.2.1 25568 1m2tB 263 1.72e+00 b.42.2.1 84762 b.42.2.1 84763 1jlyA 304 1.97e+00 1jlyA b.42.3.1 25587 b.42.3.1 25588 1at0 145 2.30e+00 1at0 b.86.1.1 28374 1n67A 359 2.40e+00 b.2.3.4 85354 b.2.3.4 85355 1snzA 344 2.44e+00 1r17A 343 2.47e+00 1hwwA 1015 2.88e+00 a.8.3.1 83067 b.30.5.6 83068 c.6.2.1 83069 1hxkA 1015 2.88e+00 a.8.3.1 83070 b.30.5.6 83071 c.6.2.1 83072 1htyA 1015 2.88e+00 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 1xsjA 778 3.24e+00 3sil 379 4.06e+00 3sil b.68.1.1 27542 1shyB 551 4.08e+00 1w8oA 601 4.10e+00 4sli 679 4.12e+00 2sli b.29.1.9 24275 b.68.1.1 27612 1gskA 513 4.28e+00 b.6.1.3 83314 b.6.1.3 83315 b.6.1.3 83316 2sli 679 4.30e+00 2sli b.29.1.9 24274 b.68.1.1 27611 1h30A 422 4.34e+00 b.29.1.4 76604 b.29.1.4 76605 1euu 605 4.35e+00 1eut b.1.18.2 21892 b.18.1.1 23713 b.68.1.1 27610 1dim 381 4.52e+00 3sil b.68.1.1 27544 1od5A 492 4.92e+00 b.82.1.2 86832 b.82.1.2 86833 1p57A 114 5.04e+00 1ojqA 212 5.73e+00 1yaiA 151 5.79e+00 1yaiA b.1.8.1 22289 1ukfA 188 6.03e+00 2sil 381 6.18e+00 3sil b.68.1.1 27543 1ofzA 312 6.38e+00 b.68.8.1 86978 1ckmA 330 6.52e+00 1ckmA b.40.4.6 25358 d.142.2.3 41585 1abrB 267 6.59e+00 1abrB b.42.2.1 25563 b.42.2.1 25564 1jlxA 304 6.73e+00 1jlyA b.42.3.1 25583 b.42.3.1 25584 1gqzA 274 6.92e+00 d.21.1.1 83311 d.21.1.1 83312 2pooA 355 7.22e+00 1qlgA b.68.3.1 27626 2madH 373 7.49e+00 2bbkH b.69.2.1 27639 1oalA 151 8.03e+00 b.1.8.1 86739 1qfgA 725 8.23e+00 1by5A f.4.3.3 43803 1m9sA 605 8.28e+00 b.1.18.15 78874 b.34.11.1 78875 b.34.11.1 78876 b.34.11.1 78877 c.10.2.1 78878 1eut 605 8.41e+00 1eut b.1.18.2 21891 b.18.1.1 23712 b.68.1.1 27609 2aaiB 262 8.75e+00 1abrB b.42.2.1 25561 b.42.2.1 25562 1b6e 128 8.92e+00 1b6e d.169.1.1 42326 1eerB 227 9.80e+00 1eerB b.1.2.1 22011 b.1.2.1 22012 1cvmA 353 9.87e+00 1qlgA b.68.3.1 27628 1cknA 330 9.91e+00 1ckmA b.40.4.6 25360 d.142.2.3 41587 1fnuA 221 1.07e+01 3seb b.40.2.2 25212 d.15.6.1 37801 1dq3A 454 1.10e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1pvl 301 1.11e+01 1pvl f.6.1.1 43819 1mkfA 382 1.13e+01 b.116.1.1 79232 1fnhA 271 1.20e+01 1fnhA b.1.2.1 21976 b.1.2.1 21977 b.1.2.1 21978 1n3oA 252 1.36e+01 b.29.1.1 79967 1v3eA 431 1.38e+01 2ltnA 181 1.39e+01 1led b.29.1.1 24024 1q47A 495 1.54e+01 1hmr 132 1.56e+01 1hmt b.60.1.2 27170 1qlgA 355 1.57e+01 1qlgA b.68.3.1 27627 1rypH 205 1.59e+01 d.153.1.4 41876 1l9xA 315 1.60e+01 c.23.16.1 73762 1hms 132 1.61e+01 1hmt b.60.1.2 27168 1bp1 456 1.62e+01 1bp1 d.83.1.1 40026 d.83.1.1 40027 1qwnA 1045 1.63e+01 2fcpA 723 1.64e+01 1by5A f.4.3.3 43802 1hmt 132 1.73e+01 1hmt b.60.1.2 27169 1o9wA 177 1.75e+01 b.2.3.5 86713 1bu8A 452 1.75e+01 1gpl b.12.1.2 23647 c.69.1.19 34795 1olrA 224 1.76e+01 1pz7A 204 1.76e+01 1lenA 181 1.84e+01 1led b.29.1.1 24032 1sriA 121 1.98e+01 1swuA b.61.1.1 27276 1dlc 584 2.22e+01 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 1h0bA 256 2.25e+01 b.29.1.11 83422 1ckiA 317 2.25e+01 1csn d.144.1.7 41660 1d2sA 170 2.25e+01 1d2sA b.29.1.4 24221 1ko3A 230 2.26e+01 1by5A 714 2.26e+01 1by5A f.4.3.3 43800 1q1uA 144 2.35e+01 1o75A 415 2.36e+01 b.1.20.1 81117 b.1.20.1 81118 b.120.1.1 81119 1ewfA 456 2.38e+01 1bp1 d.83.1.1 40024 d.83.1.1 40025 1ukgA 252 2.49e+01 1ax0 239 2.50e+01 1led b.29.1.1 24042 1se8A 301 2.52e+01 1g84A 105 2.54e+01 1g84A b.1.1.2 60345 2izhB 123 2.59e+01 1swuA b.61.1.1 27234 1qxmA 300 2.59e+01 1gzcA 239 2.64e+01 b.29.1.1 70803 1cqyA 99 2.68e+01 1b9zA b.3.1.1 22527 1ntvA 152 2.77e+01 b.55.1.2 86168 1qsvA 101 2.79e+01 1fltX b.1.1.4 21771 2fgf 146 2.80e+01 1bfg b.42.1.1 25487 1mzeA 351 2.88e+01 b.82.2.6 79694 1hx0A 496 2.89e+01 b.71.1.1 61346 c.1.8.1 61347 1h6lA 353 2.89e+01 b.68.3.1 60687 1ospO 257 2.90e+01 1ospO b.76.1.1 27971 1jtdB 273 2.91e+01 b.69.5.2 67265 1o54A 277 2.93e+01 1pjjA 271 2.93e+01 1gx3A 284 2.93e+01 d.3.1.5 70678 1ebpA 211 2.93e+01 1eerB b.1.2.1 22023 b.1.2.1 22024 1d7pM 159 2.95e+01 1cztA b.18.1.2 23718 1cjwA 166 2.99e+01 1cjwA d.108.1.1 40818 1czfA 362 3.05e+01 1czfA b.80.1.3 28031 1h4rA 314 3.09e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1bla 155 3.10e+01 1bfg b.42.1.1 25502 1ga1A 372 3.14e+01 1ga1A c.41.1.2 32557 1gu3A 149 3.14e+01 b.18.1.14 76350 1ga6A 372 3.15e+01 1ga1A c.41.1.2 32556 1ijtA 128 3.24e+01 1bfg b.42.1.1 62510 1h2xA 710 3.25e+01 b.69.7.1 76598 c.69.1.4 76599 1ju3A 583 3.41e+01 b.18.1.13 67300 c.69.1.21 67301 1eur 365 3.42e+01 1eut b.68.1.1 27607 1tdzA 272 3.63e+01 1qdlB 195 3.64e+01 1qdlB c.23.16.1 31437 1phm 310 3.64e+01 1phm b.121.1.2 59015 b.121.1.2 59016 1h2kA 349 3.67e+01 b.82.2.6 76572 1bglA 1023 3.68e+01 1bglA b.1.4.1 22097 b.1.4.1 22098 b.18.1.5 23734 b.30.5.1 24358 c.1.8.3 28857 1luqA 127 3.70e+01 1dfcA 493 3.78e+01 1dfcA b.42.5.1 25616 b.42.5.1 25617 b.42.5.1 25618 b.42.5.1 25619 1nnjA 271 3.79e+01 a.156.1.2 80669 b.113.1.1 80670 g.39.1.8 80671 1nx8A 273 3.79e+01 b.82.2.8 86374 1bkf 107 3.83e+01 1fkj d.26.1.1 38382 1ebaA 215 3.91e+01 1eerB b.1.2.1 22015 b.1.2.1 22016 1hxs3 237 3.94e+01 1gzwA 134 3.94e+01 1nqeA 594 3.96e+01 f.4.3.3 86027 1vh5A 148 3.97e+01