# List of top-scoring protein chains for t2k-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 1caj 260 9.62e-01 2cba b.74.1.1 27841 2cba 260 9.64e-01 2cba b.74.1.1 27821 1fr7A 260 1.22e+00 2cba b.74.1.1 27828 1k3bB 164 1.91e+00 1szt 68 1.95e+00 1aikN h.3.2.1 45725 1a0cA 438 2.87e+00 1a0cA c.1.15.3 29529 2liv 344 2.92e+00 2liv c.93.1.1 35708 1tph1 247 4.01e+00 1amk 1atiA 505 4.57e+00 1atiA c.51.1.1 33196 d.104.1.1 40745 1atiB 505 4.64e+00 1atiA c.51.1.1 33197 d.104.1.1 40746 1dmhA 311 5.88e+00 1dmhA b.3.6.1 22633 1tdj 514 6.37e+00 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1qeyA 31 6.41e+00 1qeyA h.2.1.1 45666 1ffkI 194 7.37e+00 1ffkI d.12.1.2 37494 1bqv 110 8.39e+00 1bqv a.60.1.1 17932 2occH 85 8.55e+00 2occH a.51.1.1 17796 1qsmA 152 8.59e+00 1qsmA d.108.1.1 40808 1g7oA 215 9.25e+00 1g7oA a.45.1.1 60332 c.47.1.5 60333 2lbp 346 1.11e+01 2liv c.93.1.1 35709 1fexA 59 1.14e+01 a.4.1.3 59803 1exzA 141 1.25e+01 1exzA a.26.1.2 16877 1i27A 73 1.27e+01 1i27A a.4.5.30 61555 1b9mA 265 1.38e+01 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1eg3A 261 1.44e+01 1eg3A a.39.1.7 17376 a.39.1.7 17377 b.72.1.1 27805 1fdd 106 1.50e+01 1a6l d.58.1.2 38960 1scfA 273 1.57e+01 1exzA a.26.1.2 16873 1dixA 208 1.59e+01 1bk7A d.124.1.1 41122 1fd2 106 1.62e+01 1a6l d.58.1.2 38962 1adoA 363 1.73e+01 1fbaA c.1.10.1 29124 1h77A 605 1.77e+01 1lbu 213 1.81e+01 1lbu a.20.1.1 16416 d.65.1.1 39549 1mdyA 68 1.83e+01 1mdyA a.38.1.1 17132 1hbzA 498 1.84e+01 1cf9A e.5.1.1 60937 1a6l 106 1.89e+01 1a6l d.58.1.2 38966 1fbaA 361 1.90e+01 1fbaA c.1.10.1 29120 1pfkA 320 1.94e+01 3pfk c.89.1.1 35575 1mkp 144 2.05e+01 1vhrA c.45.1.1 32654 1ytfB 53 2.05e+01 1ytfB a.32.1.1 16997 1inp 400 2.12e+01 1inp e.7.1.1 42972 1e0cA 271 2.17e+01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1qcrD 75 2.19e+01 1qcrD a.3.1.3 15956 f.2.1.8 43674 7fd1A 106 2.19e+01 1a6l d.58.1.2 38953 1guxB 152 2.20e+01 1guxB a.74.1.3 18389 1fcyA 236 2.44e+01 2lbd a.123.1.1 19282 1df4A 68 2.56e+01 1aikN h.3.2.1 45719 1bg0 356 2.56e+01 1qh4A a.83.1.1 18476 d.128.1.2 41211 1d2kA 392 2.59e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1dk8A 147 2.60e+01 1agrE a.91.1.1 18548 1ak7 174 2.67e+01 1cof d.109.1.2 40864 1ezvD 245 2.68e+01 1be3D a.3.1.3 59546 f.2.1.8 59547 1f8gA 384 2.75e+01 1sayA c.2.1.4 59695 c.23.12.2 59696 4lbd 267 2.83e+01 2lbd a.123.1.1 19289 1im4A 221 2.85e+01 e.8.1.5 62581 1ly1A 181 2.96e+01 2lbd 267 3.03e+01 2lbd a.123.1.1 19287 1ivyA 452 3.11e+01 1ivyA c.69.1.5 34654 1a4uA 254 3.11e+01 1b16A c.2.1.2 29878 1whi 122 3.20e+01 1whi b.39.1.1 24810 1k34A 68 3.23e+01 h.3.2.1 68093 1b16A 254 3.25e+01 1b16A c.2.1.2 29875 1sfcC 83 3.40e+01 1sfcC h.1.15.1 45645 1gmlA 178 3.43e+01 2ezl 99 3.51e+01 2ezk a.4.1.2 16026 1fm0E 150 3.56e+01 1fmaE d.41.5.1 38629 1fmaE 150 3.56e+01 1fmaE d.41.5.1 38630 1mek 120 3.58e+01 1erv c.47.1.2 32775 1f3mA 80 3.58e+01 1f3mA j.66.1.1 46358 1cvjB 190 3.69e+01 1cvjB d.58.7.1 39193 d.58.7.1 39194 1cdwA 179 3.77e+01 1ytbA d.129.1.1 41212 d.129.1.1 41213 1qhkA 47 3.84e+01 1qhkA d.100.1.2 40694 2ezk 99 3.91e+01 2ezk a.4.1.2 16027