# 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 1k3eA 156 8.28e-01 d.198.1.1 68103 1pbwA 216 8.99e-01 1pbwA a.116.1.1 19103 1gw5B 591 1.21e+00 1itbB 315 4.23e+00 1itbB b.1.1.4 21720 b.1.1.4 21721 b.1.1.4 21722 1l5aA 436 4.96e+00 1l0oC 243 4.97e+00 1d3vA 323 7.01e+00 1d3vA c.42.1.1 32559 1f9vA 347 7.19e+00 1bg2 c.37.1.9 59745 1fpkA 335 7.27e+00 1frpA e.7.1.1 42930 1rlaA 323 7.56e+00 1d3vA c.42.1.1 32561 1ihp 438 8.45e+00 1ihp c.60.1.3 33993 1j99A 293 8.52e+00 1ecfA 504 9.45e+00 1ecfB c.61.1.1 34053 d.153.1.1 41820 1j5sA 463 1.02e+01 1b8xA 280 1.21e+01 1b8xA a.45.1.1 17739 c.47.1.5 33033 5fbpA 335 1.28e+01 1frpA e.7.1.1 42873 1rypJ 204 1.31e+01 d.153.1.4 41878 1k3lA 221 1.38e+01 1gseA 221 1.39e+01 1pgtA a.45.1.1 17667 c.47.1.5 32961 1c3oA 1073 1.62e+01 1c3oA a.92.1.1 18562 c.24.1.1 31491 c.30.1.1 31681 c.30.1.1 31682 d.142.1.2 41526 d.142.1.2 41527 1g6aA 271 1.71e+01 1btl e.3.1.1 42704 1cqxA 403 1.72e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 3erk 364 1.74e+01 1hcl d.144.1.1 41654 1lnh 857 1.76e+01 1yge a.119.1.1 19237 b.12.1.1 23637 1pcp 106 1.87e+01 2pspA g.16.1.1 44742 g.16.1.1 44743 1qqfA 277 1.93e+01 1c3d a.102.4.4 18875 1muhA 481 1.96e+01 1g0uI 205 2.00e+01 d.153.1.4 41891 1b37B 472 2.03e+01 1b37B c.3.1.2 30390 d.16.1.5 37954 1ei9A 279 2.05e+01 1ei9A c.69.1.13 34713 1fgkA 310 2.07e+01 1fgkA d.144.1.2 41693 1b37A 472 2.08e+01 1b37B c.3.1.2 30389 d.16.1.5 37953 1c3oG 1073 2.15e+01 a.92.1.1 18565 c.24.1.1 31494 c.30.1.1 31687 c.30.1.1 31688 d.142.1.2 41532 d.142.1.2 41533 153l 185 2.16e+01 153l d.2.1.5 36984 2nef 136 2.22e+01 1efnB d.102.1.1 40704 1ois 223 2.27e+01 1a36A e.15.1.1 43267 1fsz 372 2.29e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1hw1A 239 2.29e+01 1e2xA a.4.5.6 16111 a.78.1.1 18441 1dat 174 2.33e+01 2fha a.25.1.1 16677 1kwhA 492 2.48e+01 c.94.1.1 68876 1b5qA 472 2.54e+01 1b37B c.3.1.2 30404 d.16.1.5 37968 1jytA 163 2.62e+01 b.94.1.1 67489 1aew 174 2.63e+01 2fha a.25.1.1 16676 1b9hA 388 2.64e+01 1b9hA c.67.1.4 34488 7aatA 401 2.67e+01 1ajsA c.67.1.1 34250 1i8tA 367 2.68e+01 c.4.1.3 66094 d.16.1.7 66095 1aym1 285 2.77e+01 1aym1 1g1sA 162 2.94e+01 d.169.1.1 65100 g.3.11.1 65101 1keeG 1073 3.20e+01 a.92.1.1 68516 c.24.1.1 68517 c.30.1.1 68518 c.30.1.1 68519 d.142.1.2 68520 d.142.1.2 68521 1kz8A 337 3.22e+01 1e2xA 243 3.28e+01 1e2xA a.4.5.6 16113 a.78.1.1 18443 1jiwP 470 3.28e+01 1sat b.79.1.1 63079 d.92.1.6 63080 1nar 290 3.29e+01 1nar c.1.8.5 28988 1tag 324 3.38e+01 1cipA a.66.1.1 18197 c.37.1.8 32080 1cs0C 1073 3.48e+01 a.92.1.1 18559 c.24.1.1 31488 c.30.1.1 31675 c.30.1.1 31676 d.142.1.2 41520 d.142.1.2 41521 1frpA 335 3.53e+01 1frpA e.7.1.1 42875 1h96A 182 3.53e+01 2fha a.25.1.1 60811 1pme 380 3.54e+01 1hcl d.144.1.1 41653 1c3oC 1073 3.61e+01 a.92.1.1 18563 c.24.1.1 31492 c.30.1.1 31683 c.30.1.1 31684 d.142.1.2 41528 d.142.1.2 41529 1pa2A 306 3.64e+01 1bgp a.93.1.1 18693 1knzA 164 3.71e+01 e.34.1.1 68709 1gbs 185 3.83e+01 153l d.2.1.5 36986 1rom 403 3.84e+01 1rom a.104.1.1 18963 1kapP 479 3.84e+01 1sat b.79.1.1 28012 d.92.1.6 40298 1fha 183 3.88e+01 2fha a.25.1.1 16675 2fha 183 3.88e+01 2fha a.25.1.1 16674 1aocA 175 3.91e+01 1aocA g.17.1.5 44817 1ecfB 504 3.97e+01 1ecfB c.61.1.1 34054 d.153.1.1 41821