# List of top-scoring protein chains for t04-100-30-near-backbone-11 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 1prxA 224 8.01e-03 1prxA c.47.1.10 33076 1vhcA 224 2.67e-01 c.1.10.1 -5488 1kjwA 295 4.56e-01 b.34.2.1 68643 c.37.1.1 68644 1d0dA 60 9.62e-01 1kigI g.8.1.2 44566 1l6oA 95 1.31e+00 b.36.1.1 84534 1b43A 340 1.64e+00 1a76 a.60.7.1 18092 c.120.1.2 33362 1h4vB 421 1.65e+00 1adjA c.51.1.1 60624 d.104.1.1 60625 1gk8I 140 1.95e+00 d.73.1.1 65242 2pth 193 3.01e+00 2pth c.56.3.1 33793 1adjA 421 3.29e+00 1adjA c.51.1.1 33188 d.104.1.1 40737 1bd8 156 3.44e+00 1bd8 d.211.1.1 19157 1ctf 74 4.00e+00 1ctf d.45.1.1 38759 1hc9A 74 4.05e+00 g.7.1.1 65786 1hnnA 282 4.13e+00 c.66.1.15 65895 1f3aA 222 4.27e+00 1pgtA a.45.1.1 17701 c.47.1.5 32995 1v3wA 173 4.64e+00 b.81.1.5 -4815 1qpcA 279 4.69e+00 1fgkA d.144.1.7 41685 2lhb 149 4.72e+00 2fal a.1.1.2 15597 1t3lA 337 4.79e+00 1dleA 298 5.14e+00 1dleA b.47.1.2 26312 1h6kZ 98 5.19e+00 d.58.7.1 60686 1ay7B 89 5.78e+00 1ay7B c.9.1.1 30836 1f08A 148 5.81e+00 1f08A d.89.1.2 59564 1p5jA 372 6.09e+00 1cipA 353 6.16e+00 1cipA a.66.1.1 18210 c.37.1.8 32093 1svsA 353 6.40e+00 1hq3D 103 8.78e+00 1aoiB a.22.1.1 16464 1ek8A 185 9.10e+00 1ek8A d.67.3.1 59444 1ex2A 189 1.02e+01 1ex2A c.51.4.2 33225 1ibrB 462 1.04e+01 1qgrA a.118.1.1 19120 1fxrA 64 1.05e+01 1fxd d.58.1.4 38993 2dpmA 284 1.22e+01 2dpmA c.66.1.28 34246 1budA 197 1.23e+01 1atlA d.92.1.9 40328 1f0kA 364 1.30e+01 1f0kA c.87.1.2 35465 1kx5B 102 1.37e+01 a.22.1.1 77594 1krhA 338 1.38e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1iomA 377 1.42e+01 a.103.1.1 83698 1is1A 185 1.50e+01 d.67.3.1 83704 1qwkA 317 1.52e+01 c.1.7.1 -5237 1n1jA 93 1.54e+01 a.22.1.3 79813 1ej8A 140 1.56e+01 1qupA b.1.8.1 22300 1uctA 218 1.63e+01 b.1.1.4 88467 b.1.1.4 88468 1a6f 119 1.63e+01 1a6f d.14.1.2 37564 6ldh 330 1.64e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1dqcA 74 1.76e+01 1dqcA g.31.1.1 44964 1gw5S 142 1.85e+01 d.110.4.2 70633 1m6sA 347 1.91e+01 c.67.1.1 78701 1ntn 72 2.01e+01 3ebx g.7.1.1 44414 1ex7A 186 2.03e+01 1gky c.37.1.1 59537 1cb0A 283 2.09e+01 1cb0A c.56.2.1 33790 1jg8A 347 2.19e+01 1jg8A c.67.1.1 62946 1jj2O 148 2.22e+01 1ffkM a.94.1.1 63100 1gky 187 2.31e+01 1gky c.37.1.1 31839 1brwA 433 2.41e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1uw4A 91 2.42e+01 unknown_sccs -10038 1ln4A 104 2.50e+01 d.68.4.1 74043 1cxzB 86 2.60e+01 1cxzB a.2.6.1 15705 1nfp 228 2.62e+01 1nfp c.1.16.2 29555 1fxoA 293 2.68e+01 1g0rA c.68.1.6 34524 1izmA 184 2.69e+01 unknown_sccs -1233 2ts1 419 2.71e+01 2ts1 c.26.1.1 31564 1dk8A 147 2.71e+01 1agrE a.91.1.1 18548 1php 394 2.75e+01 16pk c.86.1.1 35452 1m7vA 363 2.88e+01 d.174.1.1 78748 1s72B 338 2.90e+01 1o3yA 166 2.91e+01 c.37.1.8 86618 1jj2B 337 2.91e+01 1ffkB b.43.3.2 63086 1uf6A 178 2.97e+01 unknown_sccs -4533 1rtwA 220 3.01e+01 unknown_sccs -1904 1obfO 335 3.03e+01 c.2.1.3 86768 d.81.1.1 86769 1pufA 77 3.07e+01 a.4.1.1 -191 1shsA 147 3.12e+01 1shsA b.15.1.1 23675 1ocyA 198 3.33e+01 d.231.1.1 86817 1ov3A 138 3.33e+01 b.34.2.1 87451 b.34.2.1 87452 1r8sA 164 3.33e+01 c.37.1.8 -7082 1dbqA 289 3.34e+01 1qpzA c.93.1.1 35666 1pu6A 218 3.37e+01 unknown_sccs -1282 1s72P 149 3.41e+01 1n81A 186 3.47e+01 a.185.1.1 85388 1tvxA 75 3.56e+01 1tvxA d.9.1.1 37441 1k8kE 178 3.58e+01 a.148.1.1 68311 1i4jA 110 3.64e+01 d.55.1.1 76734 1e6yC 247 3.76e+01 1mroC d.58.31.1 39441 1jvr 137 3.81e+01 1jvr a.61.1.2 18132 1fjgM 126 3.86e+01 1fjfM a.156.1.1 16293