# List of top-scoring protein chains for t2k-100-30-near-backbone-11-scores 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 1vjkA 98 1.93e-03 d.15.3.1 108631 1rwsA 77 7.97e-03 d.15.3.2 97991 1frrA 95 1.46e-01 1awd d.15.4.1 37674 1put 106 1.52e-01 1ayfA d.15.4.1 37680 1oqqA 106 3.44e-01 d.15.4.1 93422 1jenA 267 3.98e-01 1jenA 1xlqA 106 6.00e-01 1jl0A 334 6.42e-01 1jenA d.156.1.1 63155 1fm0D 81 6.44e-01 1fmaD d.15.3.1 37642 1fmaD 81 6.52e-01 1fmaD d.15.3.1 37643 1b9rA 105 1.15e+00 1ayfA d.15.4.1 37683 1zud2 66 1.34e+00 1e9mA 106 1.84e+00 1ayfA d.15.4.1 59397 1uwmA 106 1.87e+00 1ryjA 70 1.93e+00 d.15.3.2 98104 2bb6A 414 2.05e+00 2bpsA 81 2.53e+00 1h9jA 145 3.22e+00 1h9jA b.40.6.2,b.40.6.2 60829,60830 1f1xA 322 3.37e+00 d.32.1.3,d.32.1.3 83208,83209 2fcr 173 3.47e+00 1rcf c.23.5.1 31151 1f1uA 323 3.53e+00 d.32.1.3,d.32.1.3 83200,83201 2bbvC 363 3.60e+00 2bbvA b.121.4.4 23325 1rfa 79 4.09e+00 1c1yB d.15.1.5 37620 1san 62 4.79e+00 2hddA a.4.1.1 16008 2fcfA 103 4.88e+00 1hom 68 4.95e+00 2hddA a.4.1.1 16007 1k07A 263 4.99e+00 d.157.1.1 77218 1r5lA 262 5.07e+00 a.5.3.1,c.13.1.1 97099,97100 1wgrA 100 5.44e+00 1doi 128 5.65e+00 1awd d.15.4.1 37676 1fdpA 235 6.00e+00 5ptp b.47.1.2 26322 1f0zA 66 8.16e+00 1f0zA d.15.3.2 37644 1ahdP 68 8.29e+00 2hddA a.4.1.1 16006 1zkcA 197 8.59e+00 1wwkA 307 8.75e+00 1awd 94 8.80e+00 1awd d.15.4.1 37673 2bwfA 77 9.35e+00 1ivzA 132 9.44e+00 d.58.41.1 76863 2f4pA 147 9.64e+00 1kwiA 101 9.84e+00 d.17.1.3 77564 2cu3A 64 9.92e+00 2bkdN 134 1.04e+01 2bbvA 363 1.07e+01 2bbvA b.121.4.4 23323 1h9mA 145 1.08e+01 1h9jA b.40.6.2,b.40.6.2 60833,60834 2g1lA 104 1.10e+01 1lxdA 100 1.12e+01 1lfdA d.15.1.5 37624 1zpuA 534 1.14e+01 1guaB 81 1.20e+01 1c1yB d.15.1.5 37619 2fexA 188 1.23e+01 1c1yB 77 1.32e+01 1c1yB d.15.1.5 37618 1b72A 97 1.37e+01 2hddA a.4.1.1 16000 1kf6B 243 1.41e+01 a.1.2.1,d.15.4.2 72397,72398 2h2bA 107 1.41e+01 1k94A 165 1.50e+01 a.39.1.8 68333 2aj2A 208 1.53e+01 1d4vB 163 1.55e+01 1d4vB b.22.1.1 23884 1e0zA 128 1.69e+01 1awd d.15.4.1 59153 1pedA 351 1.72e+01 1pedA b.35.1.2,c.2.1.1 24753,29769 1p99A 295 1.72e+01 c.94.1.1 94384 1d2qA 173 1.77e+01 1d4vB b.22.1.1 23894 1hoe 74 1.91e+01 1hoe b.5.1.1 22833 1itg 166 1.91e+01 1b9dA c.55.3.2 33661 1rfkA 98 1.92e+01 1vybA 238 2.07e+01 d.151.1.1 108897 487dH 224 2.08e+01 1ad2 i.1.1.2 45835 1ad2 228 2.09e+01 1ad2 e.24.1.1 43353 1hj9A 226 2.13e+01 b.47.1.2 65845 1b8iA 81 2.18e+01 2hddA a.4.1.1 16010 1euwA 152 2.18e+01 1dupA b.85.4.1 28349 1bl3A 160 2.21e+01 1b9dA c.55.3.2 33655 1o54A 277 2.24e+01 c.66.1.13 92482 1raxA 115 2.27e+01 1lfdA d.15.1.5 37626 1i7hA 111 2.27e+01 d.15.4.1 71122 1kevA 351 2.32e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1offA 97 2.34e+01 d.15.4.1 86947 1hf2A 210 2.40e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1l5pA 93 2.45e+01 d.15.4.1 73598 1pdr 99 2.58e+01 1pdr b.36.1.1 24771 1tpg 91 2.62e+01 1tpg g.3.11.1,g.27.1.1 44325,44955 1ihjA 98 2.82e+01 1pdr b.36.1.1 62382 1l7yA 94 2.98e+01 d.15.1.6 73676 1frd 98 2.98e+01 1awd d.15.4.1 37648 1i0rA 169 3.01e+01 1i0rA b.45.1.2 61489 1hph 37 3.06e+01 1hph j.15.1.1 46159 1jqbA 351 3.09e+01 b.35.1.2,c.2.1.1 77151,77152 1f4qA 165 3.09e+01 1alvA a.39.1.8 17360 1ok0A 74 3.16e+01 b.5.1.1 93191 2fytA 340 3.16e+01 3dapA 320 3.20e+01 1dapA c.2.1.3,d.81.1.3 30051,39966 2fgtA 417 3.21e+01 1i0sA 169 3.29e+01 1i0rA b.45.1.2 61491 1h0pA 182 3.37e+01 b.62.1.1 76450 1xt8A 292 3.37e+01 2dafA 118 3.39e+01 1yb0A 159 3.46e+01 1w78A 422 3.54e+01 1ykfA 352 3.59e+01 1pedA b.35.1.2,c.2.1.1 24757,29773 1jb3A 131 3.63e+01 1jc7A b.40.3.2 62833 1xe1A 116 3.65e+01 b.43.3.1 109571 1uasA 362 3.66e+01 b.71.1.1,c.1.8.1 88388,88389 2c5lC 117 3.76e+01 1ktbA 405 3.79e+01 b.71.1.1,c.1.8.1 72960,72961 2d2eA 250 3.82e+01 1dupA 152 3.88e+01 1dupA b.85.4.1 28351 1meqA 23 3.93e+01 j.53.1.1 79036 1dg6A 191 3.98e+01 1d4vB b.22.1.1 23883 1zupA 315 4.04e+01 1vl5A 260 4.07e+01 c.66.1.41 108720 1bio 228 4.08e+01 5ptp b.47.1.2 26314 1zwd 35 4.21e+01 j.15.1.1 46164 1pvc3 238 4.21e+01 1aym3 1r8eA 278 4.21e+01 a.6.1.3,d.60.1.1 104843,104844 1scuA 288 4.22e+01 2scuA c.2.1.8,c.23.4.1 30307,31135 2fmr 65 4.33e+01 2fmr d.51.1.1 38808 2rgf 97 4.35e+01 1lfdA d.15.1.5 37627 2scuA 288 4.45e+01 2scuA c.2.1.8,c.23.4.1 30303,31131 1l4uA 176 4.47e+01 c.37.1.2 73568 1jc7A 131 4.47e+01 1jc7A b.40.3.2 62873 2aj6A 159 4.50e+01 1jh2A 99 4.56e+01 1iyu 79 4.64e+01 1iyu b.84.1.1 28227 1fvyA 31 4.69e+01 1fvyA j.15.1.1 46157 1ekeA 230 4.80e+01 1ekeA c.55.3.1 33572 1dst 228 4.80e+01 1a7s b.47.1.2 26318 2rmcA 182 4.81e+01 2cpl b.62.1.1 27491 1k47A 337 5.06e+01 d.14.1.5,d.58.26.4 72040,72041 1dapA 320 5.07e+01 1dapA c.2.1.3,d.81.1.3 30053,39968 1wkaA 147 5.11e+01 1ihfB 94 5.14e+01 1huuA a.55.1.1 17894 1wjnA 97 5.24e+01 1l2tA 235 5.38e+01 c.37.1.12 73514 1ag9A 175 5.46e+01 1rcf c.23.5.1 31178 1zh2A 121 5.47e+01 1nbfD 76 5.66e+01 d.15.1.1 80390 1joa 447 5.92e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30563,30564,40203 1gatA 60 5.92e+01 1gatA g.39.1.1 45106 1qt9A 98 5.95e+01 1awd d.15.4.1 37647 1gpr 162 6.00e+01 1gpr b.84.3.1 28267 1im5A 180 6.00e+01 c.33.1.3 66211 1f06A 320 6.04e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1agjA 242 6.08e+01 1agjA b.47.1.1 25827 1aie 31 6.15e+01 1aie a.53.1.1 17829 1wmmA 145 6.15e+01 1hynP 379 6.16e+01 1hynP d.112.1.2 61408 1zwf 35 6.16e+01 j.15.1.1 46156 1rdr 461 6.17e+01 1rdr e.8.1.4 43116 1ogwA 76 6.22e+01 d.15.1.1 87001 1y51A 88 6.31e+01 1c8oA 300 6.49e+01 1c8oA e.1.1.1 42677 1cxyA 90 6.57e+01 1cyo d.120.1.1 41085 1d3zA 76 6.60e+01 1ubi d.15.1.1 37592 1befA 181 6.65e+01 1befA b.47.1.3 26419 1dbdA 100 6.76e+01 2bopA d.58.8.1 39218 1s0uA 408 6.86e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1mkiA 330 7.02e+01 e.3.1.2 84994 1yj1A 76 7.06e+01 1ftz 70 7.29e+01 2hddA a.4.1.1 16012 1qorA 327 7.42e+01 1qorA b.35.1.2,c.2.1.1 24766,29782 1al0G 175 7.46e+01 2bpa2 b.121.5.1 23275 3ait 74 7.50e+01 1hoe b.5.1.1 22835 1kmvA 186 7.62e+01 c.71.1.1 72757 1pvmA 184 7.69e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1ixmB 192 7.77e+01 1ixmA d.123.1.1 41115 1nhs 447 7.78e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1rypC 244 7.80e+01 1rypC d.153.1.4 41934 1gpjA 404 7.83e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1df9A 191 7.91e+01 1befA b.47.1.3 26420 1bwx 39 8.04e+01 1bwx j.15.1.1 46155 1ra6A 461 8.05e+01 e.8.1.4 104879 1i4vA 115 8.09e+01 1umuA b.87.1.1 61734 1zndA 174 8.16e+01 1oniA 137 8.19e+01 d.79.1.1 87144 1m7jA 484 8.19e+01 b.92.1.6,b.92.1.6,c.1.9.11 78732,78733,78734 2fb6A 117 8.25e+01 1ojqA 212 8.26e+01 d.166.1.1 93146 1kqfB 294 8.35e+01 d.58.1.5,f.23.22.1 75900,75901 1mn3A 54 8.42e+01 a.5.2.4 85024 1f9aA 168 8.63e+01 1f9aA c.26.1.3 31602 1feuA 206 8.66e+01 1feuA b.53.1.1 59801 1nhp 447 8.72e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1ubq 76 8.78e+01 1ubi d.15.1.1 37585 1hj8A 222 8.89e+01 b.47.1.2 65844 1ixmA 192 8.93e+01 1ixmA d.123.1.1 41114 1czpA 98 8.99e+01 1awd d.15.4.1 37645