# 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 1lid 131 1.14e-29 1hmt b.60.1.2 27184 1hmt 132 1.89e-29 1hmt b.60.1.2 27169 1hms 132 2.34e-29 1hmt b.60.1.2 27168 1bwyA 132 1.80e-28 1hmt b.60.1.2 27172 1crb 134 2.36e-27 1hmt b.60.1.2 27220 1opbA 135 2.68e-26 1hmt b.60.1.2 27216 1cbs 137 4.41e-26 1hmt b.60.1.2 27201 1opaA 135 7.55e-26 1hmt b.60.1.2 27214 1ifc 132 1.28e-24 b.60.1.2 27173 1ftpA 133 1.36e-24 1hmt b.60.1.2 27199 1lfo 128 9.10e-23 1hmt b.60.1.2 27223 1eal 127 4.12e-21 1hmt b.60.1.2 27227 1mdc 133 3.91e-19 1hmt b.60.1.2 27198 1f3uA 118 2.94e-01 1f3uA b.65.1.1 27521 1a9xB 379 3.17e-01 1c3oB c.8.3.1 30732 c.23.16.1 31409 1fyeA 229 5.48e-01 1fyeA c.23.16.4 31477 1copD 66 6.05e-01 1orc a.35.1.2 17058 1plq 258 7.21e-01 1plq d.131.1.2 41388 d.131.1.2 41389 1c3oB 382 1.44e+00 1c3oB c.8.3.1 30744 c.23.16.1 31421 1cs0B 382 1.45e+00 1c3oB c.8.3.1 30740 c.23.16.1 31417 1ijhA 504 1.83e+00 c.3.1.2 66161 d.16.1.1 66162 1iw2A 182 1.98e+00 1ieaA 192 2.03e+00 1iakA b.1.1.2 21631 d.19.1.1 38205 1b4vA 504 2.06e+00 1b8sA c.3.1.2 30334 d.16.1.1 37865 1b8sA 504 2.06e+00 1b8sA c.3.1.2 30335 d.16.1.1 37866 1plr 258 2.15e+00 1plq d.131.1.2 41390 d.131.1.2 41391 1rmg 422 2.33e+00 1rmg b.80.1.3 28029 1at0 145 2.36e+00 1at0 b.86.1.1 28374 1fvuB 125 2.40e+00 1ixxB d.169.1.1 42346 1ge8A 249 2.46e+00 1plq d.131.1.2 41398 d.131.1.2 41399 1e01A 48 3.54e+00 1e01A d.7.1.1 37326 1hd8A 363 3.58e+00 b.105.1.1 65803 e.3.1.1 65804 1eagA 342 3.68e+00 1eagA b.50.1.2 26826 1l1dA 152 3.69e+00 1g0dA 695 4.16e+00 1f13A b.1.1.5 60166 b.1.5.1 60167 b.1.5.1 60168 d.3.1.4 60169 1ddf 127 5.52e+00 1ddf a.77.1.1 18423 1ej0A 180 5.58e+00 1ej0A c.66.1.2 34179 1f7lA 121 6.58e+00 1f7lA d.150.1.2 59666 1aoa 275 7.39e+00 1aoa a.40.1.1 17396 a.40.1.1 17397 1am2 199 7.72e+00 1am2 b.86.1.2 28381 2cgpA 210 7.72e+00 2cgpA a.4.5.4 16102 b.82.3.2 28141 1ichA 112 7.83e+00 1qu0A 191 7.91e+00 1dykA b.29.1.4 24225 1ftrA 296 8.67e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1g5gB 481 8.70e+00 f.12.1.1 65157 h.3.2.1 65158 1hw5A 210 9.23e+00 2cgpA a.4.5.4 16098 b.82.3.2 28137 1ie5A 107 9.28e+00 b.1.1.4 62312 1hyxH 224 9.63e+00 1igtB b.1.1.1 20167 b.1.1.2 21191 1uxd 65 9.71e+00 1uxc a.35.1.5 17118 2arcB 164 1.02e+01 2arcA b.82.4.1 28149 1lf7A 182 1.02e+01 1aisB 200 1.06e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1jo8A 58 1.08e+01 1dyoA 160 1.09e+01 1dyoA b.18.1.7 23771 1a2vA 655 1.19e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1orc 71 1.28e+01 1orc a.35.1.2 17054 1efvB 255 1.29e+01 1efvB c.29.1.1 31634 1bco 327 1.31e+01 1bco b.48.1.1 26431 c.55.3.3 33676 1uxc 65 1.31e+01 1uxc a.35.1.5 17119 1noa 113 1.32e+01 2mcm b.1.7.1 22208 1cvsC 225 1.33e+01 1cvsC b.1.1.4 21726 b.1.1.4 21727 1dv0A 47 1.39e+01 1dv0A a.5.2.1 16289 1bag 425 1.43e+01 1bag b.71.1.1 27720 c.1.8.1 28707 2arcA 164 1.53e+01 2arcA b.82.4.1 28148 1bc8C 93 1.54e+01 1awcA a.4.5.21 16168 1ku8A 133 1.60e+01 1hnf 182 1.62e+01 1qa9A b.1.1.1 19741 b.1.1.3 21680 1kxqE 120 1.68e+01 1gmmA 133 1.69e+01 b.18.1.10 65314 1h6yA 170 1.69e+01 1kwaB 88 1.70e+01 1kwaA b.36.1.1 24773 1pta 318 1.73e+01 1pscA c.1.9.3 29064 1bndA 119 1.74e+01 1bndA g.17.1.3 44793 1tgoA 773 1.74e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1kshB 152 1.78e+01 1c1lA 136 1.84e+01 1c1lA b.29.1.3 24219 1jacA 133 1.90e+01 1jotA 1eywA 331 1.97e+01 1pscA c.1.9.3 29057 1i0dA 332 1.99e+01 1pscA c.1.9.3 61487 1j5pA 253 2.00e+01 1cruA 454 2.01e+01 1c9uA b.68.2.1 27617 1qfmA 710 2.03e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1hzyA 332 2.03e+01 1pscA c.1.9.3 61468 2eifA 136 2.03e+01 1bkb b.34.5.2 24607 b.40.4.5 25339 1jguH 217 2.06e+01 b.1.1.1 66688 b.1.1.2 66689 1lxtA 561 2.13e+01 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1jbgA 109 2.14e+01 a.6.1.3 66480 1fd9A 213 2.15e+01 1fd9A d.26.1.1 59771 1c8pA 102 2.17e+01 1c8pA b.1.2.1 22040 1akhA 61 2.18e+01 1akhA a.4.1.1 15980 1yrnA 61 2.21e+01 1akhA a.4.1.1 15981 1ttbA 127 2.23e+01 1etb1 b.3.4.1 22543 1dykA 394 2.24e+01 1dykA b.29.1.4 24223 b.29.1.4 24224 1c3gA 170 2.27e+01 1c3gA b.4.1.1 22831 b.4.1.1 22832 1augA 215 2.37e+01 1a2zA c.56.4.1 33798 3hmgA 328 2.42e+01 1hgeA b.19.1.2 23825 1yrnB 83 2.44e+01 1akhB a.4.1.1 15986 1hgeA 328 2.50e+01 1hgeA b.19.1.2 23816 1f43A 61 2.51e+01 1akhA a.4.1.1 15982 1eqnA 321 2.51e+01 1dd9A e.13.1.1 43256 1g6gA 127 2.55e+01 1g6gA b.26.1.2 23916 1g4mA 393 2.59e+01 b.1.1.5 65143 b.1.1.5 65144 1fqvA 336 2.60e+01 1fqvA a.122.1.1 19254 c.10.1.3 30856 1akhB 83 2.62e+01 1akhB a.4.1.1 15985 1xypA 190 2.65e+01 1axkA b.29.1.11 24327 1e44B 96 2.72e+01 1e44B b.101.1.1 59220 3ebx 62 2.82e+01 3ebx g.7.1.1 44389 1h80A 464 2.89e+01 b.80.1.8 65714 1ponB 36 2.98e+01 1ponB 1jchC 551 2.99e+01 b.101.1.1 66495 b.110.1.1 66496 h.4.9.1 66497 1pscA 365 3.02e+01 1pscA c.1.9.3 29058 1pvxA 194 3.02e+01 1axkA b.29.1.11 24341 1nscA 390 3.06e+01 2qwc b.68.1.1 27591 1dqeA 137 3.16e+01 1dqeA a.39.2.1 17388 1cbjA 151 3.17e+01 1mfmA b.1.8.1 22213 1ew3A 159 3.19e+01 1mup b.60.1.1 27114 1ksgB 152 3.20e+01 1d4vB 163 3.21e+01 1d4vB b.22.1.1 23884 1colA 204 3.21e+01 1a87 f.1.1.1 43378 1jkgB 250 3.23e+01 d.17.4.2 66796 1ggxA 223 3.26e+01 1ggxA d.22.1.1 38367 1jfkA 134 3.28e+01 a.39.1.5 66639 1nxb 62 3.34e+01 3ebx g.7.1.1 44395 1efcA 393 3.38e+01 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1pot 325 3.38e+01 1pot c.94.1.1 35807 1c9uA 454 3.39e+01 1c9uA b.68.2.1 27623 1kv9A 668 3.40e+01 1bqhG 129 3.48e+01 1cd8 b.1.1.1 19715 1gr0A 367 3.58e+01 1dymA 402 3.59e+01 1celA b.29.1.10 24304 1wba 175 3.59e+01 1wba b.42.4.1 25591 1yna 194 3.87e+01 1axkA b.29.1.11 24335 1dd9A 338 3.96e+01 1dd9A e.13.1.1 43254