# List of top-scoring protein chains for t2k-w0.5 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 1lfpA 249 8.57e-40 1konA 249 1.57e-39 1tf4A 605 4.00e-01 1tf4A a.102.1.2 18827 b.2.2.2 22393 1qh4A 380 4.70e-01 1qh4A a.83.1.1 18462 d.128.1.2 41197 1e4eA 343 9.81e-01 1iow c.30.1.2 59221 d.142.1.1 59222 1e4eB 343 9.94e-01 c.30.1.2 59223 d.142.1.1 59224 1c8bA 371 1.29e+00 1c8bA c.56.1.2 59082 1im8A 244 1.93e+00 c.66.1.14 66212 1cglA 169 2.66e+00 1hfc d.92.1.11 40341 1h4gA 207 2.76e+00 1qh7A 207 2.76e+00 1axkA b.29.1.11 24317 1cge 168 3.23e+00 1hfc d.92.1.11 40336 1h4hA 209 3.27e+00 1cgfA 162 3.33e+00 1hfc d.92.1.11 40339 1kkxA 123 4.60e+00 1bs4A 168 5.45e+00 1bs4A d.167.1.1 42287 1icjA 168 5.45e+00 1bs4A d.167.1.1 42284 1bsjA 168 5.45e+00 1bs4A d.167.1.1 42302 1g2aA 168 5.45e+00 d.167.1.1 65109 1dff 164 5.70e+00 1bs4A d.167.1.1 42304 1giyD 178 5.72e+00 i.1.1.1 60551 2lhb 149 6.14e+00 2fal a.1.1.2 15597 1axr 842 6.36e+00 1a8i c.87.1.4 35504 1lwnA 842 6.36e+00 1noj 842 6.39e+00 1a8i c.87.1.4 35479 8gpb 832 6.51e+00 1a8i c.87.1.4 35489 1abbA 828 6.51e+00 1a8i c.87.1.4 35536 1c8kA 842 6.51e+00 1a8i c.87.1.4 35491 1gpb 842 6.51e+00 1a8i c.87.1.4 35478 1h5uA 842 6.51e+00 1a8i c.87.1.4 60655 1iciA 256 6.51e+00 1iciA c.31.1.5 62266 1c50A 830 6.51e+00 1a8i c.87.1.4 35512 1dro 122 6.52e+00 1btn b.55.1.1 26954 1a8i 842 6.56e+00 1a8i c.87.1.4 35490 1jqfA 334 7.38e+00 c.94.1.2 67086 1a8e 329 7.52e+00 1cb6A c.94.1.2 35888 1fqfA 331 7.57e+00 1nnt c.94.1.2 59989 1bp5C 337 7.63e+00 1cb6A c.94.1.2 35894 1smeA 329 7.72e+00 1smrA b.50.1.2 26885 1pfzA 380 7.79e+00 1smrA b.50.1.2 26881 1ew4A 106 7.87e+00 1ew4A d.82.2.1 40023 1hfc 169 7.89e+00 1hfc d.92.1.11 40335 1dfx 125 7.95e+00 1dfx b.1.13.1 22367 g.41.5.2 45255 1d3kA 329 8.26e+00 1nnt c.94.1.2 35889 2def 147 8.57e+00 1bs4A d.167.1.1 42305 1def 147 8.58e+00 1bs4A d.167.1.1 42306 1memA 215 8.64e+00 1cs8A d.3.1.1 37069 1g0wA 380 8.65e+00 1qh4A a.83.1.1 18475 d.128.1.2 41210 1d4nA 329 8.83e+00 1nnt c.94.1.2 35891 1fpn2 261 9.09e+00 1aym2 1m43A 331 9.10e+00 1klnA 605 9.15e+00 1xwl c.55.3.5 33693 e.8.1.1 42986 966c 157 9.29e+00 1hfc d.92.1.11 40338 1e79H 146 1.03e+01 1e79H a.2.10.1 15721 b.93.1.1 28438 1h8eH 146 1.03e+01 1e79H b.93.1.1 60757 1dtgA 334 1.05e+01 1nnt c.94.1.2 35896 1jdiA 231 1.14e+01 c.74.1.1 66551 1f5pA 149 1.19e+01 2fal a.1.1.2 15616 1cznA 169 1.22e+01 1rcf c.23.5.1 31181 1ofv 169 1.22e+01 1rcf c.23.5.1 31184 6pfkA 319 1.23e+01 3pfk c.89.1.1 35583 1b3eA 330 1.25e+01 1nnt c.94.1.2 35897 1kfd 605 1.28e+01 1xwl c.55.3.5 33694 e.8.1.1 42987 2kfnA 605 1.28e+01 1xwl c.55.3.5 33682 e.8.1.1 42975 1by8A 314 1.29e+01 1cs8A d.3.1.1 37083 1rl2A 137 1.36e+01 1rl2A b.34.5.3 24610 b.40.4.5 25342 1d8yA 605 1.38e+01 1xwl c.55.3.5 33684 e.8.1.1 42977 4pfk 319 1.46e+01 3pfk c.89.1.1 35582 3pfk 319 1.46e+01 3pfk c.89.1.1 35581 1udh 244 1.53e+01 3eugA c.18.1.1 31015 1udg 244 1.53e+01 3eugA c.18.1.1 31016 43caB 117 1.56e+01 1f3rB b.1.1.1 20395 2crkA 381 1.56e+01 1qh4A a.83.1.1 18474 d.128.1.2 41209 43c9B 118 1.57e+01 1f3rB b.1.1.1 20387 1czkA 169 1.57e+01 1rcf c.23.5.1 31186 1qtwA 285 1.58e+01 1qumA c.1.15.1 29392 1qumA 285 1.58e+01 1qumA c.1.15.1 29393 1igoA 205 1.58e+01 1wdnA 226 1.62e+01 1lst c.94.1.1 35816 1gggB 226 1.62e+01 1lst c.94.1.1 35818 1jnfA 676 1.63e+01 1cb6A c.94.1.2 63196 c.94.1.2 63197 1fqeA 331 1.71e+01 1nnt c.94.1.2 59988 1l7mA 211 1.76e+01 1l7oA 211 1.77e+01 1czrA 169 1.81e+01 1rcf c.23.5.1 31187 1umsA 174 1.85e+01 1hfc d.92.1.11 40368 1hy7A 173 1.86e+01 d.92.1.11 65957 1bed 181 1.87e+01 1fvkA a.44.1.1 17514 c.47.1.4 32808 1c8tA 167 1.88e+01 1hfc d.92.1.11 40390 1bj7 156 1.89e+01 1bj7 b.60.1.1 27113 1li1A 229 1.95e+01 1cizA 168 1.95e+01 1hfc d.92.1.11 40371 1b8yA 167 1.97e+01 1hfc d.92.1.11 40377 2sli 679 1.99e+01 2sli b.29.1.9 24274 b.68.1.1 27611 4sli 679 1.99e+01 2sli b.29.1.9 24275 b.68.1.1 27612 1hfs 160 2.00e+01 1hfc d.92.1.11 40370 1usn 165 2.03e+01 1hfc d.92.1.11 40372 1bvoA 175 2.04e+01 1a3qA b.2.5.1 22457 1r24B 217 2.11e+01 1igtB b.1.1.1 20405 b.1.1.2 21377 2mssA 75 2.17e+01 1ha1 d.58.7.1 39190 1f3z 161 2.18e+01 1gpr b.84.3.1 28273 1iyu 79 2.26e+01 1iyu b.84.1.1 28227 1i6lA 328 2.27e+01 c.26.1.1 66041 1hvc 203 2.29e+01 1hvc b.50.1.1 26614 487dI 135 2.46e+01 1rl2A i.1.1.2 45836 1rmg 422 2.48e+01 1rmg b.80.1.3 28029 1glaF 168 2.68e+01 1gpr b.84.3.1 28274 1mngA 203 2.72e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1rvv1 154 2.74e+01 1rvv1 1rvvA 154 2.74e+01 1rvv1 c.16.1.1 30927 1bv1 159 2.79e+01 1bv1 d.129.3.1 41313 1pmaA 233 2.84e+01 1pmaA d.153.1.4 41918 1a2s 89 2.87e+01 1ctj a.3.1.1 15800 1ctj 89 2.87e+01 1ctj a.3.1.1 15798 1ddf 127 2.89e+01 1ddf a.77.1.1 18423 1f5sA 211 2.90e+01 1f5sA c.108.1.4 59656 1j97A 211 2.90e+01 1f5sA c.108.1.4 62753 1b4aA 149 2.97e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1bwzA 274 2.98e+01 1bwzA d.21.1.1 38337 d.21.1.1 38338 1i6mA 328 3.02e+01 c.26.1.1 66042 1agx 331 3.08e+01 4pgaA c.88.1.1 35564 1ueaA 173 3.10e+01 1hfc d.92.1.11 40365 1gk8A 475 3.11e+01 c.1.14.1 65234 d.58.9.1 65235 1f3jA 182 3.14e+01 1iakA b.1.1.2 21645 d.19.1.1 38219 1hlvA 131 3.18e+01 a.4.1.7 65854 a.4.1.7 65855 1hnjA 317 3.18e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1hn9A 317 3.18e+01 1hn9A c.95.1.1 35977 c.95.1.1 35978 1h4jA 599 3.21e+01 4aahA b.70.1.1 60590 1h4iA 599 3.23e+01 4aahA b.70.1.1 60586 1es0A 190 3.26e+01 1iakA b.1.1.2 21643 d.19.1.1 38217 1d9tA 289 3.31e+01 1deaA c.35.1.1 31767 1iqoA 88 3.45e+01 2nlrA 234 3.48e+01 2nlrA b.29.1.11 24344 1hcc 59 3.60e+01 1hfh g.18.1.1 44820 2iadA 194 3.69e+01 1iakA b.1.1.2 21639 d.19.1.1 38213 1pa2A 306 3.70e+01 1bgp a.93.1.1 18693 1gewA 356 3.76e+01 1gewA c.67.1.1 60470 1jv2A 957 3.76e+01 b.1.15.1 67334 b.1.15.1 67335 b.1.15.1 67336 b.69.8.1 67337 1d2rA 326 3.77e+01 1d2rB c.26.1.1 31572 1d2rB 326 3.77e+01 1d2rB c.26.1.1 31573 1l1oB 128 3.77e+01 1ehiA 377 3.78e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1quqA 129 3.79e+01 1quqA b.40.4.3 25303 1ir6A 424 3.81e+01 1mbs 153 3.82e+01 1a6m a.1.1.2 15156 1qnlA 385 3.87e+01 1pea c.93.1.1 35665 1k3eA 156 3.94e+01 d.198.1.1 68103 1nlr 234 4.00e+01 2nlrA b.29.1.11 24345